date: 26:08:2019 10:50
auto-generated-by: pronto vdev
synonymtypedef: structure "SMILES-encoded structure" EXACT
synonymtypedef: backbone_bond_atoms "Backbone bond atoms" EXACT
synonymtypedef: backbone_displaced_atoms "Backbone displaced atoms" EXACT
synonymtypedef: l_bond_atoms "Left bond atoms" EXACT
synonymtypedef: l_displaced_atoms "Left displaced atoms" EXACT
synonymtypedef: r_bond_atoms "Right bond atoms" EXACT
synonymtypedef: r_displaced_atoms "Right displaced atoms" EXACT
synonymtypedef: delta_mass "Delta mass" EXACT
synonymtypedef: delta_charge "Delta charge" EXACT

[Typedef]
id: derives_from
name: derives_from
inverse_of: 

[Typedef]
id: l_monomer
name: l_monomer
inverse_of: 

[Typedef]
id: r_monomer
name: r_monomer
inverse_of: 

[Term]
id: BpForms:alphabet
name: alphabet

[Term]
id: BpForms:monomer
name: monomeric form
synonym: "monomer" BROAD []
synonym: "residue" BROAD []

[Term]
id: BpForms:crosslink
name: crosslink

[Term]
id: BpForms:dna
name: DNA nucleotide monophosphates
def: "The canonical DNA nucleotide monophosphates, plus the non-canonical DNA nucleotide monophosphates based on <a href="https://dnamod.hoffmanlab.org">DNAmod</a> and <a href="http://repairtoire.genesilico.pl/damage/">REPAIRtoire</a>" []
is_a: BpForms:alphabet ! alphabet

[Term]
id: BpForms:dna:A
name: adenine
synonym: "2'-deoxy-5'-adenylic acid" BROAD []
synonym: "2'-deoxyadenosine-5'-monophosphate" BROAD []
synonym: "6-aminopurine" BROAD []
synonym: "A" BROAD []
synonym: "DA" BROAD []
synonym: "[(2R,3S,5R)-5-(6-aminopurin-9-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "chebi: CHEBI:16708" EXACT []
synonym: "chebi: CHEBI:58245" EXACT []
synonym: "metacyc.compound: ADENINE" EXACT []
synonym: "pdb-ccd: DA" EXACT []
synonym: "pubchem.compound: 190" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: OC1CC(OC1COP(=O)([O-])[O-])n1cnc2c1ncnc2N
l_bond_atoms: P9
l_displaced_atoms: O12-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:C
name: cytosine
synonym: "2'-deoxy-5'-cytidylic acid" BROAD []
synonym: "2'-deoxycytidine-5'-monophosphate" BROAD []
synonym: "4-amino-2-oxo-1,2-dihydropyrimidine" BROAD []
synonym: "C" BROAD []
synonym: "DC" BROAD []
synonym: "[(2R,3S,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "chebi: CHEBI:16040" EXACT []
synonym: "chebi: CHEBI:57566" EXACT []
synonym: "metacyc.compound: CYTOSINE" EXACT []
synonym: "pdb-ccd: DC" EXACT []
synonym: "pubchem.compound: 597" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: OC1CC(OC1COP(=O)([O-])[O-])n1ccc(nc1=O)N
l_bond_atoms: P9
l_displaced_atoms: O12-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:G
name: guanine
synonym: "2'-deoxy-5'-guanylic acid" BROAD []
synonym: "2'-deoxyguanosine-5'-monophosphate" BROAD []
synonym: "DG" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "chebi: CHEBI:16235" EXACT []
synonym: "chebi: CHEBI:57673" EXACT []
synonym: "metacyc.compound: GUANINE" EXACT []
synonym: "pdb-ccd: DG" EXACT []
synonym: "pubchem.compound: 764" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: OC1CC(OC1COP(=O)([O-])[O-])n1cnc2c1nc(N)[nH]c2=O
l_bond_atoms: P9
l_displaced_atoms: O12-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:T
name: thymine
synonym: "5'-thymidylic acid" BROAD []
synonym: "5-methyl-2,4(1H,3H)-pyrimidinedione" BROAD []
synonym: "5-methyluracil" BROAD []
synonym: "DT" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "chebi: CHEBI:17821" EXACT []
synonym: "chebi: CHEBI:26999" EXACT []
synonym: "metacyc.compound: THYMINE" EXACT []
synonym: "pdb-ccd: DT" EXACT []
synonym: "pubchem.compound: 1135" EXACT []
synonym: "thymidine-5'-monophosphate" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: OC1CC(OC1COP(=O)([O-])[O-])n1cc(C)c(=O)[nH]c1=O
l_bond_atoms: P9
l_displaced_atoms: O12-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:U
name: uracil
synonym: "chebi: CHEBI:17568" EXACT []
synonym: "chebi: CHEBI:246422" EXACT []
synonym: "metacyc.compound: URACIL" EXACT []
synonym: "pubchem.compound: 1174" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: OC1CC(OC1COP(=O)([O-])[O-])n1ccc(=O)[nH]c1=O
l_bond_atoms: P9
l_displaced_atoms: O12-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:dI
name: 2'-deoxyinosine-5'-monophosphate
def: "A purine 2'-deoxyribonucleoside that is inosine in which the hydroxy group at position 2' is replaced by a hydrogen." []
synonym: "2'-deoxy-5'-inosinic acid" BROAD []
synonym: "2'-deoxyinosine, 9-[(2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)tetrahydrofuran-2-yl]-9H-purin-6-ol" BROAD []
synonym: "9-(2-deoxy-beta-d-erythro-pentofuranosyl)-9h-purin-6-ol" BROAD []
synonym: "I" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(6-oxo-1H-purin-9-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "chebi: CHEBI:28997" EXACT []
synonym: "deoxyinosine" BROAD []
synonym: "dnamod: 2'-deoxyinosine" EXACT []
synonym: "pdb-ccd: DI" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)([O-])[O-])n1cnc2c1nc[nH]c2=O
l_bond_atoms: P12
l_displaced_atoms: O14-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:m2C
name: 2-methoxypyrimidin-4-amine
def: "Pyrimidine substituted with a methoxy group at position C-2 and an amine group at C-4." []
synonym: "4-amino-2-methoxypyrimidine" BROAD []
synonym: "chebi: CHEBI:70854" EXACT []
synonym: "dnamod: 2-O-methylcytosine" EXACT []
synonym: "o-2-methylcytosine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: COC1=NC(=CCN1C1CC(C(O1)COP(=O)([O-])[O-])O)N
l_bond_atoms: P16
l_displaced_atoms: O19-1
r_bond_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:dna:f
name: 4-amino-2-oxo-1,2-dihydropyrimidine-5-carbaldehyde
def: "A nucleobase analogue that is cytosine in which the hydrogen at position 5 is replaced by a formyl group." []
synonym: "2'-deoxy-5-formylcytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "4-amino-2-oxopyrimidine-5-carbaldehyde" BROAD []
synonym: "5-formyl-2'-deoxy-cytidine-5'-monophosphate" BROAD []
synonym: "5FC" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5R)-5-(4-amino-5-methanoyl-2-oxo-pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "chebi: CHEBI:76794" EXACT []
synonym: "cytosine-5-carbaldehyde" BROAD []
synonym: "dnamod: 5-formylcytosine" EXACT []
synonym: "pdb-ccd: 5FC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O=Cc1cn([C@H]2C[C@@H]([C@H](O2)COP(=O)([O-])[O-])O)c(=O)nc1N
l_bond_atoms: P16
l_displaced_atoms: O19-1
r_bond_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:dna:h
name: 4-amino-5-(hydroxymethyl)pyrimidin-2(1H)-one
def: "A nucleobase analogue that is cytosine in which the hydrogen at position 5 is replaced by a hydroxymethyl group." []
synonym: "2'-deoxy-5-(hydroxymethyl)cytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "4-amino-5-(hydroxymethyl)-2(1h)-pyrimidinone" BROAD []
synonym: "5-hydroxymethylcytosine" BROAD []
synonym: "5HC" BROAD []
synonym: "[(2R,3S,5R)-5-[4-azanyl-5-(hydroxymethyl)-2-oxidanylidene-pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "chebi: CHEBI:76792" EXACT []
synonym: "dnamod: 5-(hydroxymethyl)cytosine" EXACT []
synonym: "pdb-ccd: 5HC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: OCc1cn([C@H]2C[C@H]([C@@H](O2)COP(=O)([O-])[O-])O)c(=O)nc1N
l_bond_atoms: P16
l_displaced_atoms: O19-1
r_bond_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:dna:e3C
name: 6-amino-1-ethylpyrimidin-2(1H)-one
def: "A pyrimidone that is cytosine substituted by an ethyl group at position 3." []
synonym: "chebi: CHEBI:74029" EXACT []
synonym: "dnamod: 3-ethylcytosine" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: CCN1C(=CCN(C1=O)C1CC(C(O1)COP(=O)([O-])[O-])O)N
l_bond_atoms: P17
l_displaced_atoms: O20-1
r_bond_atoms: O21
r_displaced_atoms: H21

[Term]
id: BpForms:dna:3mC
name: 6-amino-1-methylpyrimidin-2(1H)-one
def: "A pyrimidone that is cytosine in which the hydrogen attached to the nitrogen at position 3 is substituted by a methyl group. Occurs sparsely. Repaired by a direct repair (DR) mechanism. Also repaired in RNA." []
synonym: "3-methyl-2'-deoxycytidine-5'-monophosphate" BROAD []
synonym: "3mC" BROAD []
synonym: "chebi: CHEBI:39992" EXACT []
synonym: "dnamod: 3-methylcytosine" EXACT []
synonym: "n3-methylcytosine" BROAD []
synonym: "repairtoire: 3mC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: OC1CC(OC1COP(=O)([O-])[O-])N1CC=C(N(C1=O)C)N
l_bond_atoms: P9
l_displaced_atoms: O12-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:c
name: 4-amino-2-oxo-1,2-dihydropyrimidine-5-carboxylic acid
def: "A nucleobase analogue that is cytosine in which the hydrogen at position 5 is replaced by a carboxy group." []
synonym: "4-amino-2-oxopyrimidine-5-carboxylic acid" BROAD []
synonym: "5-carboxylcytosine" BROAD []
synonym: "chebi: CHEBI:76793" EXACT []
synonym: "cytosine-5-carboxylic acid" BROAD []
synonym: "dnamod: 5-carboxycytosine" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: OC1CC(OC1COP(=O)([O-])[O-])n1cc(C(=O)[O-])c(nc1=O)N
l_bond_atoms: P9
l_displaced_atoms: O12-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:ɛC
name: imidazo[1,2-c]pyrimidin-5(6H)-one
synonym: "3,n(4)-ethanocytosine" BROAD []
synonym: "chebi: CHEBI:29147" EXACT []
synonym: "dnamod: 3,N(4)-ethenocytosine" EXACT []
synonym: "ethenocytosine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: OC1CC(OC1COP(=O)([O-])[O-])n1ccc2n(c1=O)ccn2
l_bond_atoms: P9
l_displaced_atoms: O12-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:m
name: 4-amino-5-methylpyrimidin-2(1H)-one
def: "A pyrimidine that is a derivative of cytosine, having a methyl group at the 5-position." []
synonym: "2'-deoxy-5-methylcytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "4-amino-5-methyl-2(1h)-pyrimidinone" BROAD []
synonym: "4-amino-5-methyl-2-pyrimidinol" BROAD []
synonym: "5-methyl-2'-deoxy-cytidine-5'-monophosphate" BROAD []
synonym: "5CM" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5R)-5-(4-amino-5-methyl-2-oxo-pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "chebi: CHEBI:27551" EXACT []
synonym: "dnamod: 5-methylcytosine" EXACT []
synonym: "pdb-ccd: 5CM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1C[C@@H](O[C@H]1COP(=O)([O-])[O-])n1cc(C)c(nc1=O)N
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:4mC
name: 4-(methylamino)pyrimidin-2(1H)-one
def: "A pyrimidone that is cytosine bearing an N(4)-methyl substituent. Repaired by a direct repair (DR) mechanism." []
synonym: "2'-deoxy-N-methylcytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "4-methyl-2'-deoxycytidine-5'-monophosphate" BROAD []
synonym: "4-methylamino-1h-pyrimidin-2-one" BROAD []
synonym: "4mC" BROAD []
synonym: "C" BROAD []
synonym: "C34" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(4-methylamino-2-oxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "chebi: CHEBI:21839" EXACT []
synonym: "dnamod: N(4)-methylcytosine" EXACT []
synonym: "n(4)-methylcytosine" BROAD []
synonym: "n4-methyl-2'-deoxy-cytidine-5'-monophosphate" BROAD []
synonym: "pdb-ccd: C34" EXACT []
synonym: "repairtoire: 4mC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: CNc1ccn(c(=O)n1)[C@H]1C[C@H]([C@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P20
l_displaced_atoms: O23-1
r_bond_atoms: O24
r_displaced_atoms: H24

[Term]
id: BpForms:dna:1mC
name: 4-amino-1-methylpyrimidin-2(1H)-one
def: "A pyrimidone that is cytosine in which the hydrogen attached to the nitrogen at position 1 is substituted by a methyl group." []
synonym: "chebi: CHEBI:39624" EXACT []
synonym: "dnamod: 1-methylcytosine" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: OC1CC(OC1COP(=O)([O-])[O-])[N+]1(C)C=CC(=NC1=O)N
l_bond_atoms: P9
l_displaced_atoms: O12-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:5gmC
name: (4-amino-2-oxo-1,2-dihydropyrimidin-5-yl)methyl beta-D-glucopyranoside
def: "A beta-D-glucoside derived from formal condensation of the hydroxy group of 5-(hydroxymethyl)cytosine with the anomeric hydroxy group of D-glucopyranose." []
synonym: "5-beta-d-glucosylmethylcytosine" BROAD []
synonym: "5-glucosylmethylcytosine" BROAD []
synonym: "5-gmc" BROAD []
synonym: "beta-d-glucosyl-5-hydroxymethylcytosine" BROAD []
synonym: "beta-glucosyl-5-hydroxymethylcytosine" BROAD []
synonym: "chebi: CHEBI:131616" EXACT []
synonym: "dnamod: 5-(beta-D-glucosylmethyl)cytosine" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: OC[C@H]1O[C@@H](OCc2cn(C3CC(C(O3)COP(=O)([O-])[O-])O)c(=O)[nH]c2=N)[C@@H]([C@H]([C@@H]1O)O)O
l_bond_atoms: P20
l_displaced_atoms: O23-1
r_bond_atoms: O24
r_displaced_atoms: H24

[Term]
id: BpForms:dna:putThy
name: 5-{[(4-aminobutyl)amino]methyl}pyrimidine-2,4(1H,3H)-dione
def: "An N-substituted putrescine that is thymine in which a hydrogen of the methyl group has been replaced by one of the amino groups of putrescine. It replaces about half of the thymine residues in the DNA of bacetriophage phiW-14." []
synonym: "5-(4-aminobutylaminomethyl)uracil" BROAD []
synonym: "chebi: CHEBI:132931" EXACT []
synonym: "dnamod: alpha-putrescinylthymine" EXACT []
synonym: "n-thyminylputrescine" BROAD []
synonym: "putthy" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: [NH3+]CCCC[NH2+]Cc1cn(C2OC(C(C2)O)COP(=O)([O-])[O-])c(=O)[nH]c1=O
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O21
r_displaced_atoms: H21

[Term]
id: BpForms:dna:diHT
name: 5,6-dihydrothymine, 5-methyldihydropyrimidine-2,4(1H,3H)-dione
def: "A pyrimidone obtained by formal addition of hydrogen across the 5,6-position of thymine." []
synonym: "5,6-dihydro-5-methyluracil" BROAD []
synonym: "5-methyl-5,6-dihydrouracil" BROAD []
synonym: "chebi: CHEBI:27468" EXACT []
synonym: "dihydrothymine" BROAD []
synonym: "dnamod: 5,6-dihydrothymine" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: OC1CC(OC1COP(=O)([O-])[O-])N1CC(C)C(=O)NC1=O
l_bond_atoms: P9
l_displaced_atoms: O12-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:e
name: 2,4-dioxo-1,2,3,4-tetrahydropyrimidine-5-carbaldehyde
def: "A pyrimidone resulting from the formal oxidation of the alcoholic hydroxy group of 5-hydroxymethyluracil to the corresponding aldehyde. It is a major one-electron photooxidation product of thymine in oligodeoxynucleotides." []
synonym: "5fu" BROAD []
synonym: "chebi: CHEBI:80961" EXACT []
synonym: "dnamod: 5-formyluracil" EXACT []
synonym: "fou" BROAD []
synonym: "uracil 5-carbaldehyde" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O=Cc1cn(C2CC(C(O2)COP(=O)([O-])[O-])O)c(=O)[nH]c1=O
l_bond_atoms: P13
l_displaced_atoms: O16-1
r_bond_atoms: O17
r_displaced_atoms: H17

[Term]
id: BpForms:dna:3mT
name: 3,5-dimethylpyrimidine-2,4(1H,3H)-dione
def: "A pyrimidone that is uracil with methyl group substituents at positions 3 and 5. Repaired by a direct repair (DR) mechanism." []
synonym: "3-methyl-2'-deoxythymidine-5'-monophosphate" BROAD []
synonym: "3-methylthymine" BROAD []
synonym: "3mT" BROAD []
synonym: "chebi: CHEBI:74766" EXACT []
synonym: "dnamod: 3,5-dimethyluracil" EXACT []
synonym: "repairtoire: 3mT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: OC1CC(OC1COP(=O)([O-])[O-])n1cc(C)c(=O)n(c1=O)C
l_bond_atoms: P9
l_displaced_atoms: O12-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:O4-meT
name: 4-methoxy-5-methylpyrimidin-2(1H)-one
def: "A methylthymine in which the methyl group is located at the O4-position." []
synonym: "4-methoxy-5-methylpyrimidin-2-one" BROAD []
synonym: "chebi: CHEBI:134100" EXACT []
synonym: "dnamod: O(4)-methylthymine" EXACT []
synonym: "o-4-methylthymine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: COc1nc(=O)n(cc1C)C1CC(C(O1)COP(=O)([O-])[O-])O
l_bond_atoms: P18
l_displaced_atoms: O21-1
r_bond_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:dna:1mT
name: 1,5-dimethylpyrimidine-2,4(1H,3H)-dione
def: "A pyrimidone that is uracil with methyl group substituents at positions 1 and 5." []
synonym: "1-methylthymine" BROAD []
synonym: "chebi: CHEBI:74765" EXACT []
synonym: "dnamod: 1,5-dimethyluracil" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: OC1CC(OC1COP(=O)([O-])[O-])[N+]1(C)C=C(C)C(=O)NC1=O
l_bond_atoms: P9
l_displaced_atoms: O12-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:6hmA
name: (9H-purin-6-ylamino)methanol
def: "A 6-alkylaminopurine that is adenine where one of the hydrogens of the amino group is replaced by a hydroxymethyl group." []
synonym: "chebi: CHEBI:142766" EXACT []
synonym: "dnamod: 6-hydroxymethyladenine" EXACT []
synonym: "n(6)-hydroxymethyl-adenine" BROAD []
synonym: "n(6)-hydroxymethyladenine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: OCNc1ncnc2c1ncn2C1CC(C(O1)COP(=O)([O-])[O-])O
l_bond_atoms: P20
l_displaced_atoms: O23-1
r_bond_atoms: O24
r_displaced_atoms: H24

[Term]
id: BpForms:dna:ncm6A
name: N(2)-1H-purin-6-ylglycinamide
def: "A nucleobase analogue that is adenine in which one of the exocyclic amino hydrogens is replaced by a carbamoylmethyl group." []
synonym: "2-(9h-purin-6-ylamino)acetamide" BROAD []
synonym: "chebi: CHEBI:102525" EXACT []
synonym: "dnamod: N(6)-carbamoylmethyladenine" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: NC(=O)CNc1ncnc2c1ncn2C1CC(C(O1)COP(=O)([O-])[O-])O
l_bond_atoms: P22
l_displaced_atoms: O25-1
r_bond_atoms: O26
r_displaced_atoms: H26

[Term]
id: BpForms:dna:6-DMA
name: N,N-dimethyl-9H-purin-6-amine
def: "A tertiary amine that is adenine substituted at N-6 by geminal methyl groups." []
synonym: "6-(dimethylamino)purine" BROAD []
synonym: "6-dimethyladenine" BROAD []
synonym: "6-dimethylaminopurine" BROAD []
synonym: "chebi: CHEBI:60281" EXACT []
synonym: "dnamod: N(6),N(6)-dimethyladenine" EXACT []
synonym: "n(6),n(6)-dimethyladenine" BROAD []
synonym: "n(6)-dimethyladenine" BROAD []
synonym: "n,n-dimethyl-1h-purin-6-amine" BROAD []
synonym: "n,n-dimethyl-6-aminopurine" BROAD []
synonym: "n,n-dimethyladenine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: OC1CC(OC1COP(=O)([O-])[O-])n1cnc2c1ncnc2N(C)C
l_bond_atoms: P9
l_displaced_atoms: O12-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:m2A
name: 
def: "A member of the class of 2,6-diaminopurines that is 9H-purine in which the hydrogens at positions 2 and 6 are replaced by amino groups." []
synonym: "2,6-diaminopurine" BROAD []
synonym: "2-aminoadenine" BROAD []
synonym: "9h-purine-2,6-diamine" BROAD []
synonym: "chebi: CHEBI:40235" EXACT []
synonym: "dnamod: 9H-purine-2,6-diamine" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: Nc1nc(N)c2c(n1)n(cn2)C1OC(C(C1)O)COP(=O)([O-])[O-]
l_bond_atoms: P20
l_displaced_atoms: O23-1
r_bond_atoms: O17
r_displaced_atoms: H17

[Term]
id: BpForms:dna:HAP
name: N-hydroxy-1H-purin-6-amine
def: "A member of the class of 6-aminopurinnes that is adenine in which one of the exocyclic amino hydrogens is replaced by a hydroxy group." []
synonym: "6-hydroxyaminopurine" BROAD []
synonym: "6-hydroxylaminopurine" BROAD []
synonym: "6-n-hydroxylaminopurine" BROAD []
synonym: "chebi: CHEBI:78235" EXACT []
synonym: "dnamod: N(6)-hydroxyadenine" EXACT []
synonym: "hap" BROAD []
synonym: "n(6)-hydroxyadenine" BROAD []
synonym: "n-(7h-purin-6-yl)hydroxylamine" BROAD []
synonym: "n-hydroxyadenine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: ONc1ncnc2c1ncn2C1CC(C(O1)COP(=O)([O-])[O-])O
l_bond_atoms: P19
l_displaced_atoms: O22-1
r_bond_atoms: O23
r_displaced_atoms: H23

[Term]
id: BpForms:dna:AHAP
name: N(6)-hydroxy-3H-purine-2,6-diamine
def: "A 2,6-diaminopurine that is the N(6)-hydroxy derivative of 2,6-diamino-3H-purine." []
synonym: "2-amino-n(6)-hydroxyadenine" BROAD []
synonym: "2-amino-n6-hydroxyadenine" BROAD []
synonym: "chebi: CHEBI:78685" EXACT []
synonym: "dnamod: 2-amino-6-hydroxyaminopurine" EXACT []
synonym: "guanine oxime" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: ONc1nc(N)nc2c1ncn2C1CC(C(O1)COP(=O)([O-])[O-])O
l_bond_atoms: P20
l_displaced_atoms: O23-1
r_bond_atoms: O24
r_displaced_atoms: H24

[Term]
id: BpForms:dna:a
name: N-methyl-9H-purin-6-amine
def: "A methyladenine that is 9H-purin-6-amine substituted by a methyl group at the amino nitrogen." []
synonym: "6-map" BROAD []
synonym: "6-methylaminopurine" BROAD []
synonym: "chebi: CHEBI:28871" EXACT []
synonym: "dnamod: 6-methyladenine" EXACT []
synonym: "n6-methyladenine" BROAD []
synonym: "n6-monomethyladenine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: CNc1ncnc2c1ncn2C1CC(C(O1)COP(=O)([O-])[O-])O
l_bond_atoms: P19
l_displaced_atoms: O22-1
r_bond_atoms: O23
r_displaced_atoms: H23

[Term]
id: BpForms:dna:4mA
name: 4-methyl-4,7-dihydro-1H-purin-6-amine
def: "A methyladenine in which the methyl substituent is located at position 4." []
synonym: "chebi: CHEBI:134106" EXACT []
synonym: "dnamod: 4-methyladenine" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: OC1CC(OC1COP(=O)([O-])[O-])N1C=NC2=C(N=CNC12C)N
l_bond_atoms: P9
l_displaced_atoms: O12-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:1mA
name: 1-methyl-1H-purin-6-amine
def: "Adenine substituted with a methyl group at position N-1. Occurs sparsely. Repaired by a direct repair (DR) mechanism. Also repaired in RNA." []
synonym: "1-methyl-2'-deoxyadenosine-5'-monophosphate" BROAD []
synonym: "1mA" BROAD []
synonym: "chebi: CHEBI:18083" EXACT []
synonym: "dnamod: 1-methyladenine" EXACT []
synonym: "n1-methyladenine" BROAD []
synonym: "repairtoire: 1mA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: OC1CC(OC1COP(=O)([O-])[O-])N1C=NC2=C(N(C=NC12)C)N
l_bond_atoms: P9
l_displaced_atoms: O12-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:7mA
name: 7-methyl-7H-purin-6-amine
def: "Adenine substituted with a methyl group at position N-7. Occurs sparsely. AlkB activity not confirmed." []
synonym: "7-methyl-2'-deoxyadenosine-5'-monophosphate" BROAD []
synonym: "7mA" BROAD []
synonym: "chebi: CHEBI:28921" EXACT []
synonym: "dnamod: 7-methyladenine" EXACT []
synonym: "repairtoire: 7mA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: OC1CC(OC1COP(=O)([O-])[O-])N1CN(c2c1nc[nH+]c2N)C
l_bond_atoms: P9
l_displaced_atoms: O12-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:9mA
name: 9-methyl-9H-purin-6-amine
def: "Adenine substituted with a methyl group at position N-9." []
synonym: "chebi: CHEBI:40526" EXACT []
synonym: "dnamod: 9-methyladenine" EXACT []
synonym: "n9-methyladenine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: OC1CC(OC1COP(=O)([O-])[O-])[N+]1(C)C=Nc2c1ncnc2N
l_bond_atoms: P9
l_displaced_atoms: O12-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:3mA
name: 3-methyl-3H-purin-6-amine, 3-methyladenine
def: "A  methyladenine that is adenine substituted with a methyl group at position N-3. Occurs frequently. Repaired by direct repair (DR) mechanisms. AlkB activity not confirmed. Also repaired by the BER pathway." []
synonym: "3-methyl-2'-deoxyadenosine-5'-monophosphate" BROAD []
synonym: "3-methyl-3h-adenine" BROAD []
synonym: "3-methyl-3h-purin-6-ylamine" BROAD []
synonym: "3mA" BROAD []
synonym: "6-amino-3-methylpurine" BROAD []
synonym: "chebi: CHEBI:38635" EXACT []
synonym: "dnamod: 3-methyladenine" EXACT []
synonym: "repairtoire: 3mA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: OC1CC(OC1COP(=O)([O-])[O-])N1C=NC2=C([NH+]=CN(C12)C)N
l_bond_atoms: P9
l_displaced_atoms: O12-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:o
name: 2-amino-1H-purine-6,8-dione
def: "An oxopurine that is guanine which is substituted by an oxo group at position 8." []
synonym: "chebi: CHEBI:44605" EXACT []
synonym: "dnamod: 8-oxoguanine" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: OC1CC(OC1COP(=O)([O-])[O-])N1C(=O)N=C2C1N=C(N)NC2=O
l_bond_atoms: P9
l_displaced_atoms: O12-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:CEG
name: N-(6-oxo-6,9-dihydro-1H-purin-2-yl)alanine
def: "An alanine derivative consisting of alanine having a 6-oxo-6,9-dihydro-1H-purin-2-yl group attached to the amino function." []
synonym: "ceguanine" BROAD []
synonym: "chebi: CHEBI:62032" EXACT []
synonym: "dnamod: N(2)-carboxyethylguanine" EXACT []
synonym: "n(2)-(1-carboxyethyl)guanine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: [O-]C(=O)C(Nc1[nH]c(=O)c2c(n1)n(cn2)C1CC(C(O1)COP(=O)([O-])[O-])O)C
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O28
r_displaced_atoms: H28

[Term]
id: BpForms:dna:N(2),3-ɛG
name: 1H-imidazo(2,1-b)purin-4(5H)-one
def: "A nucleobase analogue obtained by addition of an etheno group across positions N2 and 3 of guanine." []
synonym: "chebi: CHEBI:134095" EXACT []
synonym: "dnamod: N(2),3-ethenoguanine" EXACT []
synonym: "n(2),3-epsilong" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: OC1CC(OC1COP(=O)([O-])[O-])[N+]12C=CN=C1NC(=O)c1c2[nH]cn1
l_bond_atoms: P9
l_displaced_atoms: O12-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:1,N(2)-ɛG
name: 1,4-dihydro-9H-imidazo[1,2-a]purin-9-one
def: "A nucleobase analogue obtained by addition of an etheno group across positions 1 and N2 of guanine." []
synonym: "1,n(2)-epsilong" BROAD []
synonym: "1,n(2)-ethenoguanine" BROAD []
synonym: "chebi: CHEBI:134096" EXACT []
synonym: "dnamod: 1,N(2)-ethenoguanine" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: OC1CC(OC1COP(=O)([O-])[O-])n1cnc2c1[nH]c1nccn1c2=O
l_bond_atoms: P9
l_displaced_atoms: O12-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:1mG
name: 2-amino-1-methyl-1,9-dihydro-6H-purin-6-one
def: "Repaired by a direct repair (DR) mechanism." []
synonym: "1-methyl-2'-deoxyguanosine-5'-monophosphate" BROAD []
synonym: "1mG" BROAD []
synonym: "2'-deoxy-1-methylguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "MG1" BROAD []
synonym: "[(2R,3S,5R)-5-(2-amino-1-methyl-6-oxo-purin-9-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "chebi: CHEBI:21803" EXACT []
synonym: "dnamod: 1-methylguanine" EXACT []
synonym: "n1-methylguanine" BROAD []
synonym: "pdb-ccd: MG1" EXACT []
synonym: "repairtoire: 1mG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)([O-])[O-])n1cnc2c1nc(N)n(c2=O)C
l_bond_atoms: P12
l_displaced_atoms: O14-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:m6G
name: 6-methoxy-7H-purin-2-amine
def: "A methylguanine in which the methyl group is positioned on the oxygen at position 6. Formed in DNA by alkylation of the oxygen atom of guanine, most often by N-nitroso compounds and sometimes due to methylation by other compounds such as endogenous S-adenosylmethionine, it base-pairs to thymine rather than cytidine, causing a G:C to A:T transition in DNA." []
synonym: "2-amino-6-methoxypurine" BROAD []
synonym: "6-methoxy-1h-purine-2-amine" BROAD []
synonym: "6-methoxyguanine" BROAD []
synonym: "6-o-methyl guanosine-5'-monophosphate" BROAD []
synonym: "6OG" BROAD []
synonym: "9-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-6-methoxy-9H-purin-2-amine" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-5-(2-azanyl-6-methoxy-purin-9-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "chebi: CHEBI:20689" EXACT []
synonym: "dnamod: 6-O-methylguanine" EXACT []
synonym: "o(6)-methylguanine" BROAD []
synonym: "o-(6)-methylguanine" BROAD []
synonym: "pdb-ccd: 6OG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: COc1nc(N)nc2c1ncn2[C@H]1C[C@@H]([C@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P23
l_displaced_atoms: O26-1
r_bond_atoms: O27
r_displaced_atoms: H27

[Term]
id: BpForms:dna:2mG
name: 2-(methylamino)-1,7-dihydro-6H-purin-6-one
def: "A methylguanine in which the methyl group is located at the N2-position." []
synonym: "1,7-dihydro-2-(methylamino)-6h-purin-6-one" BROAD []
synonym: "2-methyl-2'-deoxyguanosine-5'-monophosphate" BROAD []
synonym: "2-methylamino-6-oxopurine" BROAD []
synonym: "2-methylguanine" BROAD []
synonym: "2mG" BROAD []
synonym: "chebi: CHEBI:21818" EXACT []
synonym: "dnamod: N(2)-methylguanine" EXACT []
synonym: "n-methyl-guanine" BROAD []
synonym: "repairtoire: 2mG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: CNc1[nH]c(=O)c2c(n1)n(cn2)C1CC(C(O1)COP(=O)([O-])[O-])O
l_bond_atoms: P21
l_displaced_atoms: O24-1
r_bond_atoms: O25
r_displaced_atoms: H25

[Term]
id: BpForms:dna:dhpUra
name: 5-(4,5-dihydroxypentyl)pyrimidine-2,4(1H,3H)-dione
def: "A nucleobase analogue that is uracil substituted at position 5 by a 4,5-dihydroxypentyl group." []
synonym: "chebi: CHEBI:132195" EXACT []
synonym: "dnamod: 5-(4,5-dihydroxypentyl)uracil" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:U ! uracil
structure: OCC(CCCc1cn(C2CC(C(O2)COP(=O)([O-])[O-])O)c(=O)[nH]c1=O)O
l_bond_atoms: P17
l_displaced_atoms: O20-1
r_bond_atoms: O21
r_displaced_atoms: H21

[Term]
id: BpForms:dna:b
name: 2,4-dioxo-1,2,3,4-tetrahydropyrimidine-5-carboxylic acid
synonym: "2,4-dihydroxy-5-pyrimidinecarboxylic acid" BROAD []
synonym: "5-carboxyuracil" BROAD []
synonym: "chebi: CHEBI:17477" EXACT []
synonym: "dnamod: uracil-5-carboxylic acid" EXACT []
synonym: "isoorotic acid" BROAD []
synonym: "steviolbioside" BROAD []
synonym: "uracil 5-carboxylate" BROAD []
synonym: "uracil 5-carboxylic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:U ! uracil
structure: OC1CC(OC1COP(=O)([O-])[O-])n1cc(C(=O)[O-])c(=O)[nH]c1=O
l_bond_atoms: P9
l_displaced_atoms: O12-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:g
name: 5-(hydroxymethyl)pyrimidine-2,4(1H,3H)-dione
def: "A primary alcohol that is uracil bearing a hydroxymethyl substituent at the 5-position." []
synonym: "5-(hydroxymethyl)-2,4(1h,3h)-pyrimidinedione" BROAD []
synonym: "5-(hydroxymethyl)uracil" BROAD []
synonym: "5-hydroxymethyl uracil" BROAD []
synonym: "chebi: CHEBI:16964" EXACT []
synonym: "dnamod: 5-hydroxymethyluracil" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:U ! uracil
structure: OCc1cn(C2CC(C(O2)COP(=O)([O-])[O-])O)c(=O)[nH]c1=O
l_bond_atoms: P13
l_displaced_atoms: O16-1
r_bond_atoms: O17
r_displaced_atoms: H17

[Term]
id: BpForms:dna:1,N2-ethenoG
name: 1,N2-etheno-2'-deoxyguanosine-5'-monophosphate
def: "Arise as side products of lipid peroxidation under oxidative stress. exocyclic adducts are repaired with an epoxide intermediate, that is hydrolyzed to the repaired base + CHO-CHO." []
synonym: "repairtoire: 1,N2-ethenoG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1cnc2c1nc1[nH]ccn1c2=O
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:1,N6-ethenoA
name: 1,N6-etheno-2'-deoxyadenosine-5'-monophosphate
synonym: "repairtoire: 1,N6-ethenoA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1cnc2c1nc[n+]1c2[nH]cc1
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:1eA
name: 1-ethyl-2'-deoxyadenosine-5'-monophosphate
synonym: "repairtoire: 1eA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: CC[n+]1cnc2c(c1N)ncn2[C@H]1C[C@@H]([C@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P23
l_displaced_atoms: O26-1
r_bond_atoms: O27
r_displaced_atoms: H27

[Term]
id: BpForms:dna:1heA
name: 1-hydroxyethyl-2'-deoxyadenosine-5'-monophosphate
synonym: "repairtoire: 1heA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: OCC[n+]1cnc2c(c1N)ncn2[C@H]1C[C@@H]([C@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O28
r_displaced_atoms: H28

[Term]
id: BpForms:dna:1hpA
name: 1-hydroxypropyl-2'-deoxyadenosine-5'-monophosphate
synonym: "repairtoire: 1hpA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: OCCC[n+]1cnc2c(c1N)ncn2[C@H]1C[C@@H]([C@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O29
r_displaced_atoms: H29

[Term]
id: BpForms:dna:1pA
name: 1-propyl-2'-deoxyadenosine-5'-monophosphate
synonym: "repairtoire: 1pA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: CCC[n+]1cnc2c(c1N)ncn2[C@H]1C[C@@H]([C@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O28
r_displaced_atoms: H28

[Term]
id: BpForms:dna:dU
name: 2'-deoxyuridine-5'-monophosphate
def: "A pyrimidine 2'-deoxyribonucleoside having uracil as the nucleobase. Cysteine spontaneously loses an amine group, which is replaced by a keto group at the C4-atom. This reaction occurs spontaneously and all the time, and is the reason why T is used in DNA. This way, dU and T can be distinguished from each other." []
synonym: "1-(2-deoxy-beta-D-erythro-pentofuranosyl)uracil" BROAD []
synonym: "2'-deoxy-5'-uridylic acid" BROAD []
synonym: "2'-deoxyuridine" BROAD []
synonym: "2'-deoxyuridine-5'-monophosphate" BROAD []
synonym: "2-deoxyuridine" BROAD []
synonym: "DU" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,5R)-5-(2,4-dioxopyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "chebi: CHEBI:16450" EXACT []
synonym: "dU" BROAD []
synonym: "deoxyuridine" BROAD []
synonym: "dnamod: 2'-deoxyuridine" EXACT []
synonym: "pdb-ccd: DU" EXACT []
synonym: "repairtoire: dU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)([O-])[O-])n1ccc(=O)[nH]c1=O
l_bond_atoms: P12
l_displaced_atoms: O14-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:3,N4-ethenoC
name: 3,N4-etheno-2'-deoxycytidine-5'-monophosphate
synonym: "6-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)imidazo[1,2-c]pyrimidin-5(6H)-one" BROAD []
synonym: "EDC" BROAD []
synonym: "[(2R,3S,5R)-3-oxidanyl-5-(5-oxidanylideneimidazo[1,2-c]pyrimidin-6-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "n3,n4-etheno-2'-deoxycytidine-5'-monophosphate" BROAD []
synonym: "pdb-ccd: EDC" EXACT []
synonym: "repairtoire: 3,N4-ethenoC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@@H](O[C@H]1COP(=O)([O-])[O-])n1ccc2n(c1=O)ccn2
l_bond_atoms: P12
l_displaced_atoms: O14-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:3eC
name: 3-ethyl-2'-deoxycytidine-5'-monophosphate
synonym: "repairtoire: 3eC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: CC[n+]1c(N)ccn(c1=O)[C@H]1C[C@@H]([C@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P21
l_displaced_atoms: O24-1
r_bond_atoms: O25
r_displaced_atoms: H25

[Term]
id: BpForms:dna:3heC
name: 3-hydroxyethyl-2'-deoxycytidine-5'-monophosphate
synonym: "repairtoire: 3heC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: OCC[n+]1c(N)ccn(c1=O)[C@H]1C[C@@H]([C@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P22
l_displaced_atoms: O25-1
r_bond_atoms: O26
r_displaced_atoms: H26

[Term]
id: BpForms:dna:3hpC
name: 3-hydroxypropyl-2'-deoxycytidine-5'-monophosphate
synonym: "repairtoire: 3hpC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: OCCC[n+]1c(N)ccn(c1=O)[C@H]1C[C@@H]([C@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P23
l_displaced_atoms: O26-1
r_bond_atoms: O27
r_displaced_atoms: H27

[Term]
id: BpForms:dna:3mG
name: 3-methyl-2'-deoxyguanosine-5'-monophosphate
def: "Occurs sparsely." []
synonym: "repairtoire: 3mG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1cnc2c1[n+](C)c([nH]c2=O)N
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:3pC
name: 3-propyl-2'-deoxycytidine-5'-monophosphate
synonym: "repairtoire: 3pC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: CCC[n+]1c(N)ccn(c1=O)[C@H]1C[C@@H]([C@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P22
l_displaced_atoms: O25-1
r_bond_atoms: O26
r_displaced_atoms: H26

[Term]
id: BpForms:dna:thymidine glycol
name: 5,6-dihydroxy-5,6-dihydrothymidine-5'-monophosphate
def: "One of the principal DNA lesions induced by oxidation and ionizing radiation, has been investigated in Escherichia coli. Thymine glycol was positioned at a unique site in the single-stranded genome of a bacteriophage M13mp19 derivative. Replication of the genome in E. coli yielded targeted mutations at a frequency of 0.3%; the mutations were exclusively T to C transitions." []
synonym: "(5r,6s)-5,6-dihydro-5,6-dihydroxythymidine-5'-monophosphate" BROAD []
synonym: "5,6-dihydroxythymidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "CTG" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3S,5R)-5-[(5R,6S)-5,6-dihydroxy-5-methyl-2,4-dioxo-1,3-diazinan-1-yl]-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: CTG" EXACT []
synonym: "repairtoire: thymidine glycol" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@@H]1C[C@@H](O[C@H]1COP(=O)([O-])[O-])N1C(=O)NC(=O)[C@]([C@H]1O)(C)O
l_bond_atoms: P12
l_displaced_atoms: O14-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:6mA
name: 6-methyl-2'-deoxyadenosine-5'-monophosphate
def: "AlkB activity not confirmed" []
synonym: "2'-deoxy-N-methyladenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "6MA" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[6-(methylamino)purin-9-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "n6-methyl-deoxy-adenosine-5'-monophosphate" BROAD []
synonym: "pdb-ccd: 6MA" EXACT []
synonym: "repairtoire: 6mA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: CNc1ncnc2c1ncn2[C@@H]1C[C@@H]([C@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P22
l_displaced_atoms: O24-1
r_bond_atoms: O26
r_displaced_atoms: H26

[Term]
id: BpForms:dna:7mG
name: 7-methyl-2'-deoxyguanosine-5'-monophosphate
def: "Occurs frequently." []
synonym: "repairtoire: 7mG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1c[n+](c2c1nc(N)[nH]c2=O)C
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:8mG
name: 8-methyl-2'-deoxyguanosine-5'-monophosphate
def: "Repaired by a direct repair (DR) mechanism." []
synonym: "repairtoire: 8mG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1c(C)nc2c1nc(N)[nH]c2=O
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:O2mT
name: O2-methyl-2'-deoxythymidine-5'-monophosphate
def: "AlkB activity not confirmed." []
synonym: "repairtoire: O2mT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: CO[C@@H]1NC(=O)C(=CN1[C@H]1C[C@@H]([C@H](O1)COP(=O)([O-])[O-])O)C
l_bond_atoms: P21
l_displaced_atoms: O24-1
r_bond_atoms: O25
r_displaced_atoms: H25

[Term]
id: BpForms:dna:O4mT
name: O4-methyl-2'-deoxythymidine-5'-monophosphate
def: "Occurs sparsely. Repaired by the NER pathway." []
synonym: "repairtoire: O4mT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: CO[C@@H]1NC(=O)N(C=C1C)[C@H]1C[C@@H]([C@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P22
l_displaced_atoms: O25-1
r_bond_atoms: O26
r_displaced_atoms: H26

[Term]
id: BpForms:dna:O6mG
name: O6-methyl-2'-deoxyguanosine-5'-monophosphate
def: "Occurs frequently. Repaired by a direct repair (DR) mechanism." []
synonym: "repairtoire: O6mG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: CO[C@@H]1NC(=[NH+]c2c1ncn2[C@H]1C[C@@H]([C@H](O1)COP(=O)([O-])[O-])O)N
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O28
r_displaced_atoms: H28

[Term]
id: BpForms:dna:02I
name: (6s,7s,8s,10r)-4-amino-8-hydroxy-7,8,9,10-tetrahydro-6h-7,10-epoxyazepino[1,2-e]purin-6-yl dihydrogen phosphate
synonym: "(6S,7S,8S,10R)-4-amino-8-hydroxy-7,8,9,10-tetrahydro-6H-7,10-epoxyazepino[1,2-e]purin-6-yl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 02I" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@H]2O[C@@H]1[C@@H](OP(=O)([O-])[O-])c1n2c2ncnc(c2n1)N
l_bond_atoms: P13
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:0AD
name: 2'-deoxy-n-propylguanosine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-N-propylguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(6-oxo-2-propylamino-1H-purin-9-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 0AD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: CCCNc1[nH]c(=O)c2c(n1)n(cn2)[C@@H]1C[C@@H]([C@H](O1)COP(=O)(O)O)O

[Term]
id: BpForms:dna:0AP
name: 2'-deoxycytidine 3',5'-bis(dihydrogen phosphate)
synonym: "2'-deoxycytidine 3',5'-bis(dihydrogen phosphate)" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-3-phosphonooxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 0AP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: Nc1ccn(c(=O)n1)[C@@H]1C[C@@H]([C@H](O1)COP(=O)(O)O)OP(=O)(O)O

[Term]
id: BpForms:dna:0KZ
name: [(1r,2s,4s,5s)-2-hydroxy-4-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)bicyclo[3.1.0]hex-1-yl]methyl dihydrogen phosphate
synonym: "[(1R,2S,4S,5S)-2-hydroxy-4-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)bicyclo[3.1.0]hex-1-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(1S,2S,4S)-2-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-4-oxidanyl-5-bicyclo[3.1.0]hexanyl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 0KZ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@H]([C@@H]2[C@@]1(COP(=O)(O)O)C2)n1cc(C)c(=O)[nH]c1=O

[Term]
id: BpForms:dna:0R8
name: [(2s,5r)-5-{4-amino-5-[(4-ethynylphenyl)ethynyl]-2-oxopyrimidin-1(2h)-yl}tetrahydrofuran-2-yl]methyl dihydrogen phosphate
synonym: "[(2S,5R)-5-[4-azanyl-5-[2-(4-ethynylphenyl)ethynyl]-2-oxidanylidene-pyrimidin-1-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(2S,5R)-5-{4-amino-5-[(4-ethynylphenyl)ethynyl]-2-oxopyrimidin-1(2H)-yl}tetrahydrofuran-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 0R8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: C#Cc1ccc(cc1)C#Cc1cn([C@H]2CC[C@@H](O2)COP(=O)([O-])[O-])c(=O)nc1N
l_bond_atoms: P23
l_displaced_atoms: O26-1

[Term]
id: BpForms:dna:18Q
name: 2'-deoxy-5-[(thiophen-2-ylmethyl)carbamoyl]uridine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-5-[(thiophen-2-ylmethyl)carbamoyl]uridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,5R)-5-[2,4-bis(oxidanylidene)-5-(thiophen-2-ylmethylcarbamoyl)pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 18Q" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1cc(C(=O)NCc2cccs2)c(=O)[nH]c1=O
l_bond_atoms: P12
l_displaced_atoms: O14-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:1AP
name: 2,6-diaminopurine nucleotide
synonym: "2-amino-2'-deoxyadenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,5R)-5-(2,6-diaminopurin-9-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 1AP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: Nc1nc(N)c2c(n1)n(cn2)[C@H]1O[C@@H]([C@@H](C1)O)COP(=O)(O)O

[Term]
id: BpForms:dna:1CC
name: 5-carboxy-2'-deoxycytidine monophosphate
synonym: "4-azanyl-2-oxidanylidene-1-[(2R,4S,5R)-4-oxidanyl-5-(phosphonooxymethyl)oxolan-2-yl]pyrimidine-5-carboxylic acid" BROAD []
synonym: "5-carboxy-2'-deoxycytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "pdb-ccd: 1CC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1C[C@@H](O[C@H]1COP(=O)(O)O)n1cc(C(=O)O)c(nc1=O)N

[Term]
id: BpForms:dna:1FC
name: 4-amino-1-(2-deoxy-2-fluoro-5-o-phosphono-beta-d-arabinofuranosyl)-2-oxo-1,2-dihydropyrimidine-5-carboxylic acid
synonym: "4-amino-1-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)-2-oxo-1,2-dihydropyrimidine-5-carboxylic acid" BROAD []
synonym: "4-azanyl-1-[(2R,3S,4R,5R)-3-fluoranyl-4-oxidanyl-5-(phosphonooxymethyl)oxolan-2-yl]-2-oxidanylidene-pyrimidine-5-carboxylic acid" BROAD []
synonym: "pdb-ccd: 1FC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1[C@@H](COP(=O)(O)O)O[C@H]([C@H]1F)n1cc(C(=O)O)c(nc1=O)N

[Term]
id: BpForms:dna:1TL
name: 1-{2,5-anhydro-6-deoxy-4-[(phosphonooxy)methyl]-alpha-l-mannofuranosyl}pyrimidine-2,4(1h,3h)-dione
synonym: "1-{2,5-anhydro-6-deoxy-4-[(phosphonooxy)methyl]-alpha-L-mannofuranosyl}pyrimidine-2,4(1H,3H)-dione" BROAD []
synonym: "[(1R,3S,4R,6R,7S)-6-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3-methyl-7-oxidanyl-2,5-dioxabicyclo[2.2.1]heptan-4-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 1TL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: C[C@H]1O[C@H]2[C@@H]([C@]1(COP(=O)([O-])[O-])O[C@@H]2n1ccc(=O)[nH]c1=O)O
l_bond_atoms: P12
l_displaced_atoms: O14-1
r_bond_atoms: O28
r_displaced_atoms: H28

[Term]
id: BpForms:dna:1TW
name: 2-amino-9-(2-se-methyl-5-o-phosphono-2-seleno-beta-d-arabinofuranosyl)-1,9-dihydro-6h-purin-6-one
synonym: "2-amino-9-(2-Se-methyl-5-O-phosphono-2-seleno-beta-D-arabinofuranosyl)-1,9-dihydro-6H-purin-6-one" BROAD []
synonym: "[(2R,3R,4S,5R)-5-(2-azanyl-6-oxidanylidene-1H-purin-9-yl)-4-methylselanyl-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 1TW" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: C[Se][C@@H]1[C@H](O)[C@@H](O[C@@H]1n1cnc2c1nc(N)[nH]c2=O)COP(=O)(O)O

[Term]
id: BpForms:dna:1W5
name: (1r)-1-(6-amino-2-hydroxy-5-nitropyridin-3-yl)-1,4-anhydro-2-deoxy-5-o-phosphono-d-erythro-pentitol
synonym: "(1R)-1-(6-amino-2-hydroxy-5-nitropyridin-3-yl)-1,4-anhydro-2-deoxy-5-O-phosphono-D-erythro-pentitol" BROAD []
synonym: "[(2~{R},3~{S},5~{R})-5-(6-azanyl-5-nitro-2-oxidanyl-pyridin-3-yl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 1W5" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)([O-])[O-])c1cc([N+](=O)[O-])c(nc1O)N
l_bond_atoms: P12
l_displaced_atoms: O15-1

[Term]
id: BpForms:dna:1WA
name: 2-amino-8-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-4-hydroxy-1h-imidazo[1,2-a][1,3,5]triazine-5,8-diium
synonym: "2-amino-8-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-4-hydroxy-1H-imidazo[1,2-a][1,3,5]triazine-5,8-diium" BROAD []
synonym: "[(2R,3S,5R)-5-(2-azanyl-4-oxidanyl-1H-imidazo[1,2-a][1,3,5]triazine-5,8-diium-8-yl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 1WA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@@H](O[C@H]1COP(=O)([O-])[O-])[n+]1cc[n+]2c1[nH]c(N)nc2O
l_bond_atoms: P12
l_displaced_atoms: O14-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:2AR
name: 2'-deoxyaristeromycin-5'-phosphate
synonym: "A" BROAD []
synonym: "[(1R,2S,4R)-4-(6-amino-9H-purin-9-yl)-2-hydroxycyclopentyl]methyl dihydrogen phosphate" BROAD []
synonym: "[(1R,2S,4R)-4-(6-aminopurin-9-yl)-2-hydroxy-cyclopentyl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2AR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: O[C@@H]1C[C@@H](C[C@@H]1COP(=O)([O-])[O-])n1cnc2c1ncnc2N
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:2BD
name: n1-(1-hydroxy-3-buten-2(s)-yl)-2'-deoxyinosine mono phosphoric acid
synonym: "2'-deoxy-1-[(1S)-1-(hydroxymethyl)prop-2-en-1-yl]inosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "I" BROAD []
synonym: "[(2R,5R)-3-hydroxy-5-[1-[(2S)-1-hydroxybut-3-en-2-yl]-6-oxo-purin-9-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2BD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:dI ! 2'-deoxyinosine-5'-monophosphate
structure: OC[C@@H](n1cnc2c(c1=O)ncn2[C@H]1C[C@H]([C@H](O1)COP(=O)([O-])[O-])O)C=C
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O29
r_displaced_atoms: H29

[Term]
id: BpForms:dna:2BU
name: (2s,3s)-n6-(2,3,4-trihydroxybutyl)-2'-deoxyadenosine mono phosphoric acid
synonym: "2'-deoxy-N-[(2R,3S)-2,3,4-trihydroxybutyl]adenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[6-[[(2R,3S)-2,3,4-trihydroxybutyl]amino]purin-9-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2BU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: OC[C@@H]([C@@H](CNc1ncnc2c1ncn2[C@H]1C[C@H]([C@H](O1)COP(=O)([O-])[O-])O)O)O
l_bond_atoms: P28
l_displaced_atoms: O31-1
r_bond_atoms: O32
r_displaced_atoms: H32

[Term]
id: BpForms:dna:2DA
name: 2',3'-dideoxyadenosine-5'-monophosphate
synonym: "A" BROAD []
synonym: "[(2S,5R)-5-(6-amino-9H-purin-9-yl)tetrahydrofuran-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(2S,5R)-5-(6-aminopurin-9-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2DA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: Nc1ncnc2c1ncn2[C@@H]1CC[C@H](O1)COP(=O)([O-])[O-]
l_bond_atoms: P20
l_displaced_atoms: O23-1

[Term]
id: BpForms:dna:2DF
name: n-(2-deoxy-beta-d-erytho-pentofuranosyl-5-phosphate) formamide
synonym: "2-deoxy-N-formyl-5-O-phosphono-beta-D-erythro-pentofuranosylamine" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,5R)-5-formamido-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2DF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O=CN[C@H]1C[C@H]([C@H](O1)COP(=O)(O)O)O

[Term]
id: BpForms:dna:2DM
name: 2-hydroxy-3-(pyren-1-ylmethoxy)propyl dihydrogen phosphate
synonym: "(2S)-2-hydroxy-3-(pyren-1-ylmethoxy)propyl dihydrogen phosphate" BROAD []
synonym: "N" BROAD []
synonym: "[(2S)-2-hydroxy-3-(pyren-1-ylmethoxy)propyl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2DM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H](COP(=O)([O-])[O-])COCc1ccc2c3c1ccc1c3c(cc2)ccc1
l_bond_atoms: P6
l_displaced_atoms: O9-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:2DT
name: 3'-deoxythymidine-5'-monophosphate
synonym: "T" BROAD []
synonym: "[(2S,5R)-5-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)tetrahydrofuran-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(2S,5R)-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2DT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O=c1[nH]c(=O)n(cc1C)[C@H]1CC[C@H](O1)COP(=O)([O-])[O-]
l_bond_atoms: P20
l_displaced_atoms: O23-1

[Term]
id: BpForms:dna:2EG
name: 2'-deoxy-n-ethylguanosine 5'-phosphate
synonym: "2'-deoxy-N-ethylguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-5-(2-ethylamino-6-oxo-1H-purin-9-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2EG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: CCNc1[nH]c(=O)c2c(n1)n(cn2)[C@@H]1C[C@@H]([C@H](O1)COP(=O)(O)O)O

[Term]
id: BpForms:dna:2FE
name: 2'-fluoro-2'-deoxy-1,n6-ethenoadenine
synonym: "3-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)-3H-imidazo[2,1-i]purine" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3R,4S,5R)-4-fluoro-3-hydroxy-5-imidazo[2,1-f]purin-3-yl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2FE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: F[C@H]1[C@H](O)[C@@H](O[C@H]1n1cnc2c1ncn1c2ncc1)COP(=O)(O)O
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:dna:2FI
name: 2'-fluoro-2'-deoxyinosine
synonym: "9-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)-1,9-dihydro-6H-purin-6-one" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3R,4S,5R)-4-fluoro-3-hydroxy-5-(6-oxo-1H-purin-9-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2FI" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1[C@H](COP(=O)(O)O)O[C@H]([C@H]1F)n1cnc2c1nc[nH]c2=O
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:2GF
name: [(2r,5r)-5-(4-amino-5-chloro-2-oxopyrimidin-1(2h)-yl)-3-oxotetrahydrofuran-2-yl]methyl dihydrogen phosphate
synonym: "[(2R,5R)-5-(4-amino-5-chloro-2-oxopyrimidin-1(2H)-yl)-3-oxotetrahydrofuran-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(2R,5R)-5-(4-azanyl-5-chloranyl-2-oxidanylidene-pyrimidin-1-yl)-3-oxidanylidene-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2GF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O=C1C[C@@H](O[C@H]1COP(=O)(O)O)n1cc(Cl)c(nc1=O)N

[Term]
id: BpForms:dna:2IA
name: 2'-deoxy-2'-iodoadenosine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-2'-iodoadenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3R,4R,5R)-5-(6-aminopurin-9-yl)-4-iodanyl-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2IA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1[C@@H](COP(=O)(O)O)O[C@@H]([C@@H]1I)n1cnc2c1ncnc2N
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:2JU
name: 2'-deoxy-5-[(naphthalen-1-ylmethyl)carbamoyl]uridine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-5-[(naphthalen-1-ylmethyl)carbamoyl]uridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,5R)-5-[5-(naphthalen-1-ylmethylcarbamoyl)-2,4-bis(oxidanylidene)pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2JU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@H](O[C@H]1COP(=O)(O)O)n1cc(C(=O)NCc2cccc3c2cccc3)c(=O)[nH]c1=O

[Term]
id: BpForms:dna:2JV
name: n-(8-aminopyren-1-yl)-2'-deoxy-5'-o-(trihydroxy-lambda~5~-phosphanyl)guanosine
synonym: "2-[(8-azanylpyren-1-yl)amino]-9-[(2R,4S,5R)-4-oxidanyl-5-[[tris(oxidanyl)-$l^{5}-phosphanyl]oxymethyl]oxolan-2-yl]-1H-purin-6-one" BROAD []
synonym: "N-(8-aminopyren-1-yl)-2'-deoxy-5'-O-(trihydroxy-lambda~5~-phosphanyl)guanosine" BROAD []
synonym: "pdb-ccd: 2JV" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@@H](O[C@@H]1COP(O)(O)O)n1cnc2c1nc([nH]c2=O)Nc1ccc2c3c1ccc1c3c(cc2)ccc1N

[Term]
id: BpForms:dna:2L8
name: [(2r,3s,5r)-3-[(1-{[(2r,3s,5r)-3-hydroxy-5-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)tetrahydrofuran-2-yl]methyl}-1h-1,2,3-triazol-4-yl)methoxy]-5-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)tetrahydrofuran-2-yl]methyl dihydrogen phosphate 
synonym: "[(2R,3S,5R)-3-[(1-{[(2R,3S,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)tetrahydrofuran-2-yl]methyl}-1H-1,2,3-triazol-4-yl)methoxy]-5-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)tetrahydrofuran-2-yl]methyl dihydrogen phosphate (non-preferred name)" BROAD []
synonym: "[(2R,3S,5R)-3-[[1-[[(2R,3S,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl]-1,2,3-triazol-4-yl]methoxy]-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2L8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@@H](O[C@H]1Cn1nnc(c1)CO[C@@H]1C[C@@H](O[C@H]1COP(=O)([O-])[O-])n1cc(C)c(=O)[nH]c1=O)n1cc(C)c(=O)[nH]c1=O
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:2LA
name: 2-amino-5-(aminomethyl)-7-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-3,7-dihydro-4h-pyrrolo[2,3-d]pyrimidin-4-one
synonym: "2-amino-5-(aminomethyl)-7-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-3,7-dihydro-4H-pyrrolo[2,3-d]pyrimidin-4-one" BROAD []
synonym: "[(2R,3S,5R)-5-[5-(aminomethyl)-2-azanyl-4-oxidanylidene-3H-pyrrolo[2,3-d]pyrimidin-7-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2LA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: NCc1cn(c2c1c(=O)[nH]c(n2)N)[C@H]1C[C@H]([C@@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O29
r_displaced_atoms: H29

[Term]
id: BpForms:dna:2LF
name: (6s,7s,8s,10r)-2-amino-8-hydroxy-4-oxo-3,6,7,8,9,10-hexahydro-4h-7,10-epoxyazepino[1,2-e]purin-6-yl dihydrogen phosphate
synonym: "(6S,7S,8S,10R)-2-amino-8-hydroxy-4-oxo-3,6,7,8,9,10-hexahydro-4H-7,10-epoxyazepino[1,2-e]purin-6-yl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2LF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@H]2O[C@H]1[C@@H](OP(=O)([O-])[O-])c1n2c2nc(N)[nH]c(=O)c2n1
l_bond_atoms: P13
l_displaced_atoms: O16-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:2PR
name: 2-amino-9-[2-deoxyribofuranosyl]-9h-purine-5'-monophosphate
synonym: "9-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-9H-purin-2-amine" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-5-(2-aminopurin-9-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2PR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)([O-])[O-])n1cnc2c1nc(N)nc2
l_bond_atoms: P12
l_displaced_atoms: O14-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:2ST
name: 5-methyl-2'-se-methyl-2'-selenouridine 5'-(dihydrogen phosphate)
synonym: "5-methyl-2'-Se-methyl-2'-selenouridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3R,4R,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)-4-methylselanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2ST" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: C[Se][C@@H]1[C@H](O)[C@H](O[C@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O27-1
r_bond_atoms: O7
r_displaced_atoms: H7

[Term]
id: BpForms:dna:3DR
name: 1',2'-dideoxyribofuranose-5'-phosphate
synonym: "1,4-anhydro-2-deoxy-5-O-phosphono-D-erythro-pentitol" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S)-3-hydroxyoxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 3DR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1CCO[C@@H]1COP(=O)([O-])[O-]
l_bond_atoms: P11
l_displaced_atoms: O14-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:3ZO
name: 2'-deoxy-xanthosine-5'-monophosphate
synonym: "2'-deoxy-5'-2,3-dihydroxanthylic acid" BROAD []
synonym: "[(2R,3S,5R)-5-[2,6-bis(oxidanylidene)-3H-purin-9-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 3ZO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O=c1[nH]c(=O)c2c([nH]1)n(cn2)[C@H]1O[C@H]([C@@H](C1)O)CO[P@@](=O)(O)[O-]

[Term]
id: BpForms:dna:47C
name: 2'-deoxy-n-(prop-2-en-1-yloxy)cytidine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-N-(prop-2-en-1-yloxy)cytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[2-oxo-4-(prop-2-enoxyamino)pyrimidin-1-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 47C" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: C=CCONc1ccn(c(=O)n1)[C@H]1C[C@@H]([C@@H](O1)COP(=O)(O)O)O

[Term]
id: BpForms:dna:4DG
name: 2-[(2-amino-6-oxo-1,6-dihydro-9h-purin-9-yl)methoxy]ethyl dihydrogen phosphate
synonym: "2-[(2-azanyl-6-oxo-1H-purin-9-yl)methoxy]ethyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 4DG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: Nc1[nH]c(=O)c2c(n1)n(COCCOP(=O)(O)O)cn2

[Term]
id: BpForms:dna:4DU
name: 1-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-1h-imidazo[4,5-c]pyridin-4-amine
synonym: "1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-1H-imidazo[4,5-c]pyridin-4-amine" BROAD []
synonym: "[(2R,3S,5R)-5-(4-azanylimidazo[4,5-c]pyridin-1-yl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 4DU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@@H](O[C@H]1COP(=O)(O)O)n1cnc2c1ccnc2N

[Term]
id: BpForms:dna:4E9
name: 2'-deoxy-8-[(7-oxo-7h-benzo[de]anthracen-3-yl)amino]guanosine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-8-[(7-oxo-7H-benzo[de]anthracen-3-yl)amino]guanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,5R)-5-[2-azanyl-6-oxidanylidene-8-[(7-oxidanylidenebenzo[a]phenalen-3-yl)amino]-1H-purin-9-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 4E9" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@@H](O[C@@H]1COP(=O)(O)O)n1c(Nc2ccc3c4c2cccc4C(=O)c2c3cccc2)nc2c1nc(N)[nH]c2=O

[Term]
id: BpForms:dna:4EN
name: [(2r,3s,5r)-5-(4-azanylpyrazolo[3,4-d]pyrimidin-2-yl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate
synonym: "[(2R,3S,5R)-5-(4-azanylpyrazolo[3,4-d]pyrimidin-2-yl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 4EN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@H](O[C@@H]1CO[P@@](=O)(O)[O-])n1nc2c(c1)c(N)ncn2
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:4JA
name: (2s)-3-[(6-deoxy-beta-d-glucopyranosyl)oxy]-2-hydroxypropyl dihydrogen phosphate
synonym: "(2S)-3-[(6-deoxy-beta-D-glucopyranosyl)oxy]-2-hydroxypropyl dihydrogen phosphate" BROAD []
synonym: "[(2S)-3-[(2R,3R,4S,5S,6R)-6-methyl-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-2-oxidanyl-propyl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 4JA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H](COP(=O)([O-])[O-])CO[C@@H]1O[C@H](C)[C@H]([C@@H]([C@H]1O)O)O
l_bond_atoms: P6
l_displaced_atoms: O9-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:4MF
name: 1-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-4-methyl-1h-indole
synonym: "1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-4-methyl-1H-indole" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(4-methylindol-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 4MF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@H](O[C@H]1COP(=O)(O)O)n1ccc2c1cccc2C

[Term]
id: BpForms:dna:4PC
name: 3-(2'-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-6-methyl-3,7-dihydro-2h-pyrrolo[2,3-d]pyrimidin-2-one
synonym: "3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-6-methyl-3,7-dihydro-2H-pyrrolo[2,3-d]pyrimidin-2-one" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(6-methyl-2-oxo-7H-pyrrolo[2,3-d]pyrimidin-3-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 4PC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)([O-])[O-])n1cc2cc([nH]c2nc1=O)C
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:4PD
name: 3-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-6-methyl-1,3-dihydro-2h-pyrrolo[2,3-d]pyrimidin-2-one
synonym: "3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-6-methyl-1,3-dihydro-2H-pyrrolo[2,3-d]pyrimidin-2-one" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(6-methyl-2-oxo-1H-pyrrolo[2,3-d]pyrimidin-3-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 4PD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)([O-])[O-])n1cc2cc(nc2[nH]c1=O)C
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:4PE
name: 3-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-6-methyl-3h-pyrrolo[2,3-d]pyrimidin-2-ol
synonym: "3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-6-methyl-3H-pyrrolo[2,3-d]pyrimidin-2-ol" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(2-hydroxy-6-methyl-pyrrolo[2,3-d]pyrimidin-3-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 4PE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)([O-])[O-])n1cc2cc(nc2nc1O)C
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:4SC
name: 4'-thio-2'-deoxycytidine-5'-monophosphate group
synonym: "2'-deoxy-5-methyl-5'-O-[oxido(oxo)phosphonio]-4'-thiocytidine" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5R)-5-[(5R)-4-amino-5-methyl-2-oxo-5,6-dihydropyrimidin-1-yl]-3-hydroxy-thiolan-2-yl]methoxy-oxido-oxo-phosphanium" BROAD []
synonym: "pdb-ccd: 4SC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: [O-][P+](=O)OC[C@H]1S[C@@H](C[C@@H]1O)N1C[C@@H](C)C(=NC1=O)N
r_bond_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:dna:4U3
name: 5-chloro-2'-deoxycytidine 5'-(dihydrogen phosphate)
synonym: "5-chloro-2'-deoxycytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,5R)-5-(4-azanyl-5-chloranyl-2-oxidanylidene-pyrimidin-1-yl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 4U3" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1cc(Cl)c(nc1=O)N
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:5AT
name: 5'-amino-5'-deoxythymidine
synonym: "1-[(2R,4S,5R)-5-(aminomethyl)-4-hydroxy-oxolan-2-yl]-5-methyl-pyrimidine-2,4-dione" BROAD []
synonym: "5'-amino-5'-deoxythymidine" BROAD []
synonym: "T" BROAD []
synonym: "pdb-ccd: 5AT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: NC[C@H]1O[C@H](C[C@@H]1O)n1cc(C)c(=O)[nH]c1=O
r_bond_atoms: O11
r_displaced_atoms: H11

[Term]
id: BpForms:dna:5DB
name: 1-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-4-methoxy-5-methylpyrimidin-2(1h)-one
synonym: "1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-4-methoxy-5-methylpyrimidin-2(1H)-one" BROAD []
synonym: "[(2R,3S,5R)-5-(4-methoxy-5-methyl-2-oxidanylidene-pyrimidin-1-yl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 5DB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: COc1nc(=O)n(cc1C)[C@H]1C[C@@H]([C@H](O1)COP(=O)(O)O)O

[Term]
id: BpForms:dna:5EJ
name: 1-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-4-ethoxy-5-methylpyrimidin-2(1h)-one
synonym: "1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-4-ethoxy-5-methylpyrimidin-2(1H)-one" BROAD []
synonym: "[(2R,3S,5R)-5-(4-ethoxy-5-methyl-2-oxidanylidene-pyrimidin-1-yl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 5EJ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: CCOc1nc(=O)n(cc1C)[C@H]1C[C@H]([C@H](O1)COP(=O)(O)O)O

[Term]
id: BpForms:dna:5HT
name: 5-hydroxy-thymidine
synonym: "(5R)-5-hydroxy-1-[(2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-5-methyl-1,3-diazinane-2,4-dione" BROAD []
synonym: "5-hydroxythymidine" BROAD []
synonym: "T" BROAD []
synonym: "pdb-ccd: 5HT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: OC[C@H]1O[C@@H](C[C@@H]1O)N1C[C@](C)(O)C(=O)NC1=O
r_bond_atoms: O11
r_displaced_atoms: H11

[Term]
id: BpForms:dna:5HU
name: 5-hydroxymethyluridine-2'-deoxy-5'-monophosphate
synonym: "2'-deoxy-5-(hydroxymethyl)uridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[5-(hydroxymethyl)-2,4-dioxo-pyrimidin-1-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 5HU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: OCc1cn([C@@H]2C[C@@H]([C@H](O2)COP(=O)(O)O)O)c(=O)[nH]c1=O
r_bond_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:dna:5IU
name: 5-iodo-2'-deoxyuridine-5'-monophosphate
synonym: "2'-deoxy-5-iodouridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(5-iodo-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 5IU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@@H](O[C@H]1COP(=O)([O-])[O-])n1cc(I)c(=O)[nH]c1=O
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:5MD
name: 2'-deoxy-1-methyl-pseudouridine
synonym: "(1R)-1,4-anhydro-2-deoxy-1-(1-methyl-2,4-dioxo-1,2,3,4-tetrahydropyrimidin-5-yl)-D-erythro-pentitol" BROAD []
synonym: "5-[(2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-1-methyl-pyrimidine-2,4-dione" BROAD []
synonym: "N" BROAD []
synonym: "pdb-ccd: 5MD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: OC[C@H]1O[C@H](C[C@@H]1O)c1cn(C)c(=O)[nH]c1=O

[Term]
id: BpForms:dna:5NC
name: 5-aza-cytidine-5'monophosphate
synonym: "4-amino-1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-1,3,5-triazin-2(1H)-one" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5R)-5-(4-amino-2-oxo-1,3,5-triazin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 5NC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)([O-])[O-])n1cnc(nc1=O)N
l_bond_atoms: P12
l_displaced_atoms: O15-1

[Term]
id: BpForms:dna:5OC
name: 2'-deoxy-5-hydroxycytidine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-5-hydroxycytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,5R)-5-(4-azanyl-5-oxidanyl-2-oxidanylidene-pyrimidin-1-yl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 5OC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@H](O[C@H]1COP(=O)([O-])[O-])n1cc(O)c(nc1=O)N
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:5PC
name: 5(1-propynyl)-2'-deoxycytidine-5'-monophosphate
synonym: "2'-deoxy-5-prop-1-yn-1-ylcytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5R)-5-(4-amino-2-oxo-5-prop-1-ynyl-pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 5PC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: CC#Cc1cn([C@@H]2C[C@@H]([C@H](O2)COP(=O)([O-])[O-])O)c(=O)nc1N
l_bond_atoms: P17
l_displaced_atoms: O19-1
r_bond_atoms: O21
r_displaced_atoms: H21

[Term]
id: BpForms:dna:5PY
name: 1-(2'-deoxy-5'-o-phosphono-beta-d-erythro-pentofuranosyl)-5-methylpyrimidin-2(1h)-one
synonym: "1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-5-methylpyrimidin-2(1H)-one" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(5-methyl-2-oxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 5PY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@@H]1C[C@@H](O[C@H]1COP(=O)([O-])[O-])n1cc(C)cnc1=O
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:5SE
name: 2'-deoxy-5-(methylselanyl)cytidine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-5-(methylselanyl)cytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,5R)-5-(4-azanyl-5-methylselanyl-2-oxo-pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 5SE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: C[Se]c1cn([C@H]2C[C@H]([C@H](O2)COP(=O)([O-])[O-])O)c(=O)nc1N
l_bond_atoms: P16
l_displaced_atoms: O18-1
r_bond_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:dna:5UA
name: 5'-o-carboxy-2'-deoxyadenosine
synonym: "5'-O-carboxy-2'-deoxyadenosine" BROAD []
synonym: "[(2R,3S,5R)-5-(6-aminopurin-9-yl)-3-hydroxy-oxolan-2-yl]methyl hydrogen carbonate" BROAD []
synonym: "pdb-ccd: 5UA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: OC(=O)OC[C@H]1O[C@H](C[C@H]1O)n1cnc2c1ncnc2N
r_bond_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:dna:63G
name: (6s)-3-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-6-hydroxy-5,6,7,8-tetrahydropyrimido[1,2-a]purin-10(3h)-one
synonym: "(6S)-3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-6-hydroxy-5,6,7,8-tetrahydropyrimido[1,2-a]purin-10(3H)-one" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[(6S)-6-hydroxy-10-oxo-5,6,7,8-tetrahydropyrimido[1,2-a]purin-3-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 63G" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1CCn2c(N1)nc1c(c2=O)ncn1[C@H]1C[C@@H]([C@H](O1)COP(=O)(O)O)O
r_bond_atoms: O31
r_displaced_atoms: H31

[Term]
id: BpForms:dna:63H
name: (6r)-3-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-6-hydroxy-5,6,7,8-tetrahydropyrimido[1,2-a]purin-10(3h)-one
synonym: "(6R)-3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-6-hydroxy-5,6,7,8-tetrahydropyrimido[1,2-a]purin-10(3H)-one" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[(6R)-6-hydroxy-10-oxo-5,6,7,8-tetrahydropyrimido[1,2-a]purin-3-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 63H" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1CCn2c(N1)nc1c(c2=O)ncn1[C@@H]1C[C@@H]([C@H](O1)COP(=O)(O)O)O
r_bond_atoms: O31
r_displaced_atoms: H31

[Term]
id: BpForms:dna:64T
name: 5-hydroxy-thymidine-5'-monophosphate
synonym: "5-hydroxythymidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[(5R)-5-hydroxy-5-methyl-2,4-dioxo-1,3-diazinan-1-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 64T" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)([O-])[O-])N1C[C@](C)(O)C(=O)NC1=O
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:68Z
name: 1r,2s,4r)-4-[2-azanyl-6,8-bis(oxidanylidene)-1,7-dihydropurin-9-yl]-2-oxidanyl-cyclopentyl]methyl dihydrogen phosphate
synonym: "G" BROAD []
synonym: "[(1R,2S,4R)-4-(2-amino-6,8-dioxo-1,6,7,8-tetrahydro-9H-purin-9-yl)-2-hydroxycyclopentyl]methyl dihydrogen phosphate" BROAD []
synonym: "[(1R,2S,4R)-4-[2-azanyl-6,8-bis(oxidanylidene)-1,7-dihydropurin-9-yl]-2-oxidanyl-cyclopentyl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 68Z" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: Nc1[nH]c(=O)c2c(n1)n([C@@H]1C[C@H]([C@@H](C1)O)COP(=O)(O)O)c(=O)[nH]2

[Term]
id: BpForms:dna:6FK
name: [(2~{r},3~{s},5~{r})-5-[2-azanyl-8-[ethanoyl(phenyl)amino]-6-oxidanylidene-3~{h}-purin-9-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate
synonym: "G" BROAD []
synonym: "[(2~{R},3~{S},5~{R})-5-[2-azanyl-8-[ethanoyl(phenyl)amino]-6-oxidanylidene-3~{H}-purin-9-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 6FK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)(O)O)n1c(nc2c1[nH]c(N)nc2=O)N(c1ccccc1)C(=O)C

[Term]
id: BpForms:dna:6FM
name: 2'-deoxy-4'-ethynyl-2-fluoroadenosine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-4'-ethynyl-2-fluoroadenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2~{R},3~{S},5~{R})-5-(6-azanyl-2-fluoranyl-purin-9-yl)-2-ethynyl-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 6FM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: C#C[C@]1(COP(=O)([O-])[O-])O[C@H](C[C@@H]1O)n1cnc2c1nc(F)nc2N

[Term]
id: BpForms:dna:6HA
name: 1',5'-anhydro-2',3'-dideoxy-2'-(adenin-9-yl)-6'-o-phosphoryl-d-arabino-hexitol
synonym: "2-(6-amino-9H-purin-9-yl)-1,5-anhydro-2,3-dideoxy-6-O-phosphono-D-arabino-hexitol" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,5S)-5-(6-aminopurin-9-yl)-3-hydroxy-oxan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 6HA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: O[C@H]1C[C@@H](CO[C@@H]1COP(=O)([O-])[O-])n1cnc2c1ncnc2N
l_bond_atoms: P13
l_displaced_atoms: O16-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:6HB
name: 2'-deoxy-n-[(2s)-2-hydroxybut-3-en-1-yl]adenosine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-N-[(2S)-2-hydroxybut-3-en-1-yl]adenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,5R)-3-oxidanyl-5-[6-[[(2S)-2-oxidanylbut-3-enyl]amino]purin-9-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 6HB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: C=C[C@H](CNc1ncnc2c1ncn2[C@@H]1C[C@H]([C@@H](O1)COP(=O)(O)O)O)O

[Term]
id: BpForms:dna:6HC
name: 1',5'-anhydro-2',3'-dideoxy-2'-(cytosin-1-yl)-6'-o-phosphoryl-d-arabino-hexitol
synonym: "2-(4-amino-2-oxopyrimidin-1(2H)-yl)-1,5-anhydro-2,3-dideoxy-6-O-phosphono-D-arabino-hexitol" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5S)-5-(4-amino-2-oxo-pyrimidin-1-yl)-3-hydroxy-oxan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 6HC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1C[C@@H](CO[C@@H]1COP(=O)([O-])[O-])n1ccc(nc1=O)N
l_bond_atoms: P13
l_displaced_atoms: O16-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:6HG
name: 1',5'-anhydro-2',3'-dideoxy-2'-(guanin-9-yl)-6'-o-phosphoryl-d-arabino-hexitol
synonym: "2-(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)-1,5-anhydro-2,3-dideoxy-6-O-phosphono-D-arabino-hexitol" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5S)-5-(2-amino-6-oxo-1H-purin-9-yl)-3-hydroxy-oxan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 6HG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@@H](CO[C@@H]1COP(=O)([O-])[O-])n1cnc2c1nc(N)[nH]c2=O
l_bond_atoms: P13
l_displaced_atoms: O16-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:6HT
name: 1',5'-anhydro-2',3'-dideoxy-2'-(thymin-1-yl)-6'-o-phosphoryl-d-arabino-hexitol
synonym: "1,5-anhydro-2,3-dideoxy-2-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-6-O-phosphono-D-arabino-hexitol" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3S,5S)-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 6HT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@H]1C[C@@H](CO[C@@H]1COP(=O)([O-])[O-])n1cc(C)c(=O)[nH]c1=O
l_bond_atoms: P13
l_displaced_atoms: O16-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:6MI
name: 6-methyl-8-(2-deoxy-ribofuranosyl)isoxanthopteridine
synonym: "2-amino-8-(2-deoxy-5-O-phosphono-beta-D-threo-pentofuranosyl)-6-methylpteridine-4,7(1H,8H)-dione" BROAD []
synonym: "N" BROAD []
synonym: "[(5R)-5-(2-amino-6-methyl-4,7-dioxo-1H-pteridin-8-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 6MI" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)(O)O)n1c(=O)c(C)nc2c1[nH]c(N)nc2=O

[Term]
id: BpForms:dna:6PO
name: 9-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-6-propoxy-9h-purin-2-amine
synonym: "9-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-6-propoxy-9H-purin-2-amine" BROAD []
synonym: "[(2R,3S,5R)-5-(2-azanyl-6-propoxy-purin-9-yl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 6PO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: CCCOc1nc(N)nc2c1ncn2[C@H]1C[C@H]([C@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O29
r_displaced_atoms: H29

[Term]
id: BpForms:dna:77Y
name:  5-(3-(2-(1h-indol-3-yl)acetamide-n-yl)-1-propen-1-yl)-2'-deoxyuridine
synonym: "U" BROAD []
synonym: "[(2~{R},3~{S},5~{R})-5-[5-[(~{E})-3-[2-(1~{H}-indol-3-yl)ethanoylamino]prop-1-enyl]-2,4-bis(oxidanylidene)pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 77Y" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O=C(Cc1c[nH]c2c1cccc2)NC/C=C/c1cn([C@H]2C[C@H]([C@H](O2)COP(=O)(O)O)O)c(=O)[nH]c1=O

[Term]
id: BpForms:dna:7BG
name: 2-amino-7-benzyl-9-(2-deoxy-2-fluoro-5-o-phosphono-beta-d-arabinofuranosyl)-6-oxo-6,9-dihydro-1h-purin-7-ium
synonym: "2-amino-7-benzyl-9-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)-6-oxo-6,9-dihydro-1H-purin-7-ium" BROAD []
synonym: "[(2R,3R,4S,5R)-5-[2-azanyl-6-oxidanylidene-7-(phenylmethyl)-1H-purin-7-ium-9-yl]-4-fluoranyl-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 7BG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: F[C@H]1[C@@H](O)[C@@H](O[C@@H]1n1c[n+](c2c1nc(N)[nH]c2=O)Cc1ccccc1)COP(=O)(O)O

[Term]
id: BpForms:dna:7DA
name: 7-deaza-2'-deoxyadenosine-5'-monophosphate
synonym: "7-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-7H-pyrrolo[2,3-d]pyrimidin-4-amine" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,5R)-5-(4-aminopyrrolo[3,2-e]pyrimidin-7-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 7DA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1ccc2c1ncnc2N
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:7GU
name: 7-deaza-2'-deoxyguanosine-5'-monophosphate
synonym: "2-amino-7-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-3,7-dihydro-4H-pyrrolo[2,3-d]pyrimidin-4-one" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-5-(2-amino-4-oxo-3H-pyrrolo[2,3-d]pyrimidin-7-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 7GU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1ccc2c1nc(N)[nH]c2=O
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:8AA
name: 8-[acetyl(anthracen-2-yl)amino]-2'-deoxy-5'-o-(dihydroxyphosphanyl)guanosine
synonym: "8-[acetyl(anthracen-2-yl)amino]-2'-deoxy-5'-O-(dihydroxyphosphanyl)guanosine" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-5-[8-[anthracen-2-yl(ethanoyl)amino]-2-azanyl-6-oxidanylidene-3H-purin-9-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphite" BROAD []
synonym: "pdb-ccd: 8AA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: [O-]P(OC[C@H]1O[C@H](C[C@H]1O)n1c(nc2c1[nH]c(N)nc2=O)N(c1ccc2c(c1)cc1c(c2)cccc1)C(=O)C)[O-]
l_bond_atoms: P2
l_displaced_atoms: O1-1
r_bond_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:dna:8AG
name: 8-[acetyl(anthracen-2-yl)amino]-2'-deoxyguanosine 5'-(dihydrogen phosphate)
synonym: "8-[acetyl(anthracen-2-yl)amino]-2'-deoxyguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-5-[2-amino-8-(anthracen-2-yl-ethanoyl-amino)-6-oxo-7,8-dihydro-1H-purin-9-yl]-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 8AG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)(O)O)N1[C@@H](Nc2c1nc(N)[nH]c2=O)N(c1ccc2c(c1)cc1c(c2)cccc1)C(=O)C

[Term]
id: BpForms:dna:8BA
name: 8-bromo-deoxyadenosine-5'-monophosphate
synonym: "(2~{R},3~{S},5~{R})-5-(6-azanyl-8-bromanyl-purin-9-yl)-2-[[oxidanyl-bis(oxidanylidene)-$l^{6}-phosphanyl]oxymethyl]oxolan-3-ol" BROAD []
synonym: "pdb-ccd: 8BA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: O[C@H]1C[C@H](O[C@H]1COP(=O)(=O)O)n1c(Br)nc2c1ncnc2N

[Term]
id: BpForms:dna:8DT
name:  5-(3-(acetamide-n-yl)-1-propen-1-yl)-2'-deoxyuridine
synonym: "U" BROAD []
synonym: "[(2~{R},3~{S},5~{R})-5-[5-[(~{E})-3-acetamidoprop-1-enyl]-2,4-bis(oxidanylidene)pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 8DT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: CC(=O)NC/C=C/c1cn([C@H]2C[C@H]([C@H](O2)COP(=O)(O)O)O)c(=O)[nH]c1=O

[Term]
id: BpForms:dna:8FG
name: n-(5'-phospho-2'-deoxyguanosin-8-yl)-2-acetylaminofluorene
synonym: "8-[acetyl(9H-fluoren-2-yl)amino]-2'-deoxyguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-5-[2-amino-8-(ethanoyl-(9H-fluoren-2-yl)amino)-6-oxo-1H-purin-9-yl]-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 8FG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: Nc1[nH]c(=O)c2c(n1)n([C@H]1C[C@@H]([C@H](O1)COP(=O)([O-])[O-])O)c(n2)N(c1ccc2c(c1)Cc1c2cccc1)C(=O)C
l_bond_atoms: P21
l_displaced_atoms: O23-1
r_bond_atoms: O25
r_displaced_atoms: H25

[Term]
id: BpForms:dna:8MG
name: 8-methyl-2'-deoxyguanosine-5'-monophosphate
synonym: "2'-deoxy-8-methylguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-5-(2-amino-8-methyl-6-oxo-1H-purin-9-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 8MG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)(O)O)n1c(C)nc2c1nc(N)[nH]c2=O
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:8OG
name: 8-oxo-2'-deoxy-guanosine-5'-monophosphate
synonym: "2'-deoxy-8-oxoguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-5-(2-amino-6,8-dioxo-1,7-dihydropurin-9-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 8OG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)([O-])[O-])n1c(=O)[nH]c2c1nc(N)[nH]c2=O
l_bond_atoms: P12
l_displaced_atoms: O14-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:8PY
name: [(2~{r},3~{s},5~{r})-5-[2-azanyl-8-[ethanoyl(pyren-2-yl)amino]-6-oxidanylidene-1~{h}-purin-9-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate
synonym: "G" BROAD []
synonym: "[(2~{R},3~{S},5~{R})-5-[2-azanyl-8-[ethanoyl(pyren-2-yl)amino]-6-oxidanylidene-1~{H}-purin-9-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 8PY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)(O)O)n1c(nc2c1nc(N)[nH]c2=O)N(c1cc2ccc3c4c2c(c1)ccc4ccc3)C(=O)C

[Term]
id: BpForms:dna:8RO
name: [(2~{r},3~{s},5~{r})-5-(5-methyl-2-oxidanylidene-7-thia-1,3-diazabicyclo[4.1.0]hept-5-en-3-yl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphite
synonym: "[(2~{R},3~{S},5~{R})-5-(5-methyl-2-oxidanylidene-7-thia-1,3-diazabicyclo[4.1.0]hept-5-en-3-yl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphite" BROAD []
synonym: "pdb-ccd: 8RO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: OP(OC[C@H]1O[C@@H](C[C@@H]1O)N1CC(=C2N(C1=O)S2)C)O

[Term]
id: BpForms:dna:8YN
name: pseudoisocytidine
synonym: "C" BROAD []
synonym: "[(2~{R},3~{S},5~{R})-5-(2-azanyl-6-oxidanylidene-1~{H}-pyrimidin-5-yl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 8YN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@@H]1C[C@@H](O[C@@H]1COP(=O)(O)O)c1cnc([nH]c1=O)N

[Term]
id: BpForms:dna:92F
name: 7-amino-3-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-2-oxo-2,3-dihydropyrido[2,3-d]pyrimidine-6-carbonitrile
synonym: "7-amino-3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-2-oxo-2,3-dihydropyrido[2,3-d]pyrimidine-6-carbonitrile" BROAD []
synonym: "[(2~{R},3~{S},5~{R})-5-(7-azanyl-6-cyano-2-oxidanylidene-pyrido[2,3-d]pyrimidin-3-yl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 92F" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: N#Cc1cc2cn([C@H]3C[C@H]([C@@H](O3)COP(=O)(O)O)O)c(=O)nc2nc1N

[Term]
id: BpForms:dna:93D
name: (1r)-1,4-anhydro-2-deoxy-1-(2,4-diaminopyrimidin-5-yl)-5-o-phosphono-d-erythro-pentitol
synonym: "(1R)-1,4-anhydro-2-deoxy-1-(2,4-diaminopyrimidin-5-yl)-5-O-phosphono-D-erythro-pentitol" BROAD []
synonym: "[(2~{R},3~{S},5~{R})-5-[2,4-bis(azanyl)pyrimidin-5-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 93D" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@H](O[C@H]1COP(=O)([O-])[O-])c1cnc(nc1N)N
l_bond_atoms: P12
l_displaced_atoms: O14-1

[Term]
id: BpForms:dna:94O
name: 3-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-2h-indeno[2',1':5,6]pyrido[2,3-d]pyrimidine-2,6(3h)-dione
synonym: "3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-2H-indeno[2',1':5,6]pyrido[2,3-d]pyrimidine-2,6(3H)-dione" BROAD []
synonym: "[(2~{R},3~{S},5~{R})-5-[6,17-bis(oxidanylidene)-5,7,9-triazatetracyclo[8.7.0.0^{3,8}.0^{11,16}]heptadeca-1,3,7,9,11(16),12,14-heptaen-5-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 94O" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@@H]1C[C@H](O[C@@H]1COP(=O)(O)O)n1cc2cc3C(=O)c4c(c3nc2nc1=O)cccc4

[Term]
id: BpForms:dna:9O4
name: (3r,5r)-5-(6-amino-9h-purin-9-yl)oxolan-3-yl dihydrogen phosphate
synonym: "(3R,5R)-5-(6-amino-9H-purin-9-yl)oxolan-3-yl dihydrogen phosphate" BROAD []
synonym: "[(3~{R},5~{R})-5-(6-aminopurin-9-yl)oxolan-3-yl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 9O4" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: Nc1ncnc2c1ncn2[C@@H]1OC[C@H](C1)OP(=O)(O)O

[Term]
id: BpForms:dna:A38
name: 8-oxy deoxyadenosine-5'-monophosphate
synonym: "2'-deoxy-8-oxoadenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,5R)-5-(6-amino-8-oxo-7H-purin-9-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: A38" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)(O)O)n1c(=O)[nH]c2c1ncnc2N

[Term]
id: BpForms:dna:A3A
name: 2'deoxy-alpha-anomeric-adenosine-5'-phosphate
synonym: "2'-deoxy-5'-adenylic acid" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,5S)-5-(6-aminopurin-9-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: A3A" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)(O)O)n1cnc2c1ncnc2N

[Term]
id: BpForms:dna:A40
name: n2-methyl 2'-deoxyadenosine 5'-monophosphate
synonym: "2'-deoxy-2-(methylamino)adenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,5R)-5-(6-amino-2-methylamino-purin-9-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: A40" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: CNc1nc(N)c2c(n1)n(cn2)[C@@H]1C[C@H]([C@H](O1)COP(=O)(O)O)O

[Term]
id: BpForms:dna:A43
name: 3'-amino deoxyadenosine 5'-monophosphate
synonym: "3'-amino-2',3'-dideoxyadenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "A" BROAD []
synonym: "[(2S,3S,5R)-3-amino-5-(6-aminopurin-9-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: A43" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: N[C@@H]1C[C@H](O[C@@H]1COP(=O)(O)O)n1cnc2c1ncnc2N

[Term]
id: BpForms:dna:A47
name: n6-methoxy adenosine 5'-monophosphate
synonym: "2'-deoxy-N-methoxyadenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[6-(methoxyamino)purin-9-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: A47" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: CONc1ncnc2c1ncn2[C@@H]1C[C@@H]([C@H](O1)COP(=O)(O)O)O

[Term]
id: BpForms:dna:A5L
name: 9-(2-deoxy-2-fluoro-5-o-phosphono-beta-d-arabinofuranosyl)-9h-purin-6-amine
synonym: "9-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)-9H-purin-6-amine" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3R,4S,5R)-5-(6-aminopurin-9-yl)-4-fluoro-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: A5L" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: O[C@H]1[C@H](COP(=O)([O-])[O-])O[C@H]([C@@H]1F)n1cnc2c1ncnc2N
l_bond_atoms: P8
l_displaced_atoms: O11-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:AAB
name: 2'-deoxy-ribofuranose-5'-monophosphate
synonym: "2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranose" BROAD []
synonym: "[(2R,3S,5R)-3,5-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: AAB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@H]([C@H](O1)COP(=O)(O)O)O
r_bond_atoms: O16
r_displaced_atoms: H16

[Term]
id: BpForms:dna:ABR
name: (r)-(n-phenyl-2-hydroxy-ethyl)-2'-deoxy-adenosine-5'-monophosphate
synonym: "2'-deoxy-N-[(2R)-2-hydroxy-2-phenylethyl]adenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[6-[[(2R)-2-hydroxy-2-phenyl-ethyl]amino]purin-9-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: ABR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: O[C@@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1cnc2c1ncnc2NC[C@@H](c1ccccc1)O
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:ABS
name: (s)-(n-phenyl-2-hydroxy-ethyl)-2'-deoxy-adenosine-5'-monophosphate
synonym: "2'-deoxy-N-[(2S)-2-hydroxy-2-phenylethyl]adenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[6-[[(2S)-2-hydroxy-2-phenyl-ethyl]amino]purin-9-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: ABS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: O[C@@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1cnc2c1ncnc2NC[C@@H](c1ccccc1)O
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:ABT
name: 3'-azido-3'-deoxy-thymidine-5'-alpha borano triphosphate
synonym: "3'-azido-5'-O-[(1E,3S)-1-boranylidene-1,3,5,5-tetrahydroxy-3,5-dioxido-1lambda~5~-triphosphoxanyl]-3'-deoxythymidine" BROAD []
synonym: "N" BROAD []
synonym: "[[(2S,3S,5R)-3-azido-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methoxy-boranylidene-hydroxy-phosphoranyl] phosphono hydrogen phosphate" BROAD []
synonym: "pdb-ccd: ABT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: [N-]=[N+]=N[C@@H]1C[C@@H](O[C@@H]1CO[P@@](=[BH2])(O[P@@](=O)(OP(=O)(O)O)O)O)n1cc(C)c(=O)[nH]c1=O

[Term]
id: BpForms:dna:AD2
name: 2'-deoxy-adenosine-3'-5'-diphosphate
synonym: "2'-deoxyadenosine 3',5'-bis(dihydrogen phosphate)" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,5R)-5-(6-aminopurin-9-yl)-3-phosphonooxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: AD2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: Nc1ncnc2c1ncn2[C@H]1C[C@@H]([C@H](O1)COP(=O)([O-])[O-])OP(=O)(O)O

[Term]
id: BpForms:dna:AF2
name: 2'-deoxy-2'-fluoroadenosine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-2'-fluoroadenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3R,4R,5R)-5-(6-aminopurin-9-yl)-4-fluoro-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: AF2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: O[C@H]1[C@@H](COP(=O)([O-])[O-])O[C@H]([C@H]1F)n1cnc2c1ncnc2N
l_bond_atoms: P8
l_displaced_atoms: O11-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:AFF
name: 2-acetylaminofluorene-3-yl
synonym: "N" BROAD []
synonym: "N-(9H-fluoren-2-yl)ethanamide" BROAD []
synonym: "N-9H-fluoren-2-ylacetamide" BROAD []
synonym: "pdb-ccd: AFF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: CC(=O)Nc1ccc2c(c1)Cc1c2cccc1

[Term]
id: BpForms:dna:AS
name: 2-deoxy-adenosine -5'-thio-monophosphate
synonym: "(2R,3S,5R)-5-(6-aminopurin-9-yl)-2-(dihydroxyphosphinothioyloxymethyl)oxolan-3-ol" BROAD []
synonym: "2'-deoxy-5'-O-thiophosphonoadenosine" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: AS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=S)([O-])[O-])n1cnc2c1ncnc2N
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:ASU
name: 4'-thio-2'4'-dideoxyribofuranose-5'-phosphate
synonym: "2-deoxy-5-O-phosphono-4-thio-alpha-D-erythro-pentofuranose" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,5S)-3,5-dihydroxythiolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: ASU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@@H](S[C@H]1COP(=O)([O-])[O-])O
l_bond_atoms: P12
l_displaced_atoms: O15-1

[Term]
id: BpForms:dna:ATD
name: thymidine-3'-phosphate
synonym: "3'-thymidylic acid" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3S,5S)-2-(hydroxymethyl)-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-3-yl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: ATD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: OC[C@H]1O[C@@H](C[C@@H]1OP(=O)([O-])[O-])n1cc(C)c(=O)[nH]c1=O
l_bond_atoms: P12
l_displaced_atoms: O15-1

[Term]
id: BpForms:dna:ATM
name: 3'-azido-3'-deoxythymidine-5'-monophosphate
synonym: "3'-azido-3'-deoxythymidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "T" BROAD []
synonym: "[(2S,3S,5R)-3-azido-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: ATM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: [N-]=[N+]=N[C@H]1C[C@H](O[C@@H]1COP(=O)([O-])[O-])n1cc(C)c(=O)[nH]c1=O
l_bond_atoms: P14
l_displaced_atoms: O17-1

[Term]
id: BpForms:dna:B7C
name: 3-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-7,8-dihydropyrido[2,3-d]pyrimidin-2(3h)-one
synonym: "3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-7,8-dihydropyrido[2,3-d]pyrimidin-2(3H)-one" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(2-oxo-7,8-dihydropyrido[2,3-d]pyrimidin-3-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: B7C" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1cc2C=CCNc2nc1=O
l_bond_atoms: P12
l_displaced_atoms: O14-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:BGM
name: 8-bromo-2'-deoxyguanosine-5'-monophosphate
synonym: "8-bromo-2'-deoxyguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-5-(2-amino-8-bromo-6-oxo-1H-purin-9-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: BGM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1c(Br)nc2c1nc(N)[nH]c2=O
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:BMN
name: (1r)-1,4-anhydro-2-deoxy-1-(3-methoxynaphthalen-2-yl)-5-o-phosphono-d-erythro-pentitol
synonym: "(1R)-1,4-anhydro-2-deoxy-1-(3-methoxynaphthalen-2-yl)-5-O-phosphono-D-erythro-pentitol" BROAD []
synonym: "[(2R,3S,5R)-5-(3-methoxynaphthalen-2-yl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: BMN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: COc1cc2ccccc2cc1[C@H]1C[C@H]([C@@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P23
l_displaced_atoms: O25-1
r_bond_atoms: O27
r_displaced_atoms: H27

[Term]
id: BpForms:dna:BRU
name: 5-bromo-2'-deoxyuridine-5'-monophosphate
synonym: "5-bromo-2'-deoxyuridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,5R)-5-(5-bromo-2,4-dioxo-pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: BRU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@@H](O[C@H]1COP(=O)([O-])[O-])n1cc(Br)c(=O)[nH]c1=O
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:BVP
name: (e)-5-(2-bromovinyl)-2'-deoxyuridine-5'-monophosphate
synonym: "5-[(E)-2-bromoethenyl]-2'-deoxyuridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,5R)-5-[5-[(E)-2-bromoethenyl]-2,4-dioxo-pyrimidin-1-yl]-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: BVP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: Br/C=C/c1cn([C@H]2C[C@@H]([C@@H](O2)COP(=O)(O)O)O)c(=O)[nH]c1=O

[Term]
id: BpForms:dna:BZG
name: 6-(benzyloxy)-9-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-9h-purin-2-amine
synonym: "6-(benzyloxy)-9-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-9H-purin-2-amine" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,5R)-5-(2-azanyl-6-phenylmethoxy-purin-9-yl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: BZG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@H](O[C@H]1COP(=O)(O)O)n1cnc2c1nc(N)nc2OCc1ccccc1

[Term]
id: BpForms:dna:C2S
name: cytidine-5'-dithiophosphorate
synonym: "2'-deoxy-5'-O-[(dithiophosphono)]cytidine" BROAD []
synonym: "4-amino-1-[(2R,4S,5R)-4-hydroxy-5-[(hydroxy-sulfanyl-phosphinothioyl)oxymethyl]oxolan-2-yl]pyrimidin-2-one" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: C2S" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1C[C@H](O[C@@H]1CO[P@](=S)(S)[O-])n1ccc(nc1=O)N
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:C36
name: 5-methyl-5-fluoro-2'-deoxy-cytidine-5'-monophosphate
synonym: "2'-deoxy-5-fluoro-5-(hydroxymethyl)cytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5R)-5-[(5R)-4-amino-5-fluoro-5-(hydroxymethyl)-2-oxo-6H-pyrimidin-1-yl]-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: C36" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: OC[C@@]1(F)CN([C@@H]2C[C@@H]([C@H](O2)COP(=O)(O)O)O)C(=O)N=C1N

[Term]
id: BpForms:dna:C37
name: 5-fluoro-2'-deoxy-cytidine-5'-monophosphate
synonym: "2'-deoxy-5-fluorocytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5R)-5-(4-amino-5-fluoro-2-oxo-pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: C37" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)(O)O)n1cc(F)c(nc1=O)N

[Term]
id: BpForms:dna:C38
name: 5-iodo-2'-deoxy-cytidine-5'-monophosphate
synonym: "2'-deoxy-5-iodocytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5R)-5-(4-amino-5-iodo-2-oxo-pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: C38" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)(O)O)n1cc(I)c(nc1=O)N

[Term]
id: BpForms:dna:C42
name: 3'-amino-2'-deoxy-cytidine-5'-monophosphate
synonym: "3'-amino-2',3'-dideoxycytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "C" BROAD []
synonym: "[(2S,3S,5R)-3-amino-5-(4-amino-2-oxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: C42" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: N[C@H]1C[C@@H](O[C@H]1COP(=O)(O)O)n1ccc(nc1=O)N

[Term]
id: BpForms:dna:C45
name: n4-methoxy-2'-deoxy-cytidine-5'-monophosphate
synonym: "2'-deoxy-N-methoxycytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[4-(methoxyamino)-2-oxo-pyrimidin-1-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: C45" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: CONc1ccn(c(=O)n1)[C@H]1C[C@@H]([C@@H](O1)COP(=O)(O)O)O

[Term]
id: BpForms:dna:C46
name: 6h,8h-3,4-dihydropyrimido[4,5-c][1,2]oxazin-7-0ne(cytidine)-5'-monophosphate
synonym: "6-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-4,6-dihydro-1H-pyrimido[4,5-c][1,2]oxazin-7(3H)-one" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(7-oxo-3,4-dihydro-1H-pyrimido[4,5-c][1,2]oxazin-6-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: C46" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)(O)O)n1cc2CCONc2nc1=O

[Term]
id: BpForms:dna:C49
name: 4-thio,5-fluoro,5-methyl-2'-deoxy-cytidine-5'-monophosphate
synonym: "2'-deoxy-5-fluoro-5-methyl-6-thioxocytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S)-5-[(5R)-5-fluoro-4-imino-5-methyl-2-oxo-6-sulfanylidene-1,3-diazinan-1-yl]-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: C49" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)(O)O)N1C(=O)NC(=N)[C@@](C1=S)(C)F

[Term]
id: BpForms:dna:C4S
name: 2'-deoxy-4'-thiocytidine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-4'-thiocytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-3-hydroxy-thiolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: C4S" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1C[C@@H](S[C@H]1COP(=O)(O)O)n1ccc(nc1=O)N
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:C6G
name: 6-(carboxymethoxy)-9-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-9h-purin-2-amine
synonym: "2-[2-azanyl-9-[(2R,4S,5R)-4-oxidanyl-5-(phosphonooxymethyl)oxolan-2-yl]purin-6-yl]oxyethanoic acid" BROAD []
synonym: "6-(carboxymethoxy)-9-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-9H-purin-2-amine" BROAD []
synonym: "pdb-ccd: C6G" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: OC(=O)COc1nc(N)nc2c1ncn2[C@@H]1C[C@@H]([C@@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P26
l_displaced_atoms: O29-1
r_bond_atoms: O30
r_displaced_atoms: H30

[Term]
id: BpForms:dna:C7R
name: 2'-deoxy-5'-o-thiophosphonocytidine
synonym: "2'-deoxy-5'-O-thiophosphonocytidine" BROAD []
synonym: "[(2~{R},3~{S},5~{R})-5-(4-azanyl-2-oxidanylidene-pyrimidin-1-yl)-3-oxidanyl-oxolan-2-yl]methoxy-sulfanyl-phosphinic acid" BROAD []
synonym: "pdb-ccd: C7R" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@@H]1C[C@H](O[C@@H]1CO[P@@](=O)(S)[O-])n1ccc(nc1=O)N

[Term]
id: BpForms:dna:C7S
name: 2'-deoxy-5'-o-thiophosphonocytidine
synonym: "2'-deoxy-5'-O-thiophosphonocytidine" BROAD []
synonym: "[(2~{R},3~{S},5~{R})-5-(4-azanyl-2-oxidanylidene-pyrimidin-1-yl)-3-oxidanyl-oxolan-2-yl]methoxy-sulfanyl-phosphinic acid" BROAD []
synonym: "pdb-ccd: C7S" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@@H]1C[C@H](O[C@H]1CO[P@](=O)(S)[O-])n1ccc(nc1=O)N

[Term]
id: BpForms:dna:CBR
name: 5-bromo-2'-deoxy-cytidine-5'-monophosphate
synonym: "5-bromo-2'-deoxycytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5R)-5-(4-amino-5-bromo-2-oxo-pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: CBR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1cc(Br)c(nc1=O)N
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:CDW
name: (4r)-3-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-1,3-diazabicyclo[2.2.0]hex-5-en-2-one
synonym: "(4R)-3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-1,3-diazabicyclo[2.2.0]hex-5-en-2-one" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[(4R)-6-oxo-1,5-diazabicyclo[2.2.0]hex-2-en-5-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: CDW" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)(O)O)N1C(=O)N2[C@H]1C=C2

[Term]
id: BpForms:dna:CFL
name: 4-amino-1-(2-deoxy-2-fluoro-5-o-phosphono-beta-d-arabinofuranosyl)pyrimidin-2(1h)-one
synonym: "4-amino-1-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)pyrimidin-2(1H)-one" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3R,4S,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-4-fluoro-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: CFL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@@H]1[C@@H](COP(=O)(O)O)O[C@@H]([C@H]1F)n1ccc(nc1=O)N
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:CFZ
name: 2'-deoxy-2'-fluorocytidine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-2'-fluorocytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3R,4R,5R)-5-(4-azanyl-2-oxo-pyrimidin-1-yl)-4-fluoro-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: CFZ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1[C@H](COP(=O)(O)O)O[C@H]([C@@H]1F)n1ccc(nc1=O)N
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:CGY
name: (1r)-1,4-anhydro-2-deoxy-1-[2,6-diamino-5-(dihydroxyamino)pyridin-3-yl]-5-o-phosphono-d-erythro-pentitol
synonym: "(1R)-1,4-anhydro-2-deoxy-1-[2,6-diamino-5-(dihydroxyamino)pyridin-3-yl]-5-O-phosphono-D-erythro-pentitol" BROAD []
synonym: "[(2~{R},3~{S},5~{R})-5-[2,6-bis(azanyl)-5-[bis(oxidanyl)amino]pyridin-3-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: CGY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)(O)O)c1cc(N(O)O)c(nc1N)N
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:CJ1
name: 7-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-7h-pyrrolo[2,3-d]pyrimidine-2,4-diol
synonym: "7-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-7H-pyrrolo[2,3-d]pyrimidine-2,4-diol" BROAD []
synonym: "[(2~{R},3~{S},5~{R})-5-[2,4-bis(oxidanyl)pyrrolo[2,3-d]pyrimidin-7-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: CJ1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: Oc1nc(O)c2c(n1)n(cc2)[C@H]1O[C@@H]([C@@H](C1)O)COP(=O)(O)O
r_bond_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:dna:CMR
name: 2'-deoxy-cytidine-5'-rp-monomethylphosphonate
synonym: "2'-deoxy-5'-O-[(S)-hydroxy(methyl)phosphoryl]cytidine" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methoxy-methyl-phosphinic acid" BROAD []
synonym: "pdb-ccd: CMR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@@H]1C[C@@H](O[C@@H]1CO[P@](=O)(C)[O-])n1ccc(nc1=O)N
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:CP1
name: 2-(methylamino)-ethylglycine-carbonylmethylene-cytosine
synonym: "2-[2-(4-amino-2-oxo-pyrimidin-1-yl)ethanoyl-(2-methylaminoethyl)amino]ethanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "N-[(4-amino-2-oxopyrimidin-1(2H)-yl)acetyl]-N-[2-(methylamino)ethyl]glycine" BROAD []
synonym: "pdb-ccd: CP1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: CNCCN(C(=O)Cn1ccc(nc1=O)N)CC(=O)O

[Term]
id: BpForms:dna:CSL
name: (d)-2'-methylselenyl-2'-deoxycytidine-5'-phosphate
synonym: "2'-Se-methyl-2'-selenocytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3R,4R,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-3-hydroxy-4-methylselanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: CSL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: C[Se][C@H]1[C@@H](O)[C@H](O[C@H]1n1ccc(nc1=O)N)COP(=O)(O)O

[Term]
id: BpForms:dna:CSM
name: 1-{2,5-anhydro-6-o-methyl-4-[(phosphonooxy)methyl]-alpha-l-mannofuranosyl}pyrimidine-2,4(1h,3h)-dione
synonym: "1-{2,5-anhydro-6-O-methyl-4-[(phosphonooxy)methyl]-alpha-L-mannofuranosyl}pyrimidine-2,4(1H,3H)-dione" BROAD []
synonym: "[(1R,3S,4R,6R,7S)-6-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3-(methoxymethyl)-7-oxidanyl-2,5-dioxabicyclo[2.2.1]heptan-4-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: CSM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: COC[C@H]1O[C@@H]2[C@@H]([C@]1(COP(=O)([O-])[O-])O[C@@H]2n1ccc(=O)[nH]c1=O)O
l_bond_atoms: P14
l_displaced_atoms: O16-1
r_bond_atoms: O30
r_displaced_atoms: H30

[Term]
id: BpForms:dna:CX2
name: 2'-deoxy-5'-o-{(r)-hydroxy[(2-sulfanylethyl)amino]phosphoryl}cytidine
synonym: "2'-deoxy-5'-O-{(R)-hydroxy[(2-sulfanylethyl)amino]phosphoryl}cytidine" BROAD []
synonym: "[(2R,3S,5R)-5-(4-azanyl-2-oxo-pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methoxy-N-(2-sulfanylethyl)phosphonamidic acid" BROAD []
synonym: "pdb-ccd: CX2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: [O-][P@@](=O)(OC[C@@H]1O[C@H](C[C@H]1O)n1ccc(nc1=O)N)NCCS
r_bond_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:dna:D00
name: 2'-deoxy-n-ethylcytidine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-N-ethylcytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,5R)-5-[4-(ethylamino)-2-oxidanylidene-pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: D00" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: CCNc1ccn(c(=O)n1)[C@@H]1C[C@H]([C@H](O1)COP(=O)(O)O)O
r_bond_atoms: O25
r_displaced_atoms: H25

[Term]
id: BpForms:dna:D3
name: 1-(2-deoxy-beta-d-ribofuranosyl)-4-(3-benzamido)phenylimidazole
synonym: "1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-4-{3-[(phenylcarbonyl)amino]phenyl}-1H-imidazole" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,5R)-5-[4-(3-benzamidophenyl)imidazol-1-yl]-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: D3" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)([O-])[O-])n1cnc(c1)c1cccc(c1)NC(=O)c1ccccc1
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:D33
name: 1-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-1h-imidazole
synonym: "1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-1H-imidazole" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-imidazol-1-yl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: D33" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1cncc1
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:D3N
name: 1-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-1h-perimidin-2(3h)-one
synonym: "1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-1H-perimidin-2(3H)-one" BROAD []
synonym: "[(2R,3S,5R)-3-oxidanyl-5-(2-oxidanylidene-3H-perimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: D3N" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@H](O[C@H]1COP(=O)(O)O)n1c(=O)[nH]c2c3c1cccc3ccc2

[Term]
id: BpForms:dna:D3T
name: 2',3'-dideoxy-thymidine-5'-triphosphate
synonym: "(hydroxy-phosphonooxy-phosphoryl) [(2S,5R)-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl hydrogen phosphate" BROAD []
synonym: "T" BROAD []
synonym: "pdb-ccd: D3T" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O=c1[nH]c(=O)n(cc1C)[C@H]1CC[C@H](O1)CO[P@](=O)(O[P@](=O)(OP(=O)(O)O)O)O

[Term]
id: BpForms:dna:D4B
name: [(2~{r},3~{s},5~{r})-5-[4-azanyl-5-[2-(4-ethynylphenyl)ethynyl]-2-oxidanylidene-pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate
synonym: "C" BROAD []
synonym: "[(2~{R},3~{S},5~{R})-5-[4-azanyl-5-[2-(4-ethynylphenyl)ethynyl]-2-oxidanylidene-pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: D4B" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: C#Cc1ccc(cc1)C#Cc1cn([C@@H]2C[C@@H]([C@@H](O2)COP(=O)(O)O)O)c(=O)nc1N

[Term]
id: BpForms:dna:D4M
name: [(5r)-5-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)-2,5-dihydrofuran-2-yl]methyl dihydrogen phosphate
synonym: "T" BROAD []
synonym: "[(2S,5R)-5-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-2,5-dihydrofuran-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(2S,5R)-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)-2,5-dihydrofuran-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: D4M" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O=c1[nH]c(=O)n(cc1C)[C@@H]1C=C[C@H](O1)COP(=O)([O-])[O-]
l_bond_atoms: P20
l_displaced_atoms: O23-1

[Term]
id: BpForms:dna:DCT
name: 2',3'-dideoxycytidine 5'-triphosphate
synonym: "C" BROAD []
synonym: "[(2S,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)oxolan-2-yl]methyl (hydroxy-phosphonooxy-phosphoryl) hydrogen phosphate" BROAD []
synonym: "pdb-ccd: DCT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: Nc1ccn(c(=O)n1)[C@H]1CC[C@@H](O1)CO[P@](=O)(O[P@](=O)(OP(=O)(O)O)O)O

[Term]
id: BpForms:dna:DCZ
name: 2'-deoxycytidine
synonym: "2'-deoxycytidine" BROAD []
synonym: "4-amino-1-[(2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]pyrimidin-2-one" BROAD []
synonym: "pdb-ccd: DCZ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: OC[C@@H]1O[C@H](C[C@@H]1O)n1ccc(nc1=O)N
r_bond_atoms: O11
r_displaced_atoms: H11

[Term]
id: BpForms:dna:DDG
name: 2',3'-dideoxy-guanosine-5'-monophosphate
synonym: "G" BROAD []
synonym: "[(2S,5R)-5-(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)tetrahydrofuran-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(2S,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: DDG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: Nc1[nH]c(=O)c2c(n1)n(cn2)[C@@H]1CC[C@H](O1)COP(=O)([O-])[O-]
l_bond_atoms: P22
l_displaced_atoms: O24-1

[Term]
id: BpForms:dna:DDN
name: 3,4-dihydro-2'-deoxyuridine-5'-monophosphate
synonym: "(4R)-1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-4-hydroxy-3,4-dihydropyrimidin-2(1H)-one" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[(4R)-4-hydroxy-2-oxo-3,4-dihydropyrimidin-1-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: DDN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C=CN(C(=O)N1)[C@@H]1C[C@@H]([C@H](O1)COP(=O)(O)O)O

[Term]
id: BpForms:dna:DDX
name: 2',3'-dehydro-2',3'-dideoxyribofuranose-5'-phosphate
synonym: "N" BROAD []
synonym: "[(2S,5S)-5-hydroxy-2,5-dihydrofuran-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: DDX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C=C[C@H](O1)COP(=O)([O-])[O-]
l_bond_atoms: P11
l_displaced_atoms: O14-1

[Term]
id: BpForms:dna:DFT
name: 1-[2-deoxyribofuranosyl]-2,4-difluoro-5-methyl-benzene-5'monophosphate
synonym: "(1R)-1,4-anhydro-2-deoxy-1-(2,4-difluoro-5-methylphenyl)-5-O-phosphono-D-erythro-pentitol" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,5R)-5-(2,4-difluoro-5-methyl-phenyl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: DFT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)([O-])[O-])c1cc(C)c(cc1F)F
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:DG8
name: 2'-deoxy-8-(pyren-1-ylamino)guanosine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-8-(pyren-1-ylamino)guanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,5R)-5-[2-azanyl-6-oxidanylidene-8-(pyren-1-ylamino)-1H-purin-9-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: DG8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: Nc1[nH]c(=O)c2c(n1)n([C@@H]1O[C@@H]([C@@H](C1)O)COP(=O)(O)O)c(n2)Nc1ccc2c3c1ccc1c3c(cc2)ccc1

[Term]
id: BpForms:dna:DGI
name: 2'-deoxyguanosine-5'-diphosphate
synonym: "2'-deoxyguanosine 5'-(trihydrogen diphosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-3-hydroxy-oxolan-2-yl]methyl phosphono hydrogen phosphate" BROAD []
synonym: "pdb-ccd: DGI" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@H](O[C@@H]1CO[P@@](=O)(OP(=O)(O)O)O)n1cnc2c1nc(N)[nH]c2=O
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:DN
name: unknown 2'-deoxynucleotide
synonym: "1,4-anhydro-2-deoxy-5-O-phosphono-D-erythro-pentitol" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S)-3-hydroxyoxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: DN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1CCO[C@@H]1COP(=O)([O-])[O-]
l_bond_atoms: P11
l_displaced_atoms: O13-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:DNR
name: 2'-deoxy-n3-protonated cytidine-5'-monophosphate
synonym: "2'-deoxy-5'-cytidylic acid" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5R)-5-(4-amino-2-oxo-pyrimidin-3-ium-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: DNR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1ccc([nH+]c1=O)N
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:DOC
name: 2',3'-dideoxycytidine-5'-monophosphate
synonym: "C" BROAD []
synonym: "[(2S,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(2S,5R)-5-(4-amino-2-oxopyrimidin-1(2H)-yl)tetrahydrofuran-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: DOC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: Nc1ccn(c(=O)n1)[C@H]1CC[C@@H](O1)COP(=O)([O-])[O-]
l_bond_atoms: P18
l_displaced_atoms: O21-1

[Term]
id: BpForms:dna:DPB
name: (s)-1-[2'-deoxy-3',5'-o-(1-phosphono)benzylidene-b-d-threo-pentofuranosyl]thymine
synonym: "1-{2-deoxy-3,5-O-[phenyl(phosphono)methylidene]-beta-L-threo-pentofuranosyl}-5-methylpyrimidine-2,4(1H,3H)-dione" BROAD []
synonym: "T" BROAD []
synonym: "[(2S,4aS,6S,7aS)-6-(5-methyl-2,4-dioxo-pyrimidin-1-yl)-2-phenyl-4a,6,7,7a-tetrahydro-4H-furo[3,2-d][1,3]dioxin-2-yl]phosphonic acid" BROAD []
synonym: "pdb-ccd: DPB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O=c1[nH]c(=O)n(cc1C)[C@@H]1C[C@@H]2[C@H](O1)CO[C@@](O2)(c1ccccc1)P(=O)([O-])[O-]
l_bond_atoms: P29
l_displaced_atoms: O32-1

[Term]
id: BpForms:dna:DPY
name: 2-deoxyribofuranosyl-pyridine-2,6-dicarboxylic acid-5'-monophosphate
synonym: "(1R)-1,4-anhydro-2-deoxy-1-(2,6-dicarboxypyridin-3-yl)-5-O-phosphono-D-erythro-pentitol" BROAD []
synonym: "3-[(2R,4S,5R)-4-hydroxy-5-(phosphonooxymethyl)oxolan-2-yl]pyridine-2,6-dicarboxylic acid" BROAD []
synonym: "N" BROAD []
synonym: "pdb-ccd: DPY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)(O)O)c1ccc(nc1C(=O)O)C(=O)O

[Term]
id: BpForms:dna:DRM
name: {[(1r,2s)-2-(2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)cyclopentyl]oxy}methylphosphonic acid
synonym: "({[(1R,2R)-2-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)cyclopentyl]oxy}methyl)phosphonic acid" BROAD []
synonym: "U" BROAD []
synonym: "[(1R,2R)-2-(2,4-dioxopyrimidin-1-yl)cyclopentyl]oxymethylphosphonic acid" BROAD []
synonym: "pdb-ccd: DRM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O=c1ccn(c(=O)[nH]1)[C@@H]1CCC[C@@H]1OCP(=O)([O-])[O-]
l_bond_atoms: P19
l_displaced_atoms: O22-1

[Term]
id: BpForms:dna:DRP
name: 2-deoxyribofuranosyl-pyridine-5'-monophosphate
synonym: "(1R)-1,4-anhydro-2-deoxy-5-O-phosphono-1-pyridin-3-yl-D-erythro-pentitol" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-pyridin-3-yl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: DRP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)(O)O)c1cccnc1

[Term]
id: BpForms:dna:DRZ
name: 3',4'-dihydroxy-pentanal-5'-phosphate
synonym: "2-deoxy-5-O-phosphono-D-erythro-pentose" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S)-2,3-dihydroxy-5-oxo-pentyl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: DRZ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O=CC[C@H]([C@@H](COP(=O)([O-])[O-])O)O
l_bond_atoms: P10
l_displaced_atoms: O13-1
r_bond_atoms: O15
r_displaced_atoms: H15

[Term]
id: BpForms:dna:DUZ
name: 5-(benzylcarbamoyl)-2'-deoxyuridine 5'-(dihydrogen phosphate)
synonym: "5-(benzylcarbamoyl)-2'-deoxyuridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,5R)-5-[2,4-bis(oxidanylidene)-5-[(phenylmethyl)carbamoyl]pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: DUZ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@@H](O[C@H]1COP(=O)([O-])[O-])n1cc(C(=O)NCc2ccccc2)c(=O)[nH]c1=O
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:DX
name: [(2~{r},3~{s},5~{r})-5-[2,4-bis(oxidanylidene)imidazo[1,2-a][1,3,5]triazin-8-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate
synonym: "[(2~{R},3~{S},5~{R})-5-[2,4-bis(oxidanylidene)imidazo[1,2-a][1,3,5]triazin-8-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: DX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O=c1[nH]c(=O)n2c(n1)n(cc2)[C@@H]1O[C@H]([C@@H](C1)O)COP(=O)(O)O

[Term]
id: BpForms:dna:DXD
name: (1s,3s,4r)-4-(phosphooxymethyl)-cyclopentane-1,3-diol
synonym: "N" BROAD []
synonym: "[(1R,2S,4S)-2,4-dihydroxycyclopentyl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: DXD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@@H](C[C@@H]1COP(=O)([O-])[O-])O
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:DZM
name: 3-deaza-3-methyladenine
synonym: "1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-7-methyl-1H-imidazo[4,5-c]pyridin-4-amine" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,5R)-5-(4-azanyl-7-methyl-imidazo[4,5-c]pyridin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: DZM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: O[C@@H]1C[C@@H](O[C@H]1COP(=O)([O-])[O-])n1cnc2c1c(C)cnc2N
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:E
name: n-((-)-(7s,8r,9s,10r)[7,8,9-trihydroxy-7,8,9,10-tetra hydrobenzo[a]pyren-10-yl])-2'-deoxy-adenosine-5'-monophosphate
synonym: "2'-deoxy-N-[(7S,8R,9S,10R)-7,8,9-trihydroxy-7,8,9,10-tetrahydrobenzo[pqr]tetraphen-10-yl]adenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[6-[[(7S,8R,9S,10R)-7,8,9-trihydroxy-7,8,9,10-tetrahydrobenzo[a]pyren-10-yl]amino]purin-9-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: E" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)([O-])[O-])n1cnc2c1ncnc2N[C@H]1[C@H](O)[C@H](O)[C@@H](c2c1c1ccc3c4c1c(c2)ccc4ccc3)O
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:E1X
name: phosphoric acid mono-[5-(1-ethyl-2,6-dioxo-1,2,3,6-tetrahydro-purin-9-yl)-3-hydroxy-tetrahydro-furan-2-ylmethyl]ester
synonym: "2'-deoxy-1-ethylxanthosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,5R)-5-(1-ethyl-2,6-dioxo-3H-purin-9-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: E1X" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: CCn1c(=O)[nH]c2c(c1=O)ncn2[C@@H]1O[C@@H]([C@H](C1)O)COP(=O)([O-])[O-]
l_bond_atoms: P26
l_displaced_atoms: O29-1
r_bond_atoms: O23
r_displaced_atoms: H23

[Term]
id: BpForms:dna:EAN
name: [(1~{s},2~{r},4~{r},6~{s},8~{r})-8-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-6-oxidanyl-9-oxatricyclo[4.3.0.0^{2,4}]nonan-2-yl] dihydrogen phosphate
synonym: "T" BROAD []
synonym: "[(1~{S},2~{R},4~{R},6~{S},8~{R})-8-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-6-oxidanyl-9-oxatricyclo[4.3.0.0^{2,4}]nonan-2-yl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: EAN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O=c1[nH]c(=O)n(cc1C)[C@@H]1O[C@@H]2[C@@](C1)(O)C[C@H]1[C@]2(C1)OP(=O)(O)O

[Term]
id: BpForms:dna:EDA
name: 3-[2-deoxy-ribofuranosyl]-3h-1,3,4,5a,8-pentaaza-as-indacene-5'-monophosphate
synonym: "3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-3H-imidazo[2,1-i]purine" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-imidazo[2,1-f]purin-3-yl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: EDA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1cnc2c1ncn1c2ncc1
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:EDI
name: 2'-deoxy-1-(2-iodoethyl)inosine
synonym: "2'-deoxy-1-(2-iodoethyl)inosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,5R)-5-[1-(2-iodanylethyl)-6-oxidanylidene-purin-9-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: EDI" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: ICCn1cnc2c(c1=O)ncn2[C@H]1C[C@@H]([C@H](O1)COP(=O)(O)O)O

[Term]
id: BpForms:dna:EHG
name: 9-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-6-(2-hydroxyethoxy)-9h-purin-2-amine
synonym: "9-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-6-(2-hydroxyethoxy)-9H-purin-2-amine" BROAD []
synonym: "[(2R,3S,5R)-5-[2-azanyl-6-(2-hydroxyethyloxy)purin-9-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: EHG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: OCCOc1nc(N)nc2c1ncn2[C@H]1C[C@H]([C@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O29
r_displaced_atoms: H29

[Term]
id: BpForms:dna:EXC
name: 3-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-8-hydroxy-7,7,9,9-tetramethyl-7,8,9,11-tetrahydropyrimido[4',5':5,6][1,4]oxazino[2,3-f]isoindol-2(3h)-one radical
synonym: "3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-8-hydroxy-7,7,9,9-tetramethyl-7,8,9,11-tetrahydropyrimido[4',5':5,6][1,4]oxazino[2,3-f]isoindol-2(3H)-one" BROAD []
synonym: "pdb-ccd: EXC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@@H]1C[C@@H](O[C@H]1COP(=O)([O-])[O-])n1cc2oc3cc4c(cc3[nH]c2nc1=O)C(N(C4(C)C)O)(C)C
l_bond_atoms: P12
l_displaced_atoms: O14-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:F3H
name: 1,5-anhydro-2,3-dideoxy-3-fluoro-2-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)-6-o-phosphono-d-altritol
synonym: "1,5-anhydro-2,3-dideoxy-3-fluoro-2-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-6-O-phosphono-D-altritol" BROAD []
synonym: "[(2R,3R,4S,5R)-4-fluoro-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: F3H" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: F[C@H]1[C@H](O)[C@H](OC[C@@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:dna:F4H
name: 1,5-anhydro-2,3-dideoxy-3-fluoro-2-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)-6-o-phosphono-d-mannitol
synonym: "1,5-anhydro-2,3-dideoxy-3-fluoro-2-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-6-O-phosphono-D-mannitol" BROAD []
synonym: "[(2R,3R,4R,5R)-4-fluoranyl-5-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-3-oxidanyl-oxan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: F4H" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: F[C@H]1[C@@H](O)[C@@H](OC[C@@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)(O)O

[Term]
id: BpForms:dna:F4Q
name: [(1~{s},2~{r},4~{r},6~{s},8~{r})-8-(2-azanyl-6-oxidanylidene-1~{h}-purin-9-yl)-6-oxidanyl-9-oxatricyclo[4.3.0.0^{2,4}]nonan-2-yl] dihydrogen phosphate
synonym: "G" BROAD []
synonym: "[(1~{S},2~{R},4~{R},6~{S},8~{R})-8-(2-azanyl-6-oxidanylidene-1~{H}-purin-9-yl)-6-oxidanyl-9-oxatricyclo[4.3.0.0^{2,4}]nonan-2-yl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: F4Q" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: Nc1[nH]c(=O)c2c(n1)n(cn2)[C@@H]1O[C@@H]2[C@@](C1)(O)C[C@H]1[C@@]2(C1)OP(=O)(O)O

[Term]
id: BpForms:dna:F5H
name: 3,7-anhydro-1,5,6-trideoxy-5-fluoro-6-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)-2-o-phosphono-d-glycero-l-altro-heptitol
synonym: "3,7-anhydro-1,5,6-trideoxy-5-fluoro-6-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-2-O-phosphono-D-glycero-L-altro-heptitol" BROAD []
synonym: "[(1S)-1-[(2S,3R,4S,5R)-4-fluoranyl-5-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-3-oxidanyl-oxan-2-yl]ethyl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: F5H" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: F[C@@H]1[C@@H](O)[C@@H](OC[C@@H]1n1cc(C)c(=O)[nH]c1=O)[C@@H](OP(=O)(O)O)C

[Term]
id: BpForms:dna:F6H
name: 3,7-anhydro-1,5,6-trideoxy-5-fluoro-6-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)-2-o-phosphono-d-glycero-l-allo-heptitol
synonym: "3,7-anhydro-1,5,6-trideoxy-5-fluoro-6-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-2-O-phosphono-D-glycero-L-allo-heptitol" BROAD []
synonym: "[(1R)-1-[(2S,3R,4S,5R)-4-fluoranyl-5-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-3-oxidanyl-oxan-2-yl]ethyl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: F6H" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: F[C@H]1[C@H](O)[C@H](OC[C@@H]1n1cc(C)c(=O)[nH]c1=O)[C@H](OP(=O)([O-])[O-])C
l_bond_atoms: P26
l_displaced_atoms: O28-1

[Term]
id: BpForms:dna:F7H
name: 4-azanyl-1-[(1~{s},2~{r},4~{s},6~{s},8~{r})-2,6-bis(oxidanyl)-9-oxatricyclo[4.3.0.0^{2,4}]nonan-8-yl]-5-methyl-pyrimidin-2-one
synonym: "4-azanyl-1-[(1~{S},2~{R},4~{S},6~{S},8~{R})-2,6-bis(oxidanyl)-9-oxatricyclo[4.3.0.0^{2,4}]nonan-8-yl]-5-methyl-pyrimidin-2-one" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: F7H" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: Cc1cn([C@H]2C[C@]3([C@@H](O2)[C@]2([C@H](C3)C2)O)O)c(=O)nc1N

[Term]
id: BpForms:dna:F7K
name: 2-azanyl-9-[(1~{s},2~{r},4~{s},6~{s},8~{r})-2,6-bis(oxidanyl)-9-oxatricyclo[4.3.0.0^{2,4}]nonan-8-yl]-1~{h}-purin-6-one
synonym: "2-azanyl-9-[(1~{S},2~{R},4~{S},6~{S},8~{R})-2,6-bis(oxidanyl)-9-oxatricyclo[4.3.0.0^{2,4}]nonan-8-yl]-1~{H}-purin-6-one" BROAD []
synonym: "G" BROAD []
synonym: "pdb-ccd: F7K" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: Nc1[nH]c(=O)c2c(n1)n(cn2)[C@H]1O[C@@H]2[C@](C1)(O)C[C@H]1[C@]2(O)C1

[Term]
id: BpForms:dna:FAG
name: [1',2'-dideoxy[2-amino-5-([9-hydroxy-aflatoxinb2-8-yl]-formyl-amino)-6-oxo-1,6-ihydro-pyrimidin-4-ylamino]-ribofuranose]-5-monophosphate group
synonym: "N" BROAD []
synonym: "N-(2-amino-5-{formyl[(6aS,8R,9R,9aR)-9-hydroxy-4-methoxy-1,11-dioxo-1,2,3,6a,8,9,9a,11-octahydrocyclopenta[c]furo[3',2':4,5]furo[2,3-h]chromen-8-yl]amino}-6-oxo-1,6-dihydropyrimidin-4-yl)-2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosylamine" BROAD []
synonym: "pdb-ccd: FAG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O=CN(c1c(N[C@H]2C[C@H]([C@H](O2)COP(=O)(O)O)O)nc([nH]c1=O)N)[C@@H]1O[C@@H]2[C@@H]([C@@H]1O)c1c(O2)cc(c2c1oc(=O)c1c2CCC1=O)OC
r_bond_atoms: O21
r_displaced_atoms: H21

[Term]
id: BpForms:dna:FAX
name: [(1r,2s,4r)-4-{[6-amino-5-(formylamino)pyrimidin-4-yl]amino}-2-hydroxycyclopentyl]methyl dihydrogen phosphate
synonym: "[(1R,2S,4R)-4-[(6-azanyl-5-formamido-pyrimidin-4-yl)amino]-2-oxidanyl-cyclopentyl]methyl dihydrogen phosphate" BROAD []
synonym: "[(1R,2S,4R)-4-{[6-amino-5-(formylamino)pyrimidin-4-yl]amino}-2-hydroxycyclopentyl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: FAX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O=CNc1c(ncnc1N)N[C@H]1C[C@H]([C@H](C1)O)COP(=O)([O-])[O-]
l_bond_atoms: P23
l_displaced_atoms: O25-1

[Term]
id: BpForms:dna:FDG
name: 2-amino-9-(2-deoxy-2-fluoro-5-o-phosphono-beta-d-arabinofuranosyl)-7,9-dihydro-1h-purine-6,8-dione
synonym: "2-amino-9-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)-7,9-dihydro-1H-purine-6,8-dione" BROAD []
synonym: "[(2R,3R,4S,5R)-5-(2-azanyl-6,8-dioxo-1,7-dihydropurin-9-yl)-4-fluoro-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: FDG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1[C@H](COP(=O)([O-])[O-])O[C@H]([C@H]1F)n1c(=O)[nH]c2c1nc(N)[nH]c2=O
l_bond_atoms: P8
l_displaced_atoms: O11-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:FFD
name: (1r)-1,4-anhydro-2-deoxy-1-(3-fluorophenyl)-5-o-phosphono-d-erythro-pentitol
synonym: "(1R)-1,4-anhydro-2-deoxy-1-(3-fluorophenyl)-5-O-phosphono-D-erythro-pentitol" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,5R)-5-(3-fluorophenyl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: FFD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@@H](O[C@@H]1COP(=O)(O)O)c1cccc(c1)F

[Term]
id: BpForms:dna:FMG
name: 2-amino-9-(2-deoxy-2-fluoro-5-o-phosphono-beta-d-arabinofuranosyl)-7-methyl-6-oxo-6,9-dihydro-1h-purin-7-ium
synonym: "2-amino-9-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)-7-methyl-6-oxo-6,9-dihydro-1H-purin-7-ium" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3R,4S,5R)-5-(2-amino-7-methyl-6-oxo-1H-purin-7-ium-9-yl)-4-fluoro-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: FMG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@@H]1[C@@H](COP(=O)([O-])[O-])O[C@H]([C@@H]1F)n1c[n+](c2c1nc(N)[nH]c2=O)C
l_bond_atoms: P8
l_displaced_atoms: O11-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:FNU
name: 6-amino-5-fluorouridine 5'-(dihydrogen phosphate)
synonym: "6-amino-5-fluorouridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(6-azanyl-5-fluoro-2,4-dioxo-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: FNU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1[C@@H](O)[C@@H](O[C@@H]1n1c(=O)[nH]c(=O)c(c1N)F)COP(=O)(O)O
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:dna:FOX
name: ((1r,2s,4r)-4-{[2-amino-5-(formylamino)-6-oxo-3,6-dihydropyrimidin-4-yl]amino}-2-hydroxycyclopentyl)methyl 5'-phosphate
synonym: "G" BROAD []
synonym: "[(1R,2S,4R)-4-[(2-amino-5-formamido-6-oxo-3H-pyrimidin-4-yl)amino]-2-hydroxy-cyclopentyl]methyl dihydrogen phosphate" BROAD []
synonym: "[(1R,2S,4R)-4-{[2-amino-5-(formylamino)-6-oxo-3,6-dihydropyrimidin-4-yl]amino}-2-hydroxycyclopentyl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: FOX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O=CNc1c(=O)nc([nH]c1N[C@H]1C[C@@H]([C@H](C1)O)COP(=O)(O)O)N

[Term]
id: BpForms:dna:G2S
name: guanosine-5'-dithiophosphorate
synonym: "2'-deoxy-5'-O-[(dithiophosphono)]guanosine" BROAD []
synonym: "2-amino-9-[(2R,4S,5R)-4-hydroxy-5-[(hydroxy-sulfanyl-phosphinothioyl)oxymethyl]oxolan-2-yl]-1H-purin-6-one" BROAD []
synonym: "G" BROAD []
synonym: "pdb-ccd: G2S" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@H](O[C@@H]1CO[P@](=S)(S)[O-])n1cnc2c1nc(N)[nH]c2=O
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:G31
name: 3'-methyl-2',3'-deoxy-guanosine-5'-monophosphate
synonym: "2',3'-dideoxy-3'-methylguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2S,3S,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-3-methyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: G31" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: C[C@@H]1C[C@H](O[C@@H]1COP(=O)(O)O)n1cnc2c1nc(N)[nH]c2=O

[Term]
id: BpForms:dna:G35
name: (5r)-5-carbamimidamido-1-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)imidazolidine-2,4-dione
synonym: "[(2R,3S,5R)-5-[(5R)-5-carbamimidamido-2,4-dioxo-imidazolidin-1-yl]-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: G35" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: NC(=N)N[C@H]1C(=O)NC(=O)N1[C@@H]1C[C@H]([C@@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P23
l_displaced_atoms: O26-1
r_bond_atoms: O27
r_displaced_atoms: H27

[Term]
id: BpForms:dna:G36
name: o6-ethyl-2'-deoxyguanosine-5'-monophosphate
synonym: "9-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-6-ethoxy-9H-purin-2-amine" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-5-(2-amino-6-ethoxy-purin-9-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: G36" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: CCOc1nc(N)nc2c1ncn2[C@@H]1C[C@@H]([C@H](O1)COP(=O)(O)O)O

[Term]
id: BpForms:dna:G38
name: 3'-amino-2'-deoxy-guanosine-5'-monophosphate
synonym: "3'-amino-2',3'-dideoxyguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2S,3S,5R)-3-amino-5-(2-amino-6-oxo-1H-purin-9-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: G38" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: N[C@@H]1C[C@H](O[C@@H]1COP(=O)(O)O)n1cnc2c1nc(N)[nH]c2=O

[Term]
id: BpForms:dna:G47
name: n2-ethanethiol-2'-deoxy-guanosine-5'-monophosphate
synonym: "2'-deoxy-N-(2-sulfanylethyl)guanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[6-oxo-2-(2-sulfanylethylamino)-1H-purin-9-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: G47" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: SCCNc1[nH]c(=O)c2c(n1)n(cn2)[C@@H]1C[C@@H]([C@H](O1)COP(=O)(O)O)O

[Term]
id: BpForms:dna:G49
name: n2-methyl-2'-deoxy-guanosine-5'-monophosphate
synonym: "2'-deoxy-N-methylguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(2-methylamino-6-oxo-1H-purin-9-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: G49" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: CNc1[nH]c(=O)c2c(n1)n(cn2)[C@@H]1C[C@@H]([C@H](O1)COP(=O)(O)O)O

[Term]
id: BpForms:dna:GCK
name: phosphoric acid 9-(2-guanidinoethoxy-3-(2-deoxy-beta-d-erythropentofuranosyl))-3h-pyrimido-[5,4-b][1,4]-benzooxazin-2-one]-5'-ester
synonym: "9-(2-{[amino(iminio)methyl]amino}ethoxy)-3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-3H-pyrimido[5,4-b][1,4]benzoxazin-2(10H)-one" BROAD []
synonym: "C" BROAD []
synonym: "[amino-[2-[[3-[(2R,4S,5R)-4-hydroxy-5-(phosphonooxymethyl)oxolan-2-yl]-2-oxo-10H-pyrimido[5,4-b][1,4]benzoxazin-9-yl]oxy]ethylamino]methylidene]azanium" BROAD []
synonym: "pdb-ccd: GCK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)(O)O)n1cc2oc3cccc(c3[nH]c2nc1=O)OCCNC(=[NH2+])N

[Term]
id: BpForms:dna:GF2
name: 2'-deoxy-2'-fluoroguanosine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-2'-fluoroguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3R,4R,5R)-5-(2-azanyl-6-oxo-1H-purin-9-yl)-4-fluoro-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: GF2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@@H]1[C@H](COP(=O)([O-])[O-])O[C@@H]([C@@H]1F)n1cnc2c1nc(N)[nH]c2=O
l_bond_atoms: P8
l_displaced_atoms: O11-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:GFL
name: 2-amino-9-(2-deoxy-2-fluoro-5-o-phosphono-beta-d-arabinofuranosyl)-1,9-dihydro-6h-purin-6-one
synonym: "2-amino-9-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)-1,9-dihydro-6H-purin-6-one" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3R,4S,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-4-fluoro-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: GFL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@@H]1[C@@H](COP(=O)(O)O)O[C@@H]([C@H]1F)n1cnc2c1nc(N)[nH]c2=O
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:GMS
name: 2'-deoxyguanosine-5'-monoselenophosphate
synonym: "2'-deoxy-5'-O-selenophosphonoguanosine" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-3-hydroxy-oxolan-2-yl]methoxy-selanyl-phosphinic acid" BROAD []
synonym: "pdb-ccd: GMS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@@H](O[C@@H]1CO[P@@](=O)([SeH])[O-])n1cnc2c1nc(N)[nH]c2=O
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:GN7
name: n7-2'-deoxy-guanosine-5'-monophosphate
synonym: "2-amino-7-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-1,7-dihydro-6H-purin-6-one" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-5-(2-amino-6-oxo-1H-purin-7-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: GN7" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)([O-])[O-])n1cnc2c1c(=O)[nH]c(n2)N
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:GNE
name: 1,n2-ethenoguanine
synonym: "3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-3,5-dihydro-9H-imidazo[1,2-a]purin-9-one" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(9-oxo-5H-imidazo[1,2-a]purin-3-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: GNE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)(O)O)n1cnc2c1nc1[nH]ccn1c2=O

[Term]
id: BpForms:dna:GS
name: guanosine-5'-thio-monophosphate
synonym: "2'-deoxy-5'-O-thiophosphonoguanosine" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-3-hydroxy-oxolan-2-yl]methoxy-sulfanyl-phosphinic acid" BROAD []
synonym: "pdb-ccd: GS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@H](O[C@@H]1CO[P@](=O)(S)[O-])n1cnc2c1nc(N)[nH]c2=O
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:GSR
name: 2'-deoxy-n2-(r)styrene oxide guanosine monophosphate
synonym: "2'-deoxy-N-[(1R)-2-hydroxy-1-phenylethyl]guanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[2-[[(1R)-2-hydroxy-1-phenyl-ethyl]amino]-6-oxo-1H-purin-9-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: GSR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: OC[C@@H](c1ccccc1)Nc1[nH]c(=O)c2c(n1)n(cn2)[C@@H]1C[C@@H]([C@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P33
l_displaced_atoms: O36-1
r_bond_atoms: O37
r_displaced_atoms: H37

[Term]
id: BpForms:dna:GSS
name: 2'-deoxy-n2-(s)styrene oxide guanosine monophosphate
synonym: "2'-deoxy-N-[(1S)-2-hydroxy-1-phenylethyl]guanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[2-[[(1S)-2-hydroxy-1-phenyl-ethyl]amino]-6-oxo-1H-purin-9-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: GSS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: OC[C@@H](c1ccccc1)Nc1[nH]c(=O)c2c(n1)n(cn2)[C@@H]1C[C@@H]([C@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P33
l_displaced_atoms: O36-1
r_bond_atoms: O37
r_displaced_atoms: H37

[Term]
id: BpForms:dna:GX1
name: 2'-deoxy-5'-o-{(s)-hydroxy[(2-sulfanylethyl)amino]phosphoryl}guanosine
synonym: "2'-deoxy-5'-O-{(S)-hydroxy[(2-sulfanylethyl)amino]phosphoryl}guanosine" BROAD []
synonym: "[(2R,3S,5R)-5-(2-azanyl-6-oxo-1H-purin-9-yl)-3-hydroxy-oxolan-2-yl]methoxy-N-(2-sulfanylethyl)phosphonamidic acid" BROAD []
synonym: "pdb-ccd: GX1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: SCCN[P@](=O)(OC[C@@H]1O[C@H](C[C@H]1O)n1cnc2c1nc(N)[nH]c2=O)[O-]
r_bond_atoms: O17
r_displaced_atoms: H17

[Term]
id: BpForms:dna:HEU
name: 3-(2-hydroxyethyl)-2'-deoxyuridine-5'-monophosphate
synonym: "2'-deoxy-3-(2-hydroxyethyl)uridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[3-(2-hydroxyethyl)-2,4-dioxo-pyrimidin-1-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: HEU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: OCCn1c(=O)ccn(c1=O)[C@H]1C[C@H]([C@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P22
l_displaced_atoms: O25-1
r_bond_atoms: O26
r_displaced_atoms: H26

[Term]
id: BpForms:dna:HN0
name: 2'-deoxy-n-[(2s,3s,5r)-5-hydroxy-2-pentyltetrahydrofuran-3-yl]guanosine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-N-[(2S,3S,5R)-5-hydroxy-2-pentyltetrahydrofuran-3-yl]guanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,5R)-3-oxidanyl-5-[6-oxidanylidene-2-[[(2S,3S,5R)-5-oxidanyl-2-pentyl-oxolan-3-yl]amino]-1H-purin-9-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: HN0" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: CCCCC[C@@H]1O[C@@H](C[C@H]1Nc1[nH]c(=O)c2c(n1)n(cn2)[C@H]1O[C@H]([C@H](C1)O)COP(=O)([O-])[O-])O
l_bond_atoms: P37
l_displaced_atoms: O39-1
r_bond_atoms: O34
r_displaced_atoms: H34

[Term]
id: BpForms:dna:HN1
name: (6s,8r)-3-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-8-hydroxy-6-[(1s)-1-hydroxyhexyl]-4,6,7,8-tetrahydropyrimido[1,2-a]purin-10(3h)-one
synonym: "(6S,8R)-3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-8-hydroxy-6-[(1S)-1-hydroxyhexyl]-4,6,7,8-tetrahydropyrimido[1,2-a]purin-10(3H)-one" BROAD []
synonym: "[(2R,3S,5R)-3-oxidanyl-5-[(6S,8R)-8-oxidanyl-6-[(1S)-1-oxidanylhexyl]-10-oxidanylidene-4,6,7,8-tetrahydropyrimido[1,2-a]purin-3-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: HN1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: CCCCC[C@@H]([C@H]1C[C@H](O)n2c(=N1)[nH]c1c(c2=O)ncn1[C@H]1C[C@H]([C@@H](O1)COP(=O)([O-])[O-])O)O
l_bond_atoms: P36
l_displaced_atoms: O38-1
r_bond_atoms: O40
r_displaced_atoms: H40

[Term]
id: BpForms:dna:HOL
name: alpha-cholest-5-en-3-yl 3-[(2-deoxy-5-o-phosphono-alpha-d-glycero-pentofuranosyl)oxy]propylcarbamate
synonym: "(3alpha,8alpha)-cholest-5-en-3-yl {3-[(2-deoxy-5-O-phosphono-alpha-D-erythro-pentofuranosyl)oxy]propyl}carbamate" BROAD []
synonym: "N" BROAD []
synonym: "[(3S,8S,9S,10R,13R,14S,17R)-10,13-dimethyl-17-[(2R)-6-methylheptan-2-yl]-2,3,4,7,8,9,11,12,14,15,16,17-dodecahydro-1H-cyclopenta[a]phenanthren-3-yl] N-[3-[(2S,4S,5R)-4-hydroxy-5-(phosphonooxymethyl)oxolan-2-yl]oxypropyl]carbamate" BROAD []
synonym: "pdb-ccd: HOL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: CC(CCC[C@@H]([C@@H]1CC[C@@H]2[C@]1(C)CC[C@@H]1[C@@H]2CC=C2[C@]1(C)CC[C@@H](C2)OC(=O)NCCCO[C@H]1C[C@H]([C@@H](O1)COP(=O)([O-])[O-])O)C)C
l_bond_atoms: P50
l_displaced_atoms: O53-1
r_bond_atoms: O54
r_displaced_atoms: H54

[Term]
id: BpForms:dna:IGU
name: 2'-deoxyisoguanine-5'-monophosphate
synonym: "2'-deoxy-2-oxo-2-hydroadenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-5-(6-azanyl-2-oxidanylidene-1H-purin-9-yl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: IGU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)([O-])[O-])n1cnc2c1nc(=O)[nH]c2N
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:IMC
name: n1-[2-deoxy-ribofuranosyl]-[2-amino-5-methyl-4-oxo-4h-pyrimidine]-5'-monophosphate
synonym: "2-amino-1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-5-methylpyrimidin-4(1H)-one" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5R)-5-(2-amino-5-methyl-4-oxo-pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: IMC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1cc(C)c(=O)nc1N
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:JDT
name: 2'-deoxy-5-ethyluridine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-5-ethyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,5R)-5-(5-ethyl-2,4-dioxo-pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: JDT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: CCc1cn([C@H]2C[C@H]([C@@H](O2)COP(=O)([O-])[O-])O)c(=O)[nH]c1=O
l_bond_atoms: P16
l_displaced_atoms: O19-1
r_bond_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:dna:LGP
name: n9-1-hydroxy-prop-2-oxymethyl-guanine-3'-monophosphate
synonym: "(2S)-2-[(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)methoxy]-3-hydroxypropyl dihydrogen phosphate" BROAD []
synonym: "G" BROAD []
synonym: "[(2S)-2-[(2-amino-6-oxo-1H-purin-9-yl)methoxy]-3-hydroxy-propyl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: LGP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: OC[C@@H](COP(=O)([O-])[O-])OCn1cnc2c1nc(N)[nH]c2=O
l_bond_atoms: P7
l_displaced_atoms: O10-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:LHO
name: 2-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-6-methylisoquinoline-1(2h)-thione
synonym: "2-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-6-methylisoquinoline-1(2H)-thione" BROAD []
synonym: "[(2R,3S,5R)-5-(6-methyl-1-sulfanylidene-isoquinolin-2-yl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: LHO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@@H](O[C@H]1COP(=O)([O-])[O-])n1ccc2c(c1=S)ccc(c2)C
l_bond_atoms: P12
l_displaced_atoms: O14-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:LSH
name: [(1r,5r,7r,8s)-7-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-8-oxidanyl-3,3-bis(oxidanylidene)-6-oxa-3$l^{6}-thia-2-azabicyclo[3.2.1]octan-5-yl]methyl dihydrogen phosphate
synonym: "[(1R,5R,7R,8S)-7-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-8-oxidanyl-3,3-bis(oxidanylidene)-6-oxa-3$l^{6}-thia-2-azabicyclo[3.2.1]octan-5-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: LSH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@H]1[C@@H]2NS(=O)(=O)C[C@@]1(COP(=O)(O)O)O[C@@H]2n1cc(C)c(=O)[nH]c1=O

[Term]
id: BpForms:dna:LST
name: [(1r,5r,7r,8s)-2-methyl-7-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-8-oxidanyl-3,3-bis(oxidanylidene)-6-oxa-3$l^{6}-thia-2-azabicyclo[3.2.1]octan-5-yl]methyl dihydrogen phosphate
synonym: "[(1R,5R,7R,8S)-2-methyl-7-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-8-oxidanyl-3,3-bis(oxidanylidene)-6-oxa-3$l^{6}-thia-2-azabicyclo[3.2.1]octan-5-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: LST" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@@H]1[C@@H]2[C@H](O[C@@]1(COP(=O)(O)O)CS(=O)(=O)N2C)n1cc(C)c(=O)[nH]c1=O

[Term]
id: BpForms:dna:LTP
name: 4-amino-1-{2-deoxy-5-o-[(r)-hydroxy(phosphonooxy)phosphoryl]-beta-l-erythro-pentofuranosyl}pyrimidin-2(1h)-one
synonym: "4-amino-1-{2-deoxy-5-O-[(R)-hydroxy(phosphonooxy)phosphoryl]-beta-L-erythro-pentofuranosyl}pyrimidin-2(1H)-one" BROAD []
synonym: "[(2S,3R,5S)-5-(4-azanyl-2-oxidanylidene-pyrimidin-1-yl)-3-oxidanyl-oxolan-2-yl]methyl phosphono hydrogen phosphate" BROAD []
synonym: "pdb-ccd: LTP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@H](O[C@H]1CO[P@](=O)(OP(=O)(O)O)O)n1ccc(nc1=O)N

[Term]
id: BpForms:dna:LWM
name: [(1r,2s,4r)-4-{[2-amino-5-(formylamino)-6-oxo-1,6-dihydropyrimidin-4-yl]amino}-2-hydroxycyclopentyl]methyl dihydrogen phosphate
synonym: "[(1R,2S,4R)-4-[(2-azanyl-5-formamido-6-oxidanylidene-1H-pyrimidin-4-yl)amino]-2-oxidanyl-cyclopentyl]methyl dihydrogen phosphate" BROAD []
synonym: "[(1R,2S,4R)-4-{[2-amino-5-(formylamino)-6-oxo-1,6-dihydropyrimidin-4-yl]amino}-2-hydroxycyclopentyl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: LWM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O=CNc1c(N[C@@H]2C[C@H]([C@H](C2)O)COP(=O)([O-])[O-])nc([nH]c1=O)N
r_bond_atoms: O15
r_displaced_atoms: H15

[Term]
id: BpForms:dna:M1G
name: 3-(2-deoxy-beta-d-ribofuranosyl)-pyrido[5,6-a]-purine-10-one-5'-monophosphate
synonym: "3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)pyrimido[1,2-a]purin-10(3H)-one" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(10-oxopyrimido[1,2-a]purin-3-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: M1G" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)([O-])[O-])n1cnc2c1nc1ncccn1c2=O
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:MA7
name: 1n-methyladenosine-5'-monophosphate
synonym: "2'-deoxy-1-methyladenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,5R)-5-(6-amino-1-methyl-purin-1-ium-9-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: MA7" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1cnc2c1nc[n+](c2N)C
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:MBZ
name: 1-[2-deoxyribofuranosyl]-4-methyl-benzoimidazole-5'-monophosphate
synonym: "1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-4-methyl-1H-benzimidazole" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(4-methylbenzimidazol-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: MBZ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1cnc2c1cccc2C
l_bond_atoms: P12
l_displaced_atoms: O15-1

[Term]
id: BpForms:dna:MCY
name: 5-methyl-2'-deoxycytidine
synonym: "2'-deoxy-5-methylcytidine" BROAD []
synonym: "4-amino-1-[(2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-5-methyl-pyrimidin-2-one" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: MCY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: OC[C@@H]1O[C@H](C[C@@H]1O)n1cc(C)c(nc1=O)N
r_bond_atoms: O11
r_displaced_atoms: H11

[Term]
id: BpForms:dna:MDJ
name: 4-amino-1-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-3-(hydroxymethyl)pyridin-2(1h)-one
synonym: "4-amino-1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-3-(hydroxymethyl)pyridin-2(1H)-one" BROAD []
synonym: "[(2R,3S,5R)-5-[4-azanyl-3-(hydroxymethyl)-2-oxo-pyridin-1-yl]-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: MDJ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: OCc1c(N)ccn(c1=O)[C@H]1C[C@H]([C@@H](O1)COP(=O)(O)O)O
r_bond_atoms: O25
r_displaced_atoms: H25

[Term]
id: BpForms:dna:MDK
name: 4-amino-1-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-3-methylpyridin-2(1h)-one
synonym: "4-amino-1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-3-methylpyridin-2(1H)-one" BROAD []
synonym: "[(2R,3S,5R)-5-(4-azanyl-3-methyl-2-oxo-pyridin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: MDK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@@H](O[C@H]1COP(=O)(O)O)n1ccc(c(c1=O)C)N
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:MDQ
name: 2'-deoxy-3-(oxidomethyl)cytidine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-3-(oxidomethyl)cytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[6-azanyl-3-[(2R,4S,5R)-4-hydroxy-5-(phosphonooxymethyl)oxolan-2-yl]-2-oxo-pyrimidin-1-ium-1-yl]methanolate" BROAD []
synonym: "pdb-ccd: MDQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: [O-]C[n+]1c(N)ccn(c1=O)[C@H]1C[C@@H]([C@@H](O1)COP(=O)(O)O)O
r_bond_atoms: O25
r_displaced_atoms: H25

[Term]
id: BpForms:dna:MDR
name: 9-(2-deoxy-beta-d-ribofuranosyl)-6-methylpurine
synonym: "(2R,3S,5R)-2-(hydroxymethyl)-5-(6-methylpurin-9-yl)oxolan-3-ol" BROAD []
synonym: "9-(2-deoxy-beta-D-erythro-pentofuranosyl)-6-methyl-9H-purine" BROAD []
synonym: "N" BROAD []
synonym: "pdb-ccd: MDR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: OC[C@H]1O[C@H](C[C@H]1O)n1cnc2c1ncnc2C

[Term]
id: BpForms:dna:MDU
name: 3-(hydroxymethyl)thymidine 5'-(dihydrogen phosphate)
synonym: "3-(hydroxymethyl)thymidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[3-(hydroxymethyl)-5-methyl-2,4-dioxo-pyrimidin-1-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: MDU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: OCn1c(=O)n(cc(c1=O)C)[C@H]1C[C@H]([C@@H](O1)COP(=O)(O)O)O
r_bond_atoms: O26
r_displaced_atoms: H26

[Term]
id: BpForms:dna:MDV
name: (7s,8s)-3-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-7,8-dihydro-3h-imidazo[2,1-i]purine-7,8-diol
synonym: "(7S,8S)-3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-7,8-dihydro-3H-imidazo[2,1-i]purine-7,8-diol" BROAD []
synonym: "[(2R,3S,5R)-5-[(7S,8S)-7,8-dihydroxy-7,8-dihydroimidazo[2,1-f]purin-3-yl]-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: MDV" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@@H](O[C@H]1COP(=O)(O)O)n1cnc2c1ncn1c2=N[C@@H]([C@@H]1O)O
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:ME6
name: [(2r,3s,5r)-5-(4-azanyl-3-methyl-2-oxo-pyrimidin-3-ium-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate
synonym: "[(2R,3S,5R)-5-(4-azanyl-3-methyl-2-oxo-pyrimidin-3-ium-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: ME6" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1C[C@H](O[C@H]1COP(=O)(O)O)n1ccc([n+](c1=O)C)N
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:MF7
name: n-{2-amino-5-[formyl(methyl)amino]-6-hydroxypyrimidin-4-yl}-2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosylamine
synonym: "N-{2-amino-5-[formyl(methyl)amino]-6-hydroxypyrimidin-4-yl}-2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosylamine" BROAD []
synonym: "[(2R,3S,5R)-5-[[2-azanyl-5-[methanoyl(methyl)amino]-6-oxidanyl-pyrimidin-4-yl]amino]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: MF7" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O=CN(c1c(N[C@@H]2C[C@@H]([C@@H](O2)COP(=O)(O)O)O)nc(nc1O)N)C

[Term]
id: BpForms:dna:MFO
name: [(2~{r},3~{s},5~{r})-5-[2-azanyl-8-[ethanoyl(naphthalen-2-yl)amino]-6-oxidanylidene-3~{h}-purin-9-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate
synonym: "G" BROAD []
synonym: "[(2~{R},3~{S},5~{R})-5-[2-azanyl-8-[ethanoyl(naphthalen-2-yl)amino]-6-oxidanylidene-3~{H}-purin-9-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: MFO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)(O)O)n1c(nc2c1[nH]c(N)nc2=O)N(c1ccc2c(c1)cccc2)C(=O)C

[Term]
id: BpForms:dna:MFT
name: 3-methylthymidine 5'-(dihydrogen phosphate)
synonym: "3-methylthymidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,5R)-5-(3,5-dimethyl-2,4-dioxo-pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: MFT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)(O)O)n1cc(C)c(=O)n(c1=O)C
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:MM7
name: (1r)-1,4-anhydro-2-deoxy-1-(2-methoxy-4-methylphenyl)-5-o-phosphono-d-erythro-pentitol
synonym: "(1R)-1,4-anhydro-2-deoxy-1-(2-methoxy-4-methylphenyl)-5-O-phosphono-D-erythro-pentitol" BROAD []
synonym: "[(2R,3S,5R)-5-(2-methoxy-4-methyl-phenyl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: MM7" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: COc1cc(C)ccc1[C@@H]1C[C@@H]([C@@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P20
l_displaced_atoms: O23-1
r_bond_atoms: O24
r_displaced_atoms: H24

[Term]
id: BpForms:dna:MMT
name: 5'-o-(dimethylamino)-thymidine
synonym: "1-[(2R,4S,5R)-5-(dimethylaminooxymethyl)-4-hydroxy-oxolan-2-yl]-5-methyl-pyrimidine-2,4-dione" BROAD []
synonym: "5'-O-(dimethylamino)thymidine" BROAD []
synonym: "T" BROAD []
synonym: "pdb-ccd: MMT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: CN(OC[C@H]1O[C@@H](C[C@H]1O)n1cc(C)c(=O)[nH]c1=O)C
r_bond_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:dna:MRG
name: n2-(3-mercaptopropyl)-2'-deoxyguanosine-5'-monophosphate
synonym: "2'-deoxy-N-(3-sulfanylpropyl)guanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[6-oxo-2-(3-sulfanylpropylamino)-1H-purin-9-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: MRG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: SCCCNc1[nH]c(=O)c2c(n1)n(cn2)[C@H]1C[C@@H]([C@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P27
l_displaced_atoms: O30-1
r_bond_atoms: O31
r_displaced_atoms: H31

[Term]
id: BpForms:dna:MTR
name: (5-methyl-6-oxo-1,6-dihydro-pyridin-3-yl)-1,2-dideoxy-ribofuranose-5-monophosphate
synonym: "(1R)-1,4-anhydro-2-deoxy-1-(5-methyl-6-oxo-1,6-dihydropyridin-3-yl)-5-O-phosphono-D-erythro-pentitol" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(5-methyl-6-oxo-1H-pyridin-3-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: MTR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])c1c[nH]c(=O)c(c1)C
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:N4S
name: n-[3-({4-[(3-aminopropyl)amino]butyl}amino)propyl]-2'-deoxycytidine 5'-(dihydrogen phosphate)
synonym: "N-[3-({4-[(3-aminopropyl)amino]butyl}amino)propyl]-2'-deoxycytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,5R)-5-[4-[3-[4-(3-azanylpropylamino)butylamino]propylamino]-2-oxidanylidene-pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: N4S" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: NCCCNCCCCNCCCNc1ccn(c(=O)n1)[C@@H]1C[C@H]([C@@H](O1)COP(=O)(O)O)O

[Term]
id: BpForms:dna:N5I
name: 1-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-5-nitro-1h-indole
synonym: "1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-5-nitro-1H-indole" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(5-nitroindol-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: N5I" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)(O)O)n1ccc2c1ccc(c2)[N+](=O)[O-]

[Term]
id: BpForms:dna:NCU
name: [(1r,5r,7r,8s)-7-(4-amino-5-methyl-2-oxopyrimidin-1(2h)-yl)-8-hydroxy-3-methyl-2,6-dioxa-3-azabicyclo[3.2.1]oct-5-yl]methyl dihydrogen phosphate
synonym: "[(1R,5R,7R,8S)-7-(4-amino-5-methyl-2-oxopyrimidin-1(2H)-yl)-8-hydroxy-3-methyl-2,6-dioxa-3-azabicyclo[3.2.1]oct-5-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(1R,5R,7R,8S)-7-(4-azanyl-5-methyl-2-oxidanylidene-pyrimidin-1-yl)-3-methyl-8-oxidanyl-2,6-dioxa-3-azabicyclo[3.2.1]octan-5-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: NCU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: CN1O[C@H]2[C@@H](O[C@](C1)([C@H]2O)COP(=O)([OH-])[O-])n1cc(C)c(nc1=O)N
l_bond_atoms: P16
l_displaced_atoms: O20-1
r_bond_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:dna:NCX
name: 1-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-5-nitro-1h-indole-3-carboxamide
synonym: "1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-5-nitro-1H-indole-3-carboxamide" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,5R)-5-(3-aminocarbonyl-5-nitro-indol-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: NCX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1cc(c2c1ccc(c2)[N+](=O)[O-])C(=O)N
l_bond_atoms: P12
l_displaced_atoms: O14-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:NDN
name: 2'-deoxy-5-nitrouridine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-5-nitrouridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(5-nitro-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: NDN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1cc([N+](=O)[O-])c(=O)[nH]c1=O
l_bond_atoms: P12
l_displaced_atoms: O15-1

[Term]
id: BpForms:dna:NMS
name: 1-(o2-(2-methylamino-2-oxo-ethyl)-o5-hydroxyphosphinyl-beta-d-ribofuranosyl)thymine
synonym: "5-methyl-2'-O-[2-(methylamino)-2-oxoethyl]uridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3R,4R,5R)-3-hydroxy-4-(2-methylamino-2-oxo-ethoxy)-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: NMS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: CNC(=O)CO[C@@H]1[C@H](O)[C@H](O[C@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P29
l_displaced_atoms: O32-1
r_bond_atoms: O11
r_displaced_atoms: H11

[Term]
id: BpForms:dna:NMT
name: 1-(o2-(methylcarbamoyl)-o5-hydroxyphosphinyl-beta-d-ribofuranosyl)thymine
synonym: "2'-O-[(S)-hydroxy(methylamino)methyl]-5-methyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3R,4R,5R)-3-hydroxy-4-(hydroxy-methylamino-methoxy)-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: NMT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: CN[C@H](O[C@@H]1[C@H](O)[C@H](O[C@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)([O-])[O-])O
l_bond_atoms: P28
l_displaced_atoms: O30-1
r_bond_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:dna:NP3
name: 1-[2-deoxy-ribofuranosyl]-1h-[3-nitro-pyrrol]-5'-phosphate
synonym: "1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-3-nitro-1H-pyrrole" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(3-nitropyrrol-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: NP3" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@@H](O[C@@H]1COP(=O)(O)O)n1ccc(c1)[N+](=O)[O-]

[Term]
id: BpForms:dna:NR1
name: (3r,4r)-3-hydroxy-4-[(phosphonooxy)methyl]pyrrolidinium
synonym: "(3R,4R)-3-hydroxy-4-[(phosphonooxy)methyl]pyrrolidinium" BROAD []
synonym: "[(3R,4R)-4-oxidanylpyrrolidin-1-ium-3-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: NR1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[NH2+]C[C@@H]1COP(=O)(O)O

[Term]
id: BpForms:dna:NRI
name: phosphoric acid mono-(4-hydroxy-pyrrolidin-3-ylmethyl) ester
synonym: "[(3R,4R)-4-hydroxypyrrolidin-3-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: NRI" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1CNC[C@H]1COP(=O)(O)O
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:NTT
name: [(1r,5r,7r,8s)-8-hydroxy-3-methyl-7-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)-2,6-dioxa-3-azabicyclo[3.2.1]oct-5-yl]methyl dihydrogen phosphate
synonym: "[(1R,5R,7R,8S)-3-methyl-7-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-8-oxidanyl-2,6-dioxa-3-azabicyclo[3.2.1]octan-5-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(1R,5R,7R,8S)-8-hydroxy-3-methyl-7-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-2,6-dioxa-3-azabicyclo[3.2.1]oct-5-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: NTT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: CN1O[C@H]2[C@H](O[C@@](C1)([C@H]2O)COP(=O)([O-])[O-])n1cc(C)c(=O)[nH]c1=O
l_bond_atoms: P16
l_displaced_atoms: O19-1
r_bond_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:dna:NYM
name: 3'-deoxy-3'-aminothymidine monophosphate
synonym: "3'-amino-3'-deoxythymidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "N" BROAD []
synonym: "[(2S,3S,5R)-3-amino-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: NYM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: N[C@H]1C[C@H](O[C@@H]1COP(=O)(O)O)n1cc(C)c(=O)[nH]c1=O

[Term]
id: BpForms:dna:OGX
name: 2'-deoxy-5'-o-{(s)-hydroxy[(2-sulfanylethyl)amino]phosphoryl}-8-oxoguanosine
synonym: "2'-deoxy-5'-O-{(S)-hydroxy[(2-sulfanylethyl)amino]phosphoryl}-8-oxoguanosine" BROAD []
synonym: "[(2R,3S,5R)-5-(2-azanyl-6,8-dioxo-1,7-dihydropurin-9-yl)-3-hydroxy-oxolan-2-yl]methoxy-N-(2-sulfanylethyl)phosphonamidic acid" BROAD []
synonym: "pdb-ccd: OGX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: SCCN[P@@](=O)(OC[C@@H]1O[C@H](C[C@H]1O)n1c(=O)[nH]c2c1nc(N)[nH]c2=O)[O-]
r_bond_atoms: O17
r_displaced_atoms: H17

[Term]
id: BpForms:dna:OHU
name: 2'-deoxy-5-hydroxyuridine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-5-hydroxyuridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,5R)-3-oxidanyl-5-[5-oxidanyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: OHU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@@H](O[C@H]1COP(=O)([O-])[O-])n1cc(O)c(=O)[nH]c1=O
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:P
name: 2'-deoxy-n1,n2-propano guanosine monophosphate
synonym: "3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-5,6,7,8-tetrahydropyrimido[1,2-a]purin-10(3H)-one" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(10-oxo-5,6,7,8-tetrahydropyrimido[1,2-a]purin-3-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: P" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)([O-])[O-])n1cnc2c1nc1NCCCn1c2=O
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:P2U
name: 2'-deoxy-pseudouridine-5'monophosphate
synonym: "(1R)-1,4-anhydro-2-deoxy-1-(2,4-dioxo-1,2,3,4-tetrahydropyrimidin-5-yl)-5-O-phosphono-D-erythro-pentitol" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,5R)-5-(2,4-dioxo-1H-pyrimidin-5-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: P2U" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@@H](O[C@H]1COP(=O)([O-])[O-])c1c[nH]c(=O)[nH]c1=O
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:PBT
name: [3-hydroxy-5-(5-methyl-2,4-dioxotetrahydro-1(2h)-pyrimidinyl)tetrahydro-2-furanyl]methyl dihydrogen phosphate
synonym: "5'-thymidylic acid" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[(5R)-5-methyl-2,4-dioxo-1,3-diazinan-1-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: PBT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)(O)O)N1C[C@H](C)C(=O)NC1=O

[Term]
id: BpForms:dna:PDU
name: 5(1-propynyl)-2'-deoxyuridine-5-monophosphate
synonym: "2'-deoxy-5-propyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,5R)-5-(2,4-dioxo-5-propyl-pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: PDU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: CCCc1cn([C@@H]2C[C@@H]([C@H](O2)COP(=O)([O-])[O-])O)c(=O)[nH]c1=O
l_bond_atoms: P17
l_displaced_atoms: O19-1
r_bond_atoms: O21
r_displaced_atoms: H21

[Term]
id: BpForms:dna:PGN
name: 2'-deoxyguanosine-3',5'-diphosphate
synonym: "2'-deoxyguanosine 3',5'-bis(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-2-(phosphonooxymethyl)oxolan-3-yl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: PGN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: Nc1[nH]c(=O)c2c(n1)n(cn2)[C@@H]1C[C@@H]([C@H](O1)COP(=O)([O-])[O-])OP(=O)(O)O
l_bond_atoms: P23
l_displaced_atoms: O26-1

[Term]
id: BpForms:dna:PPW
name: 7-deaza-8-aza-2'-deoxyguanosine-5'-monophosphate
synonym: "6-amino-1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-1,5-dihydro-4H-pyrazolo[3,4-d]pyrimidin-4-one" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-5-(6-amino-4-oxo-5H-pyrazolo[5,4-d]pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: PPW" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1ncc2c1nc(N)[nH]c2=O
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:PRN
name: purine 2'-deoxyribo-5'-monophosphate
synonym: "9-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-9H-purine" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-purin-9-yl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: PRN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: O[C@@H]1C[C@@H](O[C@H]1COP(=O)([O-])[O-])n1cnc2c1ncnc2
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:PST
name: thymidine-5'-thiophosphate
synonym: "1-[(2R,4S,5R)-5-(dihydroxyphosphinothioyloxymethyl)-4-hydroxy-oxolan-2-yl]-5-methyl-pyrimidine-2,4-dione" BROAD []
synonym: "5'-O-thiophosphonothymidine" BROAD []
synonym: "T" BROAD []
synonym: "pdb-ccd: PST" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=S)([O-])[O-])n1cc(C)c(=O)[nH]c1=O
l_bond_atoms: P12
l_displaced_atoms: O15-1

[Term]
id: BpForms:dna:PVX
name: n-(2-amino-5-{formyl[(6as,8r,9r,9ar)-9-hydroxy-4-methoxy-1,11-dioxo-1,6a,8,9,9a,11-hexahydrocyclopenta[c]furo[3',2':4,5]furo[2,3-h]chromen-8-yl]amino}-6-oxo-1,6-dihydropyrimidin-4-yl)-2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosylamine
synonym: "N-(2-amino-5-{formyl[(6aS,8R,9R,9aR)-9-hydroxy-4-methoxy-1,11-dioxo-1,6a,8,9,9a,11-hexahydrocyclopenta[c]furo[3',2':4,5]furo[2,3-h]chromen-8-yl]amino}-6-oxo-1,6-dihydropyrimidin-4-yl)-2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosylamine" BROAD []
synonym: "pdb-ccd: PVX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O=CN(c1c(N[C@@H]2C[C@@H]([C@@H](O2)COP(=O)(O)O)O)nc([nH]c1=O)N)[C@H]1O[C@H]2[C@@H]([C@@H]1O)c1c(O2)cc(c2c1oc(=O)c1c2C=CC1=O)OC
r_bond_atoms: O21
r_displaced_atoms: H21

[Term]
id: BpForms:dna:PZG
name: [(2~{r},3~{s},4~{r},5~{r})-5-(2-azanyl-6-oxidanylidene-1~{h}-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-(3-methyl-1~{h}-pyrazol-4-yl)phosphinic acid
synonym: "[(2~{R},3~{S},4~{R},5~{R})-5-(2-azanyl-6-oxidanylidene-1~{H}-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-(3-methyl-1~{H}-pyrazol-4-yl)phosphinic acid" BROAD []
synonym: "pdb-ccd: PZG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1[C@@H](CO[P@](=O)(c2c[nH]nc2C)O)O[C@H]([C@@H]1O)n1cnc2c1nc(N)[nH]c2=O

[Term]
id: BpForms:dna:QBT
name: [(2r,3s,5r)-3-hydroxy-5-[(5s)-5-methyl-2,4-dioxo-1,3-diazinan-1-yl]oxolan-2-yl]methyl dihydrogen phosphate
synonym: "T" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[(5S)-5-methyl-2,4-dioxo-1,3-diazinan-1-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: QBT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)(O)O)N1C[C@H](C)C(=O)NC1=O

[Term]
id: BpForms:dna:R
name: 2'-deoxy-n6-(r)styrene oxide adenosine monophosphate
synonym: "2'-deoxy-N-[(1R)-2-hydroxy-1-phenylethyl]adenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[6-[[(1R)-2-hydroxy-1-phenyl-ethyl]amino]purin-9-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: R" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: OC[C@@H](c1ccccc1)Nc1ncnc2c1ncn2[C@@H]1C[C@@H]([C@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P31
l_displaced_atoms: O34-1
r_bond_atoms: O35
r_displaced_atoms: H35

[Term]
id: BpForms:dna:RBD
name: (r,r)-n6,n6-(2,3-dihydroxy-1,4-butadiyl)-2'-deoxyadenosine-5'-monophosphate
synonym: "(3R,4R)-1-[9-[(2R,4S,5R)-4-oxidanyl-5-[[tris(oxidanyl)-$l^{5}-phosphanyl]oxymethyl]oxolan-2-yl]purin-6-yl]pyrrolidine-3,4-diol" BROAD []
synonym: "(3R,4R)-1-{9-[(2R,4S,5R)-4-hydroxy-5-{[(trihydroxy-lambda~5~-phosphanyl)oxy]methyl}tetrahydrofuran-2-yl]-9H-purin-6-yl}pyrrolidine-3,4-diol (non-preferred name)" BROAD []
synonym: "pdb-ccd: RBD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: O[C@@H]1C[C@H](O[C@H]1COP(O)(O)O)n1cnc2c1ncnc2N1C[C@@H]([C@H](C1)O)O

[Term]
id: BpForms:dna:RCE
name: 1-{2,5-anhydro-6-deoxy-4-[(phosphonooxy)methyl]-beta-d-gulofuranosyl}pyrimidine-2,4(1h,3h)-dione
synonym: "1-{2,5-anhydro-6-deoxy-4-[(phosphonooxy)methyl]-beta-D-gulofuranosyl}pyrimidine-2,4(1H,3H)-dione" BROAD []
synonym: "[(1R,3R,4R,6R,7S)-6-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3-methyl-7-oxidanyl-2,5-dioxabicyclo[2.2.1]heptan-4-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: RCE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: C[C@H]1O[C@H]2[C@H]([C@@]1(COP(=O)(O)O)O[C@H]2n1ccc(=O)[nH]c1=O)O
r_bond_atoms: O28
r_displaced_atoms: H28

[Term]
id: BpForms:dna:RDG
name: 2'-deoxy-n-(furan-2-ylmethyl)guanosine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-N-(furan-2-ylmethyl)guanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,5R)-5-[2-(furan-2-ylmethylamino)-6-oxidanylidene-1H-purin-9-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: RDG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@H](O[C@H]1COP(=O)(O)O)n1cnc2c1nc(NCc1ccco1)[nH]c2=O
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:RMP
name: 2'-deoxy-adenosine-5'-rp-monomethylphosphonate
synonym: "2'-deoxy-5'-O-[(S)-hydroxy(methyl)phosphoryl]adenosine" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,5R)-5-(6-aminopurin-9-yl)-3-hydroxy-oxolan-2-yl]methoxy-methyl-phosphinic acid" BROAD []
synonym: "pdb-ccd: RMP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: O[C@@H]1C[C@@H](O[C@@H]1CO[P@](=O)(C)[O-])n1cnc2c1ncnc2N
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:S4A
name: 2'-deoxy-4'-thioadenosine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-4'-thioadenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,5R)-5-(6-aminopurin-9-yl)-3-hydroxy-thiolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: S4A" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: O[C@@H]1C[C@@H](S[C@@H]1COP(=O)(O)O)n1cnc2c1ncnc2N
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:S4G
name: 2'-deoxy-4'-thioguanosine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-4'-thioguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-3-hydroxy-thiolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: S4G" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@@H](S[C@H]1COP(=O)(O)O)n1cnc2c1nc(N)[nH]c2=O
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:S6G
name: 6-thio-2'-deoxyguanosine-5'-monophosphate
synonym: "2-amino-9-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-1,9-dihydro-6H-purine-6-thione" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-5-(2-amino-6-sulfanylidene-1H-purin-9-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: S6G" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)([O-])[O-])n1cnc2c1nc(N)[nH]c2=S
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:SAY
name: [(2r,3s,5r)-3-hydroxy-5-(3-hydroxy-4-methanoyl-phenyl)oxolan-2-yl]methyl dihydrogen phosphate
synonym: "[(2R,3S,5R)-3-hydroxy-5-(3-hydroxy-4-methanoyl-phenyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: SAY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O=Cc1ccc(cc1O)[C@@H]1C[C@@H]([C@H](O1)COP(=O)(O)O)O

[Term]
id: BpForms:dna:SC
name: 2-deoxy-cytidine-5'-thiophosphorate
synonym: "2'-deoxy-5'-O-thiophosphonocytidine" BROAD []
synonym: "4-amino-1-[(2R,4S,5R)-5-(dihydroxyphosphinothioyloxymethyl)-4-hydroxy-oxolan-2-yl]pyrimidin-2-one" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: SC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1C[C@@H](O[C@H]1COP(=S)([O-])[O-])n1ccc(nc1=O)N
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:SDE
name: (s,s)-n6,n6-(2,3-dihydroxy-1,4-butadiyl)-2'-deoxyadenosine-5'-monophosphate
synonym: "(3S,4S)-1-[9-[(2R,4S,5R)-4-oxidanyl-5-[[tris(oxidanyl)-$l^{5}-phosphanyl]oxymethyl]oxolan-2-yl]purin-6-yl]pyrrolidine-3,4-diol" BROAD []
synonym: "(3S,4S)-1-{9-[(2R,4S,5R)-4-hydroxy-5-{[(trihydroxy-lambda~5~-phosphanyl)oxy]methyl}tetrahydrofuran-2-yl]-9H-purin-6-yl}pyrrolidine-3,4-diol (non-preferred name)" BROAD []
synonym: "pdb-ccd: SDE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: O[C@@H]1C[C@H](O[C@H]1COP(O)(O)O)n1cnc2c1ncnc2N1C[C@@H]([C@H](C1)O)O

[Term]
id: BpForms:dna:SDG
name: 2-amino-9-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-9h-purine-6-selenol
synonym: "2-amino-9-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-9H-purine-6-selenol" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-5-(2-amino-6-selanyl-purin-9-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: SDG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@@H](O[C@H]1COP(=O)(O)O)n1cnc2c1nc(N)nc2[SeH]
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:SDH
name: (5s)-7-amino-1-[2-deoxy-5-o-(trihydroxy-lambda~5~-phosphanyl)-beta-d-erythro-pentofuranosyl]-1,3,6,8-tetraazaspiro[4.4]non-7-ene-2,4,9-trione
synonym: "(5S)-7-amino-1-[2-deoxy-5-O-(trihydroxy-lambda~5~-phosphanyl)-beta-D-erythro-pentofuranosyl]-1,3,6,8-tetraazaspiro[4.4]non-7-ene-2,4,9-trione" BROAD []
synonym: "(5S)-7-azanyl-1-[(2R,4S,5R)-4-oxidanyl-5-[[tris(oxidanyl)-$l^{5}-phosphanyl]oxymethyl]oxolan-2-yl]-1,3,6,8-tetrazaspiro[4.4]non-7-ene-2,4,9-trione" BROAD []
synonym: "pdb-ccd: SDH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: NC1=NC(=O)[C@@]2(N1)C(=O)NC(=O)N2[C@H]1O[C@H]([C@@H](C1)O)COP(O)(O)O

[Term]
id: BpForms:dna:SMP
name: 2'-deoxy-adenosine-5'-sp-monomethylphosphonate
synonym: "2'-deoxy-5'-O-[(R)-hydroxy(methyl)phosphoryl]adenosine" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,5R)-5-(6-aminopurin-9-yl)-3-hydroxy-oxolan-2-yl]methoxy-methyl-phosphinic acid" BROAD []
synonym: "pdb-ccd: SMP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: O[C@@H]1C[C@@H](O[C@@H]1CO[P@](=O)(C)[O-])n1cnc2c1ncnc2N
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:SOS
name: [(1r,2s,4r)-4-({2-amino-5-[benzyl(formyl)amino]-6-oxo-1,6-dihydropyrimidin-4-yl}amino)-2-hydroxycyclopentyl]methyl dihydrogen phosphate
synonym: "N" BROAD []
synonym: "[(1R,2S,4R)-4-({2-amino-5-[benzyl(formyl)amino]-6-oxo-1,6-dihydropyrimidin-4-yl}amino)-2-hydroxycyclopentyl]methyl dihydrogen phosphate" BROAD []
synonym: "[(1R,2S,4R)-4-[[2-amino-5-(methanoyl-(phenylmethyl)amino)-6-oxo-1H-pyrimidin-4-yl]amino]-2-hydroxy-cyclopentyl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: SOS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O=CN(c1c(N[C@@H]2C[C@@H]([C@H](C2)O)COP(=O)([O-])[O-])nc([nH]c1=O)N)Cc1ccccc1
l_bond_atoms: P18
l_displaced_atoms: O20-1
r_bond_atoms: O15
r_displaced_atoms: H15

[Term]
id: BpForms:dna:SPT
name: 5'-thio-thymidine phosphonic acid
synonym: "5'-S-phosphono-5'-thiothymidine" BROAD []
synonym: "T" BROAD []
synonym: "[(2S,3S,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methylsulfanylphosphonic acid" BROAD []
synonym: "pdb-ccd: SPT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@H]1C[C@@H](O[C@@H]1CSP(=O)([O-])[O-])n1cc(C)c(=O)[nH]c1=O
l_bond_atoms: P12
l_displaced_atoms: O14-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:T0T
name: (1r)-1-{4-[(e)-2-(2-aminophenyl)ethenyl]phenyl}-1,4-anhydro-2-deoxy-5-o-phosphonato-d-erythro-pentitol
synonym: "(1R)-1-{4-[(E)-2-(2-aminophenyl)ethenyl]phenyl}-1,4-anhydro-2-deoxy-5-O-phosphono-D-erythro-pentitol" BROAD []
synonym: "[(2R,3S,5R)-5-[4-[(E)-2-(2-aminophenyl)ethenyl]phenyl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: T0T" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@@H](O[C@H]1COP(=O)(O)O)c1ccc(cc1)/C=C/c1ccccc1N
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:T2S
name: thymidine-5'-dithiophosphorate
synonym: "1-[(2R,4S,5R)-4-hydroxy-5-[(hydroxy-sulfanyl-phosphinothioyl)oxymethyl]oxolan-2-yl]-5-methyl-pyrimidine-2,4-dione" BROAD []
synonym: "5'-O-[(dithiophosphono)]thymidine" BROAD []
synonym: "T" BROAD []
synonym: "pdb-ccd: T2S" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@H]1C[C@H](O[C@@H]1CO[P@](=S)(S)[O-])n1cc(C)c(=O)[nH]c1=O
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:T32
name: 6'-alpha-methyl carbocyclic thymidine 5'-monophosphate
synonym: "T" BROAD []
synonym: "[(1R,2S,3S,5S)-5-hydroxy-2-methyl-3-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)cyclopentyl]methyl dihydrogen phosphate" BROAD []
synonym: "[(1R,2S,3S,5S)-5-hydroxy-2-methyl-3-(5-methyl-2,4-dioxo-pyrimidin-1-yl)cyclopentyl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: T32" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@H]1C[C@H]([C@H]([C@H]1COP(=O)(O)O)C)n1cc(C)c(=O)[nH]c1=O

[Term]
id: BpForms:dna:T3P
name: thymidine-3'-phosphate
synonym: "3'-thymidylic acid" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3S,5R)-2-(hydroxymethyl)-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-3-yl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: T3P" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: OC[C@H]1O[C@@H](C[C@@H]1OP(=O)([O-])[O-])n1cc(C)c(=O)[nH]c1=O
l_bond_atoms: P12
l_displaced_atoms: O15-1

[Term]
id: BpForms:dna:T48
name: 6'-alpha-hydroxy carbocyclic thymidine 5'-monophosphate
synonym: "T" BROAD []
synonym: "[(1R,2S,3S,5S)-2,5-dihydroxy-3-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)cyclopentyl]methyl dihydrogen phosphate" BROAD []
synonym: "[(1R,2S,3S,5S)-2,5-dihydroxy-3-(5-methyl-2,4-dioxo-pyrimidin-1-yl)cyclopentyl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: T48" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@H]1C[C@H]([C@H]([C@H]1COP(=O)(O)O)O)n1cc(C)c(=O)[nH]c1=O

[Term]
id: BpForms:dna:T49
name: s4'-2'deoxythymidine 5'-monophosphate
synonym: "4'-thiothymidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)thiolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: T49" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@H]1C[C@H](S[C@H]1COP(=O)(O)O)n1cc(C)c(=O)[nH]c1=O

[Term]
id: BpForms:dna:T4S
name: 1-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-4-hydroseleno-5-methylpyrimidin-2(1h)-one
synonym: "1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-5-methyl-4-selanylpyrimidin-2(1H)-one" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(5-methyl-2-oxo-4-selanyl-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: T4S" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@H]1C[C@@H](O[C@H]1COP(=O)([O-])[O-])n1cc(C)c(nc1=O)[SeH]
l_bond_atoms: P12
l_displaced_atoms: O14-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:T5O
name: 2'-deoxy-5-methoxyuridine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-5-methoxyuridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(5-methoxy-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: T5O" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: COc1cn([C@@H]2C[C@@H]([C@@H](O2)COP(=O)([O-])[O-])O)c(=O)[nH]c1=O
l_bond_atoms: P16
l_displaced_atoms: O18-1
r_bond_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:dna:T5S
name: 
2'-deoxy-5-(methylselanyl)uridine 5'-phosphate
synonym: "2'-deoxy-5-(methylselanyl)uridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(5-methylselanyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: T5S" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: C[Se]c1cn([C@H]2C[C@@H]([C@@H](O2)COP(=O)([O-])[O-])O)c(=O)[nH]c1=O
l_bond_atoms: P16
l_displaced_atoms: O18-1
r_bond_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:dna:T64
name: (6-4)photoproduct
synonym: "[(2R,4S,5R,10S,11R,13R,18R,19S)-4,8,18-trihydroxy-18,24-dimethyl-8-oxido-15,17,22-trioxo-7,9,12,26-tetraoxa-1,14,16,21-tetraaza-8-phosphapentacyclo[18.2.2.1~2,5~.1~10,13~.0~14,19~]hexacosa-20,23-dien-11-yl]methyl dihydrogen phosphate (non-preferred name)" BROAD []
synonym: "pdb-ccd: T64" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@@H]1C[C@H]2O[C@H]1CO[P@](=O)(O)O[C@@H]1C[C@H](N3[C@H](c4c(cn2c(=O)n4)C)[C@@](C)(O)C(=O)NC3=O)O[C@H]1COP(=O)([O-])[O-]
l_bond_atoms: P45
l_displaced_atoms: O47-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:TA3
name: (4s,5r)-3-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-5-methyl-1,3-diazabicyclo[2.2.0]hexan-2-one
synonym: "(4S,5R)-3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-5-methyl-1,3-diazabicyclo[2.2.0]hexan-2-one" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[(3R,4S)-3-methyl-6-oxo-1,5-diazabicyclo[2.2.0]hexan-5-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: TA3" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@@H]1C[C@H](O[C@@H]1COP(=O)(O)O)N1C(=O)N2[C@H]1[C@@H](C2)C
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:TAF
name: 2'-deoxy-2'-fluoro-arabino-furanosyl thymine-5'-phosphate
synonym: "1-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)-5-methylpyrimidine-2,4(1H,3H)-dione" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3R,4S,5R)-4-fluoro-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: TAF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@@H]1[C@@H](COP(=O)([O-])[O-])O[C@H]([C@@H]1F)n1cc(C)c(=O)[nH]c1=O
l_bond_atoms: P8
l_displaced_atoms: O11-1

[Term]
id: BpForms:dna:TC1
name: 3-(5-phospho-2-deoxy-beta-d-ribofuranosyl)-2-oxo-1,3-diaza-phenothiazine
synonym: "3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-3H-pyrimido[5,4-b][1,4]benzothiazin-2(10H)-one" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(2-oxo-10H-pyrimido[5,4-b][1,4]benzothiazin-3-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: TC1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@@H]1C[C@@H](O[C@H]1CO[P@@](=O)(O)[O-])n1cc2sc3ccccc3[nH]c2nc1=O
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:TCJ
name: [(1~{s},2~{r},4~{r},6~{s},8~{r})-8-(4-azanyl-5-methyl-2-oxidanylidene-pyrimidin-1-yl)-6-oxidanyl-9-oxatricyclo[4.3.0.0^{2,4}]nonan-2-yl] dihydrogen phosphate
synonym: "C" BROAD []
synonym: "[(1~{S},2~{R},4~{R},6~{S},8~{R})-8-(4-azanyl-5-methyl-2-oxidanylidene-pyrimidin-1-yl)-6-oxidanyl-9-oxatricyclo[4.3.0.0^{2,4}]nonan-2-yl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: TCJ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@@]12C[C@H](O[C@@H]1[C@]1([C@@H](C2)C1)OP(=O)(O)O)n1cc(C)c(nc1=O)N

[Term]
id: BpForms:dna:TCP
name: 5'-methylthymidine
synonym: "1-[(2R,4S,5R)-4-hydroxy-5-(methoxymethyl)oxolan-2-yl]-5-methyl-pyrimidine-2,4-dione" BROAD []
synonym: "5'-O-methylthymidine" BROAD []
synonym: "T" BROAD []
synonym: "pdb-ccd: TCP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: COC[C@H]1O[C@@H](C[C@@H]1O)n1cc(C)c(=O)[nH]c1=O
r_bond_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:dna:TCY
name: (2r,3as,4ar,5ar,5bs)-2-(6-amino-9h-purin-9-yl)-3a-hydroxyhexahydrocyclopropa[4,5]cyclopenta[1,2-b]furan-5a(4h)-yl dihydrogen phosphate
synonym: "(2R,3aS,4aR,5aR,5bS)-2-(6-amino-9H-purin-9-yl)-3a-hydroxyhexahydrocyclopropa[4,5]cyclopenta[1,2-b]furan-5a(4H)-yl dihydrogen phosphate" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: TCY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: Nc1ncnc2c1ncn2[C@@H]1O[C@@H]2[C@](C1)(O)C[C@@H]1[C@@]2(C1)OP(=O)(O)O
r_bond_atoms: O18
r_displaced_atoms: H18

[Term]
id: BpForms:dna:TDY
name: 5-(methylamino)thymidine 5'-(dihydrogen phosphate)
synonym: "5-(methylamino)thymidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[(5R)-5-methyl-5-methylamino-2,4-dioxo-1,3-diazinan-1-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: TDY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: CN[C@]1(C)CN([C@@H]2C[C@@H]([C@H](O2)COP(=O)(O)O)O)C(=O)NC1=O

[Term]
id: BpForms:dna:TED
name: 5-[(1e)-14-carboxy-10,13-bis(carboxymethyl)-3,8-dioxo-4,7,10,13-tetraazatetradec-1-en-1-yl]-2'-deoxyuridine 5'-(dihydrogen phosphate)
synonym: "2-[carboxymethyl-[2-[carboxymethyl-[2-[2-[[(E)-3-[1-[(2R,4S,5R)-4-hydroxy-5-(phosphonooxymethyl)oxolan-2-yl]-2,4-dioxo-pyrimidin-5-yl]prop-2-enoyl]amino]ethylamino]-2-oxo-ethyl]amino]ethyl]amino]ethanoic acid" BROAD []
synonym: "5-[(13E)-1-carboxy-2,5-bis(carboxymethyl)-7,12-dioxo-2,5,8,11-tetraazatetradec-13-en-14-yl]-2'-deoxyuridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "pdb-ccd: TED" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O=C(CN(CC(=O)O)CCN(CC(=O)O)CC(=O)O)NCCNC(=O)/C=C/c1cn([C@H]2C[C@@H]([C@H](O2)COP(=O)([O-])[O-])O)c(=O)[nH]c1=O
l_bond_atoms: P41
l_displaced_atoms: O43-1
r_bond_atoms: O45
r_displaced_atoms: H45

[Term]
id: BpForms:dna:TFF
name: 5'-o-[(r)-{[(r)-[difluoro(phosphono)methyl](hydroxy)phosphoryl](difluoro)methyl}(hydroxy)phosphoryl]thymidine
synonym: "[[[difluoro-[hydroxy-[[(2R,3S,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methoxy]phosphoryl]methyl]-hydroxy-phosphoryl]-difluoro-methyl]phosphonic acid" BROAD []
synonym: "pdb-ccd: TFF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@@H]1C[C@@H](O[C@H]1CO[P@@](=O)(C([P@](=O)(C(P(=O)(O)O)(F)F)O)(F)F)O)n1cc(C)c(=O)[nH]c1=O
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:TFO
name: [2-(6-amino-9h-purin-9-yl)-1-methylethoxy]methylphosphonic acid
synonym: "A" BROAD []
synonym: "[(2R)-1-(6-aminopurin-9-yl)propan-2-yl]oxymethylphosphonic acid" BROAD []
synonym: "pdb-ccd: TFO" EXACT []
synonym: "{[(1R)-2-(6-amino-9H-purin-9-yl)-1-methylethoxy]methyl}phosphonic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: C[C@@H](Cn1cnc2c1ncnc2N)OCP(=O)([O-])[O-]
l_bond_atoms: P17
l_displaced_atoms: O20-1

[Term]
id: BpForms:dna:TFT
name: (l)-alpha-threofuranosyl-thymine-3'-monophosphate
synonym: "(3S,4R,5R)-4-hydroxy-5-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)tetrahydrofuran-3-yl dihydrogen phosphate" BROAD []
synonym: "T" BROAD []
synonym: "[(3S,4R,5R)-4-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-3-yl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: TFT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@@H]1[C@@H](CO[C@H]1n1cc(C)c(=O)[nH]c1=O)OP(=O)([O-])[O-]
l_bond_atoms: P21
l_displaced_atoms: O24-1

[Term]
id: BpForms:dna:TGP
name: 5'-thio-2'-deoxy-guanosine phosphonic acid
synonym: "2'-deoxy-5'-S-phosphono-5'-thioguanosine" BROAD []
synonym: "G" BROAD []
synonym: "[(2S,3S,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-3-hydroxy-oxolan-2-yl]methylsulfanylphosphonic acid" BROAD []
synonym: "pdb-ccd: TGP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@@H](O[C@@H]1CSP(=O)([O-])[O-])n1cnc2c1nc(N)[nH]c2=O
l_bond_atoms: P12
l_displaced_atoms: O14-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:THM
name: thymidine
synonym: "1-[(2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-5-methyl-pyrimidine-2,4-dione" BROAD []
synonym: "pdb-ccd: THM" EXACT []
synonym: "thymidine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: OC[C@H]1O[C@@H](C[C@@H]1O)n1cc(C)c(=O)[nH]c1=O
r_bond_atoms: O11
r_displaced_atoms: H11

[Term]
id: BpForms:dna:THP
name: thymidine-3',5'-diphosphate
synonym: "[(2R,3S,5R)-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)-3-phosphonooxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: THP" EXACT []
synonym: "thymidine 3',5'-bis(dihydrogen phosphate)" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O=c1[nH]c(=O)n(cc1C)[C@@H]1C[C@@H]([C@H](O1)COP(=O)(O)O)OP(=O)(O)O

[Term]
id: BpForms:dna:THX
name: phosphonic acid 6-({6-[6-(6-carbamoyl-3,6,7,8-tetrahydro-3,6-diaza-as-indacene-2-carbonyl)-3,6,7,8-tetrahydro-3,6-diaza-as-indocene-2-carbonyl]-3,6,7,8-tetrahydro-3,6-diaza-as-indacene-2-carbonl}-amino)-hexyl ester 5-(5-methyl-2,4-dioxo-3,4-dihydro-2h-pyrimidin-1-yl)-tetrahydro-furan-2-ylmethyl ester
synonym: "5'-O-[(S)-{[6-({[6-({6-[(6-carbamoyl-3,6,7,8-tetrahydropyrrolo[3,2-e]indol-2-yl)carbonyl]-3,6,7,8-tetrahydropyrrolo[3,2-e]indol-2-yl}carbonyl)-3,6,7,8-tetrahydropyrrolo[3,2-e]indol-2-yl]carbonyl}amino)hexyl]oxy}(hydroxy)phosphoryl]thymidine" BROAD []
synonym: "6-[[3-[[3-[(3-aminocarbonyl-2,6-dihydro-1H-pyrrolo[4,5-e]indol-7-yl)carbonyl]-2,6-dihydro-1H-pyrrolo[4,5-e]indol-7-yl]carbonyl]-2,6-dihydro-1H-pyrrolo[4,5-e]indol-7-yl]carbonylamino]hexyl [(2R,3S,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl hydrogen phosphate" BROAD []
synonym: "N" BROAD []
synonym: "pdb-ccd: THX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@H](O[C@@H]1CO[P@@](=O)(OCCCCCCNC(=O)c1cc2c([nH]1)ccc1c2CCN1C(=O)c1cc2c([nH]1)ccc1c2CCN1C(=O)c1cc2c([nH]1)ccc1c2CCN1C(=O)N)O)n1cc(C)c(=O)[nH]c1=O

[Term]
id: BpForms:dna:TLC
name: 2-o,3-ethdiyl-arabinofuranosyl-thymine-5'-monophosphate
synonym: "T" BROAD []
synonym: "[(3aR,4R,6R,6aS)-3a-hydroxy-6-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)hexahydrofuro[3,4-b]furan-4-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(3aR,4R,6R,6aS)-3a-hydroxy-6-(5-methyl-2,4-dioxo-pyrimidin-1-yl)-3,4,6,6a-tetrahydro-2H-furo[4,3-b]furan-4-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: TLC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O=c1[nH]c(=O)n(cc1C)[C@@H]1O[C@@H]([C@]2([C@@H]1OCC2)O)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:dna:TP1
name: 2-(methylamino)-ethylglycine-carbonylmethylene-thymine
synonym: "2-[2-methylaminoethyl-[2-(5-methyl-2,4-dioxo-pyrimidin-1-yl)ethanoyl]amino]ethanoic acid" BROAD []
synonym: "N-[2-(methylamino)ethyl]-N-[(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)acetyl]glycine" BROAD []
synonym: "T" BROAD []
synonym: "pdb-ccd: TP1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: CNCCN(C(=O)Cn1cc(C)c(=O)[nH]c1=O)CC(=O)O

[Term]
id: BpForms:dna:TPC
name: 5'-thio-2'-deoxy-cytosine phosphonic acid
synonym: "2'-deoxy-5'-S-phosphono-5'-thiocytidine" BROAD []
synonym: "C" BROAD []
synonym: "[(2S,3S,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methylsulfanylphosphonic acid" BROAD []
synonym: "pdb-ccd: TPC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1C[C@@H](O[C@@H]1CSP(=O)(O)O)n1ccc(nc1=O)N

[Term]
id: BpForms:dna:TT
name: [(1r,3r,4s,9r,10s,12r,15as,15br,18br,18cs)-10-hydroxy-15a,15b-dimethyl-13,15,16,18-tetraoxohexadecahydro-8h-9,12-epoxy-1,4-methano-2,5,7-trioxa-12a,14,17,18a-tetraazacyclohexadeca[1,2,3,4-def]biphenylen-3-yl]methyl dihydrogen phosphate
synonym: "N" BROAD []
synonym: "[(1R,3R,4S,9R,10S,12R,15aS,15bR,18bR,18cS)-10-hydroxy-15a,15b-dimethyl-13,15,16,18-tetraoxohexadecahydro-8H-9,12-epoxy-1,4-methano-2,5,7-trioxa-12a,14,17,18a-tetraazacyclohexadeca[1,2,3,4-def]biphenylen-3-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: TT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@@H]2O[C@@H]1COCO[C@H]1C[C@@H](N3[C@@H]4[C@H]5N2C(=O)NC(=O)[C@]5([C@@]4(C)C(=O)NC3=O)C)O[C@@H]1COP(=O)(O)O

[Term]
id: BpForms:dna:TTD
name: cis-syn cyclobutane thymine dimer
synonym: "T" BROAD []
synonym: "[(1R,3R,4S,6S,9R,10S,12R,15aS,15bR,18bR,18cS)-6,10-dihydroxy-15a,15b-dimethyl-6-oxido-13,15,16,18-tetraoxohexadecahydro-8H-9,12-epoxy-1,4-methano-2,5,7-trioxa-12a,14,17,18a-tetraaza-6-phosphacyclohexadeca[1,2,3,4-def]biphenylen-3-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: TTD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@H]1C[C@@H]2O[C@@H]1CO[P@](=O)(O)O[C@H]1C[C@@H](N3[C@@H]4[C@H]5N2C(=O)NC(=O)[C@]5([C@@]4(C)C(=O)NC3=O)C)O[C@@H]1COP(=O)([O-])[O-]
l_bond_atoms: P46
l_displaced_atoms: O49-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:TTI
name: 2'-deoxy-5-telluroxouridine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-5-telluroxouridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,5R)-5-(2,4-dioxo-5-tellanylidene-1,3-diazinan-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: TTI" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@H](O[C@H]1COP(=O)(O)O)N1CC(=[TeH])C(=O)NC1=O
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:TTM
name: n3-ethyl-thymidine-5'-monophosphate
synonym: "3-ethylthymidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3S,5R)-5-(3-ethyl-5-methyl-2,4-dioxo-pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: TTM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: CCn1c(=O)n(cc(c1=O)C)[C@H]1C[C@H]([C@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P22
l_displaced_atoms: O25-1
r_bond_atoms: O26
r_displaced_atoms: H26

[Term]
id: BpForms:dna:TX2
name: 5'-o-{(r)-hydroxy[(2-sulfanylethyl)amino]phosphoryl}thymidine
synonym: "5'-O-{(R)-hydroxy[(2-sulfanylethyl)amino]phosphoryl}thymidine" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methoxy-N-(2-sulfanylethyl)phosphonamidic acid" BROAD []
synonym: "pdb-ccd: TX2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: [O-][P@@](=O)(OC[C@@H]1O[C@H](C[C@H]1O)n1cc(C)c(=O)[nH]c1=O)NCCS
r_bond_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:dna:U33
name: 5-bromo-2'-deoxy uridine
synonym: "5-bromo-1-[(2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]pyrimidine-2,4-dione" BROAD []
synonym: "5-bromo-2'-deoxyuridine" BROAD []
synonym: "U" BROAD []
synonym: "pdb-ccd: U33" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: OC[C@@H]1O[C@H](C[C@@H]1O)n1cc(Br)c(=O)[nH]c1=O

[Term]
id: BpForms:dna:UBI
name: 2'-deoxy-5-[(2-methylpropyl)carbamoyl]uridine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-5-[(2-methylpropyl)carbamoyl]uridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,5R)-5-[5-(2-methylpropylcarbamoyl)-2,4-bis(oxidanylidene)pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: UBI" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: CC(CNC(=O)c1cn([C@H]2C[C@H]([C@H](O2)COP(=O)([O-])[O-])O)c(=O)[nH]c1=O)C
l_bond_atoms: P20
l_displaced_atoms: O23-1
r_bond_atoms: O24
r_displaced_atoms: H24

[Term]
id: BpForms:dna:UCL
name: 5-chloro-2'-deoxyuridine 5'-(dihydrogen phosphate)
synonym: "5-chloro-2'-deoxyuridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,5R)-5-(5-chloro-2,4-dioxo-pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: UCL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)(O)O)n1cc(Cl)c(=O)[nH]c1=O
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:UF2
name: 1-(2-deoxy-2-fluoro-5-o-phosphono-beta-d-arabinofuranosyl)pyrimidine-2,4(1h,3h)-dione
synonym: "1-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)pyrimidine-2,4(1H,3H)-dione" BROAD []
synonym: "[(2R,3R,4S,5R)-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-4-fluoranyl-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: UF2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1[C@@H](COP(=O)(O)O)O[C@@H]([C@H]1F)n1ccc(=O)[nH]c1=O

[Term]
id: BpForms:dna:UFP
name: 5-fluoro-2'-deoxyuridine-5'-monophosphate
synonym: "2'-deoxy-5-fluorouridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,5R)-5-(5-fluoro-2,4-dioxo-pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: UFP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@@H](O[C@H]1COP(=O)(O)O)n1cc(F)c(=O)[nH]c1=O
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:UFR
name: 2'-deoxy-5-formyluridine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-5-formyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(5-methanoyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: UFR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O=Cc1cn([C@@H]2C[C@@H]([C@H](O2)COP(=O)(O)O)O)c(=O)[nH]c1=O
r_bond_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:dna:UFT
name: 2'-deoxy-2'-fluorouridine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-2'-fluorouridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3R,4R,5R)-5-(2,4-dioxopyrimidin-1-yl)-4-fluoro-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: UFT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1[C@H](COP(=O)([O-])[O-])O[C@H]([C@H]1F)n1ccc(=O)[nH]c1=O
l_bond_atoms: P8
l_displaced_atoms: O10-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:UMS
name: 2'-methylselenyl-2'-deoxyuridine-5'-phosphate
synonym: "2'-Se-methyl-2'-selenouridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3R,4R,5R)-5-(2,4-dioxopyrimidin-1-yl)-3-hydroxy-4-methylselanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: UMS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: C[Se][C@@H]1[C@H](O)[C@H](O[C@@H]1n1ccc(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P24
l_displaced_atoms: O26-1
r_bond_atoms: O7
r_displaced_atoms: H7

[Term]
id: BpForms:dna:UMX
name: [(1r,3r,4r,5s,7s)-3-(2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)-7-hydroxy-5-methyl-2-oxabicyclo[2.2.1]hept-1-yl]methyl dihydrogen phosphate
synonym: "[(1R,2S,4R,6R,7S)-6-(2,4-dioxopyrimidin-1-yl)-7-hydroxy-2-methyl-5-oxabicyclo[2.2.1]heptan-4-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(1R,3R,4R,5S,7S)-3-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-7-hydroxy-5-methyl-2-oxabicyclo[2.2.1]hept-1-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: UMX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: C[C@H]1C[C@@]2([C@@H]([C@@H]1[C@@H](O2)n1ccc(=O)[nH]c1=O)O)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:dna:UPE
name: 2'-deoxy-5-[(2-phenylethyl)carbamoyl]uridine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-5-[(2-phenylethyl)carbamoyl]uridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,5R)-5-[2,4-bis(oxidanylidene)-5-(2-phenylethylcarbamoyl)pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: UPE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@@H](O[C@H]1COP(=O)([O-])[O-])n1cc(C(=O)NCCc2ccccc2)c(=O)[nH]c1=O
l_bond_atoms: P12
l_displaced_atoms: O14-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:UPS
name: 2'-deoxy-5'-o-thiophosphonouridine
synonym: "1-[(2R,4S,5R)-5-(dihydroxyphosphinothioyloxymethyl)-4-hydroxy-oxolan-2-yl]pyrimidine-2,4-dione" BROAD []
synonym: "2'-deoxy-5'-O-thiophosphonouridine" BROAD []
synonym: "pdb-ccd: UPS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@H](O[C@H]1COP(=S)([O-])[O-])n1ccc(=O)[nH]c1=O
l_bond_atoms: P12
l_displaced_atoms: O14-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:URT
name: ({[(2r,5r)-5-(6-amino-9h-purin-9-yl)-4-fluoro-2,5-dihydrofuran-2-yl]oxy}methyl)phosphonic acid
synonym: "[(2R,5R)-5-(6-aminopurin-9-yl)-4-fluoro-2,5-dihydrofuran-2-yl]oxymethylphosphonic acid" BROAD []
synonym: "pdb-ccd: URT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: FC1=C[C@@H](O[C@@H]1n1cnc2c1ncnc2N)OCP(=O)(O)O

[Term]
id: BpForms:dna:URX
name: [(1r,3r,4r,5r,7s)-3-(2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)-7-hydroxy-5-methyl-2-oxabicyclo[2.2.1]hept-1-yl]methyl dihydrogen phosphate
synonym: "[(1R,2R,4R,6R,7S)-6-(2,4-dioxopyrimidin-1-yl)-7-hydroxy-2-methyl-5-oxabicyclo[2.2.1]heptan-4-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(1R,3R,4R,5R,7S)-3-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-7-hydroxy-5-methyl-2-oxabicyclo[2.2.1]hept-1-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: URX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: C[C@@H]1C[C@@]2([C@H]([C@H]1[C@H](O2)n1ccc(=O)[nH]c1=O)O)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O27-1
r_bond_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:dna:US1
name: 2'-deoxy-3'-thiouridine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-3'-thiouridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,5R)-5-(2,4-dioxopyrimidin-1-yl)-3-sulfanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: US1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: S[C@@H]1C[C@H](O[C@@H]1COP(=O)(O)O)n1ccc(=O)[nH]c1=O

[Term]
id: BpForms:dna:US2
name: 2'-deoxy-5-(methylsulfanyl)uridine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-5-(methylsulfanyl)uridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(5-methylsulfanyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: US2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: CSc1cn([C@@H]2C[C@H]([C@H](O2)COP(=O)(O)O)O)c(=O)[nH]c1=O
r_bond_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:dna:US3
name: 1-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-5-methyl-2-selanylpyrimidin-4(1h)-one
synonym: "1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-5-methyl-2-selanylpyrimidin-4(1H)-one" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(5-methyl-4-oxo-2-selanyl-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: US3" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@@H]1C[C@@H](O[C@H]1COP(=O)([O-])[O-])n1cc(C)c(=O)nc1[SeH]
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:US4
name: [(2r,3s,5r)-3-({[(2r,3s,5r)-5-(6-amino-9h-purin-9-yl)-3-hydroxytetrahydrofuran-2-yl]methoxy}methoxy)-5-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)tetrahydrofuran-2-yl]methyl dihydrogen phosphate
synonym: "[(2R,3S,5R)-3-({[(2R,3S,5R)-5-(6-amino-9H-purin-9-yl)-3-hydroxytetrahydrofuran-2-yl]methoxy}methoxy)-5-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)tetrahydrofuran-2-yl]methyl dihydrogen phosphate (non-preferred name)" BROAD []
synonym: "[(2R,3S,5R)-3-[[(2R,3S,5R)-5-(6-aminopurin-9-yl)-3-oxidanyl-oxolan-2-yl]methoxymethoxy]-5-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: US4" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@H](O[C@@H]1COCO[C@@H]1C[C@H](O[C@@H]1COP(=O)(O)O)n1cc(C)c(=O)[nH]c1=O)n1cnc2c1ncnc2N

[Term]
id: BpForms:dna:USM
name: 2'-s-methyl-2'-thiouridine 5'-(dihydrogen phosphate)
synonym: "2'-S-methyl-2'-thiouridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3R,4R,5R)-5-(2,4-dioxopyrimidin-1-yl)-3-hydroxy-4-methylsulfanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: USM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: CS[C@H]1[C@H](O)[C@@H](O[C@H]1n1ccc(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O7
r_displaced_atoms: H7

[Term]
id: BpForms:dna:UVX
name: [(1r,3r,4r,7s)-3-(2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)-7-hydroxy-5-methylidene-2-oxabicyclo[2.2.1]hept-1-yl]methyl dihydrogen phosphate
synonym: "[(1R,3R,4R,7S)-3-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-7-hydroxy-5-methylidene-2-oxabicyclo[2.2.1]hept-1-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(1R,4R,6R,7S)-6-(2,4-dioxopyrimidin-1-yl)-7-hydroxy-2-methylidene-5-oxabicyclo[2.2.1]heptan-4-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: UVX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: C=C1C[C@@]2([C@H]([C@H]1[C@H](O2)n1ccc(=O)[nH]c1=O)O)COP(=O)([O-])[O-]
l_bond_atoms: P24
l_displaced_atoms: O26-1
r_bond_atoms: O21
r_displaced_atoms: H21

[Term]
id: BpForms:dna:VET
name: [(1r,2s,4r)-2-hydroxy-4-[(5r)-5-hydroxy-5-methyl-2,4-dioxo-imidazolidin-1-yl]cyclopentyl]methyl dihydrogen phosphate
synonym: "[(1R,2S,4R)-2-hydroxy-4-[(5R)-5-hydroxy-5-methyl-2,4-dioxo-imidazolidin-1-yl]cyclopentyl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: VET" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@@H](C[C@H]1COP(=O)(O)O)N1C(=O)NC(=O)[C@]1(C)O

[Term]
id: BpForms:dna:X4A
name: [(2r,3s,5s)-2,3,5-trihydroxytetrahydrofuran-2-yl]methyl dihydrogen phosphate
synonym: "N" BROAD []
synonym: "[(2R,3S,5S)-2,3,5-trihydroxyoxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(2R,3S,5S)-2,3,5-trihydroxytetrahydrofuran-2-yl]methyl dihydrogen phosphate (non-preferred name)" BROAD []
synonym: "pdb-ccd: X4A" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@@H](O[C@]1(O)COP(=O)([O-])[O-])O
l_bond_atoms: P12
l_displaced_atoms: O14-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:XAD
name: 9-(2,3-dideoxy-6-o-phosphono-beta-d-erythro-hexopyranosyl)-9h-purin-6-amine
synonym: "9-(2,3-dideoxy-6-O-phosphono-beta-D-erythro-hexopyranosyl)-9H-purin-6-amine" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,6R)-6-(6-aminopurin-9-yl)-3-hydroxy-oxan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: XAD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: O[C@H]1CC[C@@H](O[C@H]1COP(=O)([O-])[O-])n1cnc2c1ncnc2N
l_bond_atoms: P13
l_displaced_atoms: O15-1

[Term]
id: BpForms:dna:XAE
name: 3-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-3h-imidazo[4,5-g]quinazolin-8-amine
synonym: "3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-3H-imidazo[4,5-g]quinazolin-8-amine" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,5R)-5-(8-aminopyrimido[5,6-f]benzimidazol-3-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: XAE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)(O)O)n1cnc2c1cc1ncnc(c1c2)N
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:XAL
name: [(1s,4r,6r)-6-hydroxy-4-(adenin-9-yl)cyclohex-2-en-1-yl]methyl dihydrogen phosphate
synonym: "A" BROAD []
synonym: "[(1S,4R,6R)-4-(6-amino-9H-purin-9-yl)-6-hydroxycyclohex-2-en-1-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(1S,4R,6R)-4-(6-aminopurin-9-yl)-6-hydroxy-1-cyclohex-2-enyl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: XAL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: O[C@H]1C[C@H](C=C[C@@H]1COP(=O)([O-])[O-])n1cnc2c1ncnc2N
l_bond_atoms: P13
l_displaced_atoms: O16-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:XAR
name: [(1r,4s,6s)-4-(6-amino-9h-purin-9-yl)-6-hydroxycyclohex-2-en-1-yl]methyl dihydrogen phosphate
synonym: "N" BROAD []
synonym: "[(1R,4S,6S)-4-(6-amino-9H-purin-9-yl)-6-hydroxycyclohex-2-en-1-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(1R,4S,6S)-4-(6-aminopurin-9-yl)-6-hydroxy-1-cyclohex-2-enyl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: XAR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@@H](C=C[C@@H]1COP(=O)(O)O)n1cnc2c1ncnc2N

[Term]
id: BpForms:dna:XCL
name: [(1s,4r,6r)-6-hydroxy-4-(cytosin-9-yl)cyclohex-2-en-1-yl]methyl dihydrogen phosphate
synonym: "C" BROAD []
synonym: "[(1S,4R,6R)-4-(4-amino-2-oxo-pyrimidin-1-yl)-6-hydroxy-1-cyclohex-2-enyl]methyl dihydrogen phosphate" BROAD []
synonym: "[(1S,4R,6R)-4-(4-amino-2-oxopyrimidin-1(2H)-yl)-6-hydroxycyclohex-2-en-1-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: XCL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1C[C@H](C=C[C@@H]1COP(=O)([O-])[O-])n1ccc(nc1=O)N
l_bond_atoms: P13
l_displaced_atoms: O16-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:XCR
name: [(1r,4s,6s)-4-(4-amino-2-oxopyrimidin-1(2h)-yl)-6-hydroxycyclohex-2-en-1-yl]methyl dihydrogen phosphate
synonym: "C" BROAD []
synonym: "[(1R,4S,6S)-4-(4-azanyl-2-oxo-pyrimidin-1-yl)-6-hydroxy-cyclohex-2-en-1-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: XCR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1C[C@H](C=C[C@H]1COP(=O)([O-])[O-])n1ccc(nc1=O)N
l_bond_atoms: P13
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:XCS
name: (1r)-1-(4-amino-6-methyl-2-oxo-1,2-dihydroquinazolin-8-yl)-1,4-anhydro-2-deoxy-5-o-phosphono-d-erythro-pentitol
synonym: "(1R)-1-(4-amino-6-methyl-2-oxo-1,2-dihydroquinazolin-8-yl)-1,4-anhydro-2-deoxy-5-O-phosphono-D-erythro-pentitol" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,5R)-5-(4-amino-6-methyl-2-oxo-1H-quinazolin-8-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: XCS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@@H](O[C@@H]1COP(=O)(O)O)c1cc(C)cc2c1[nH]c(=O)nc2N
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:XCT
name: 4-amino-1-(2,3-dideoxy-6-o-phosphono-beta-d-erythro-hexopyranosyl)pyrimidin-2(1h)-one
synonym: "4-amino-1-(2,3-dideoxy-6-O-phosphono-beta-D-erythro-hexopyranosyl)pyrimidin-2(1H)-one" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,6R)-6-(4-amino-2-oxo-pyrimidin-1-yl)-3-hydroxy-oxan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: XCT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1CC[C@H](O[C@@H]1COP(=O)([O-])[O-])n1ccc(nc1=O)N
l_bond_atoms: P13
l_displaced_atoms: O15-1

[Term]
id: BpForms:dna:XCY
name: {5-[4-{[4-(aminomethyl)benzyl]amino}-2-oxopyrimidin-1(2h)- yl]-3-hydroxytetrahydrofuran-2-yl}methyl dihydrogen phosphate
synonym: "C" BROAD []
synonym: "N-[4-(aminomethyl)benzyl]-2'-deoxycytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,5R)-5-[4-[[4-(aminomethyl)phenyl]methylamino]-2-oxo-pyrimidin-1-yl]-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: XCY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: NCc1ccc(cc1)CNc1ccn(c(=O)n1)[C@H]1C[C@@H]([C@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P28
l_displaced_atoms: O30-1
r_bond_atoms: O32
r_displaced_atoms: H32

[Term]
id: BpForms:dna:XFC
name: 4-amino-1-(2-deoxy-2-fluoro-5-o-phosphono-beta-d-arabinofuranosyl)-2-oxo-1,2-dihydropyrimidine-5-carbaldehyde
synonym: "4-amino-1-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)-2-oxo-1,2-dihydropyrimidine-5-carbaldehyde" BROAD []
synonym: "[(2~{R},3~{R},4~{S},5~{R})-5-(4-azanyl-5-methanoyl-2-oxidanylidene-pyrimidin-1-yl)-4-fluoranyl-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: XFC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O=Cc1cn(c(=O)nc1N)[C@@H]1O[C@H]([C@H]([C@H]1F)O)COP(=O)(O)O

[Term]
id: BpForms:dna:XGA
name: 6-amino-3-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-3,7-dihydro-8h-imidazo[4,5-g]quinazolin-8-one
synonym: "6-amino-3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-3,7-dihydro-8H-imidazo[4,5-g]quinazolin-8-one" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,5R)-5-(6-amino-8-oxo-7H-pyrimido[5,4-f]benzimidazol-3-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: XGA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)(O)O)n1cnc2c1cc1nc(N)[nH]c(=O)c1c2
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:XGL
name: [(1s,4r,6r)-6-hydroxy-4-(guanin-9-yl)cyclohex-2-en-1-yl]methyl dihydrogen phosphate
synonym: "G" BROAD []
synonym: "[(1S,4R,6R)-4-(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)-6-hydroxycyclohex-2-en-1-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(1S,4R,6R)-4-(2-amino-6-oxo-1H-purin-9-yl)-6-hydroxy-1-cyclohex-2-enyl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: XGL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@H](C=C[C@@H]1COP(=O)([O-])[O-])n1cnc2c1nc(N)[nH]c2=O
l_bond_atoms: P13
l_displaced_atoms: O16-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:XGR
name: [(1r,4s,6s)-4-(2-amino-6-oxo-1,6-dihydro-9h-purin-9-yl)-6-hydroxycyclohex-2-en-1-yl]methyl dihydrogen phosphate
synonym: "G" BROAD []
synonym: "[(1R,4S,6S)-4-(2-azanyl-6-oxo-1H-purin-9-yl)-6-hydroxy-cyclohex-2-en-1-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: XGR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1C[C@H](C=C[C@H]1COP(=O)([O-])[O-])n1cnc2c1nc(N)[nH]c2=O
l_bond_atoms: P13
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:XGU
name: 2-amino-9-(2,3-dideoxy-6-o-phosphono-beta-d-erythro-hexopyranosyl)-1,9-dihydro-6h-purin-6-one
synonym: "2-amino-9-(2,3-dideoxy-6-O-phosphono-beta-D-erythro-hexopyranosyl)-1,9-dihydro-6H-purin-6-one" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,6R)-6-(2-amino-6-oxo-1H-purin-9-yl)-3-hydroxy-oxan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: XGU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@H]1CC[C@H](O[C@@H]1COP(=O)([O-])[O-])n1cnc2c1nc(N)[nH]c2=O
l_bond_atoms: P13
l_displaced_atoms: O15-1

[Term]
id: BpForms:dna:XPB
name: o6-[4-oxo-4-(3-pyridyl)butyl]-2'-deoxyguanosine-5'-monophosphate
synonym: "9-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-6-[4-oxo-4-(pyridin-3-yl)butoxy]-9H-purin-2-amine" BROAD []
synonym: "[(2R,3S,5R)-5-[2-azanyl-6-(4-oxidanylidene-4-pyridin-3-yl-butoxy)purin-9-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: XPB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@@H]1C[C@@H](O[C@@H]1COP(=O)(O)O)n1cnc2c1nc(N)nc2OCCCC(=O)c1cccnc1

[Term]
id: BpForms:dna:XTF
name: [(1r,4r,5s,6r)-5-fluoro-6-hydroxy-4-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)cyclohex-2-en-1-yl]methyl dihydrogen phosphate
synonym: "[(1R,4R,5S,6R)-5-fluoranyl-4-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-6-oxidanyl-cyclohex-2-en-1-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(1R,4R,5S,6R)-5-fluoro-6-hydroxy-4-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)cyclohex-2-en-1-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: XTF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: F[C@H]1[C@H](O)[C@H](C=C[C@@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)(O)O

[Term]
id: BpForms:dna:XTH
name: 1-(2,3-dideoxy-6-o-phosphono-beta-d-erythro-hexopyranosyl)-5-methylpyrimidine-2,4(1h,3h)-dione
synonym: "1-(2,3-dideoxy-6-O-phosphono-beta-D-erythro-hexopyranosyl)-5-methylpyrimidine-2,4(1H,3H)-dione" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3S,6R)-3-hydroxy-6-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: XTH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@H]1CC[C@@H](O[C@H]1COP(=O)([O-])[O-])n1cc(C)c(=O)[nH]c1=O
l_bond_atoms: P13
l_displaced_atoms: O15-1

[Term]
id: BpForms:dna:XTL
name: [(1s,4r,6r)-6-hydroxy-4-(thymin-9-yl)cyclohex-2-en-1-yl]methyl dihydrogen phosphate
synonym: "T" BROAD []
synonym: "[(1S,4R,6R)-6-hydroxy-4-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)cyclohex-2-en-1-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(1S,4R,6R)-6-hydroxy-4-(5-methyl-2,4-dioxo-pyrimidin-1-yl)-1-cyclohex-2-enyl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: XTL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@H]1C[C@H](C=C[C@@H]1COP(=O)([O-])[O-])n1cc(C)c(=O)[nH]c1=O
l_bond_atoms: P13
l_displaced_atoms: O16-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:XTR
name: [(1r,4s,6s)-6-hydroxy-4-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)cyclohex-2-en-1-yl]methyl dihydrogen phosphate
synonym: "T" BROAD []
synonym: "[(1R,4S,6S)-6-hydroxy-4-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)cyclohex-2-en-1-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(1R,4S,6S)-6-hydroxy-4-(5-methyl-2,4-dioxo-pyrimidin-1-yl)-1-cyclohex-2-enyl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: XTR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:T ! thymine
structure: O[C@@H]1C[C@H](C=C[C@@H]1COP(=O)([O-])[O-])n1cc(C)c(=O)[nH]c1=O
l_bond_atoms: P13
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:XTY
name: (1r)-1,4-anhydro-2-deoxy-1-(6-methyl-2,4-dioxo-1,2,3,4-tetrahydroquinazolin-8-yl)-5-o-phosphono-d-erythro-pentitol
synonym: "(1R)-1,4-anhydro-2-deoxy-1-(6-methyl-2,4-dioxo-1,2,3,4-tetrahydroquinazolin-8-yl)-5-O-phosphono-D-erythro-pentitol" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(6-methyl-2,4-dioxo-1H-quinazolin-8-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: XTY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: Cc1cc([C@H]2O[C@@H]([C@@H](C2)O)COP(=O)(O)O)c2c(c1)c(=O)[nH]c(=O)[nH]2
r_bond_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:dna:XUA
name: 2'-se-methyl-2'-selenoadenosine 5'-(dihydrogen phosphate)
synonym: "2'-Se-methyl-2'-selenoadenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3R,4R,5R)-5-(6-aminopurin-9-yl)-3-hydroxy-4-methylselanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: XUA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: C[Se][C@H]1[C@@H](O)[C@H](O[C@H]1n1cnc2c1ncnc2N)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O7
r_displaced_atoms: H7

[Term]
id: BpForms:dna:XUG
name: 2'-se-methyl-2'-selenoguanosine 5'-(dihydrogen phosphate)
synonym: "2'-Se-methyl-2'-selenoguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3R,4R,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-3-hydroxy-4-methylselanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: XUG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: C[Se][C@H]1[C@@H](O)[C@H](O[C@@H]1n1cnc2c1nc(N)[nH]c2=O)COP(=O)([O-])[O-]
l_bond_atoms: P27
l_displaced_atoms: O30-1
r_bond_atoms: O7
r_displaced_atoms: H7

[Term]
id: BpForms:dna:Y
name: 2'-deoxy-n6-(s)styrene oxide adenosine monophosphate
synonym: "2'-deoxy-N-[(1S)-2-hydroxy-1-phenylethyl]adenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[6-[[(1S)-2-hydroxy-1-phenyl-ethyl]amino]purin-9-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: Y" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:A ! adenine
structure: OC[C@@H](c1ccccc1)Nc1ncnc2c1ncn2[C@@H]1C[C@@H]([C@H](O1)COP(=O)([O-])[O-])O
l_bond_atoms: P31
l_displaced_atoms: O34-1
r_bond_atoms: O35
r_displaced_atoms: H35

[Term]
id: BpForms:dna:YCO
name: 3-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)-1h-pyrimido[5,4-b][1,4]benzoxazin-2(3h)-one
synonym: "3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-1H-pyrimido[5,4-b][1,4]benzoxazin-2(3H)-one" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(2-oxo-1H-pyrimido[5,4-b][1,4]benzoxazin-3-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: YCO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@@H]1C[C@@H](O[C@H]1COP(=O)([O-])[O-])n1cc2oc3ccccc3nc2[nH]c1=O
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:YRR
name: 3-hydroxy-pyrrolidin-2-ylmethyl-monophosphate group
synonym: "N" BROAD []
synonym: "[(2R,3S)-3-hydroxypyrrolidin-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: YRR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@H]1CCN[C@@H]1CO[P@](=O)(O)[O-]
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:Z
name: 1-(2-deoxy-5-o-phosphono-beta-d-erythro-pentofuranosyl)pyrimidin-2(1h)-one
synonym: "1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)pyrimidin-2(1H)-one" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-(2-oxopyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: Z" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:C ! cytosine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)([O-])[O-])n1cccnc1=O
l_bond_atoms: P12
l_displaced_atoms: O15-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:dna:ZDU
name: 5-(3-aminopropyl)-2'-deoxyuridine-5'-monophosphate
synonym: "5-(3-aminopropyl)-2'-deoxyuridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,5R)-5-[5-(3-aminopropyl)-2,4-dioxo-pyrimidin-1-yl]-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: ZDU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: NCCCc1cn([C@H]2C[C@@H]([C@H](O2)COP(=O)([O-])[O-])O)c(=O)[nH]c1=O
l_bond_atoms: P18
l_displaced_atoms: O21-1
r_bond_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:dna:JSP
name: (1r)-1-(4-amino-1-methyl-2-oxo-1,2-dihydropyrimidin-5-yl)-1,4-anhydro-2-deoxy-5-o-phosphono-d-erythro-pentitol
synonym: "(1R)-1-(4-amino-1-methyl-2-oxo-1,2-dihydropyrimidin-5-yl)-1,4-anhydro-2-deoxy-5-O-phosphono-D-erythro-pentitol" BROAD []
synonym: "[(2~{R},3~{S},5~{R})-5-(4-azanyl-1-methyl-2-oxidanylidene-pyrimidin-5-yl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: JSP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[C@@H]1C[C@@H](O[C@@H]1COP(=O)(O)O)c1cn(C)c(=O)nc1N

[Term]
id: BpForms:dna:F74
name: 8-chloro-2'-deoxyguanosine 5'-(dihydrogen phosphate)
synonym: "8-chloro-2'-deoxyguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2~{R},3~{S},5~{R})-5-(2-azanyl-8-chloranyl-6-oxidanylidene-3~{H}-purin-9-yl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: F74" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
relationship: derives_from BpForms:dna:G ! guanine
structure: O[C@@H]1C[C@H](O[C@H]1COP(=O)(O)O)n1c(Cl)nc2c1[nH]c(N)nc2=O

[Term]
id: BpForms:dna:AWC
name: 2'-deoxy-5'-o-[(r)-hydroxy(oxo)-lambda~5~-phosphanyl]-5-selenophen-2-yluridine
synonym: "2'-deoxy-5'-O-[(R)-hydroxy(oxo)-lambda~5~-phosphanyl]-5-selenophen-2-yluridine" BROAD []
synonym: "[(2~{R},3~{S},5~{R})-5-[2,4-bis(oxidanylidene)-5-selenophen-2-yl-pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methoxyphosphinic acid" BROAD []
synonym: "pdb-ccd: AWC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:dna ! DNA nucleotide monophosphates
structure: O[P@@H](=O)OC[C@@H]1O[C@H](C[C@H]1O)n1cc(c2ccc[se]2)c(=O)[nH]c1=O

[Term]
id: BpForms:rna
name: RNA nucleotide monophosphates
def: "The canonical RNA nucleotide monophosphates, plus non-canonical RNA nucleotide monophosphates based on <a href="http://modomics.genesilico.pl/modifications">MODOMICS</a> and the <a href="https://mods.rna.albany.edu/mods/">RNA Modification Database</a>" []
is_a: BpForms:alphabet ! alphabet

[Term]
id: BpForms:rna:01A
name: 1,2′-O-dimethyladenosine
def: "<p>This compound is also listed under CA registry number 59867-24-2 as the monohydriodide salt, reflecting the form in which the first reported synthesis was carried out.</p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "1,2'-O-dimethyladenosine" BROAD []
synonym: "cas: 91101-00-7" EXACT []
synonym: "m1Am" BROAD []
synonym: "modomics.new_nomenclature: 01A" EXACT []
synonym: "modomics.short_name: m1Am" EXACT []
synonym: "rnamods: 97" EXACT []
synonym: "œ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: COC1C(O)C(OC1n1cnc2c1ncn(c2=N)C)COP(=O)([O-])[O-]
l_bond_atoms: P22
l_displaced_atoms: O25-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:01G
name: 1,2′-O-dimethylguanosine
def: "<p></p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li></ul></p>" []
synonym: "1,2'-O-dimethylguanosine" BROAD []
synonym: "cas: 73667-71-7" EXACT []
synonym: "m1Gm" BROAD []
synonym: "modomics.new_nomenclature: 01G" EXACT []
synonym: "modomics.short_name: m1Gm" EXACT []
synonym: "rnamods: 96" EXACT []
synonym: "ε" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: COC1C(O)C(OC1n1cnc2c1nc(N)n(c2=O)C)COP(=O)([O-])[O-]
l_bond_atoms: P23
l_displaced_atoms: O26-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:019A
name: 1,2′-O-dimethylinosine
def: "<p></p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li></ul></p>" []
synonym: "1,2'-O-dimethylinosine" BROAD []
synonym: "cas: 65150-69-8" EXACT []
synonym: "m1Im" BROAD []
synonym: "modomics.new_nomenclature: 019A" EXACT []
synonym: "modomics.short_name: m1Im" EXACT []
synonym: "rnamods: 19" EXACT []
synonym: "ξ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: COC1C(O)C(OC1n1cnc2c1ncn(c2=O)C)COP(=O)([O-])[O-]
l_bond_atoms: P22
l_displaced_atoms: O25-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:1309U
name: 1-methyl-3-(3-amino-3-carboxypropyl)pseudouridine
def: "<p></p> <p>Phylogenetic distribution<ul><li>eukarya rRNA</li></ul></p>" []
synonym: "1-methyl-3-(3-amino-3-carboxypropyl) pseudouridine" BROAD []
synonym: "cas: 52777-29-4" EXACT []
synonym: "m1acp3Y" BROAD []
synonym: "modomics.new_nomenclature: 1309U" EXACT []
synonym: "modomics.short_name: m1acp3Y" EXACT []
synonym: "rnamods: 86" EXACT []
synonym: "α" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: [O-]C(=O)C(CCn1c(=O)c(cn(c1=O)C)C1OC(C(C1O)O)COP(=O)([O-])[O-])[NH3+]
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:rna:1A
name: 1-methyladenosine
def: "<p>First characterized as the base and later as the monoribonucleotide.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li><li>eukarya tRNA</li><li>bacteria rRNA</li><li>eukarya rRNA</li></ul></p>" []
synonym: """ BROAD []
synonym: "1-methyladenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "1MA" BROAD []
synonym: "6-hydro-1-methyladenosine-5'-monophosphate" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(6-azanylidene-1-methyl-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "cas: 15763-06-1" EXACT []
synonym: "m1A" BROAD []
synonym: "modomics.new_nomenclature: 1A" EXACT []
synonym: "modomics.short_name: m1A" EXACT []
synonym: "pdb-ccd: 1MA" EXACT []
synonym: "pubchem.compound: 27476" EXACT []
synonym: "rnamods: 1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1n1cnc2c1ncn(c2=N)C)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:1G
name: 1-methylguanosine
def: "<p>Although the report in ref does not distinguish between the two subunits in bacteria, contemporary knowledge shows that m1G is not in the bacterial SSU (see SSU database) but is in the LSU (see table in Database section on rRNA modification).</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li><li>eukarya tRNA</li><li>bacteria rRNA</li><li>eukarya rRNA</li></ul></p>" []
synonym: "1-methylguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "1MG" BROAD []
synonym: "1n-methylguanosine-5'-monophosphate" BROAD []
synonym: "G" BROAD []
synonym: "K" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(2-amino-1-methyl-6-oxo-purin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "cas: 2140-65-0" EXACT []
synonym: "m1G" BROAD []
synonym: "modomics.new_nomenclature: 1G" EXACT []
synonym: "modomics.short_name: m1G" EXACT []
synonym: "pdb-ccd: 1MG" EXACT []
synonym: "pubchem.compound: 96373" EXACT []
synonym: "rnamods: 29" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1n1cnc2c1nc(N)n(c2=O)C)COP(=O)([O-])[O-]
l_bond_atoms: P26
l_displaced_atoms: O29-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:19A
name: 1-methylinosine
def: "<p></p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>eukarya tRNA</li></ul></p>" []
synonym: "O" BROAD []
synonym: "cas: 2140-73-0" EXACT []
synonym: "m1I" BROAD []
synonym: "modomics.new_nomenclature: 19A" EXACT []
synonym: "modomics.short_name: m1I" EXACT []
synonym: "pubchem.compound: 65095" EXACT []
synonym: "rnamods: 18" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: OC1C(O)C(OC1n1cnc2c1ncn(c2=O)C)COP(=O)([O-])[O-]
l_bond_atoms: P21
l_displaced_atoms: O24-1
r_bond_atoms: O4
r_displaced_atoms: H4

[Term]
id: BpForms:rna:19U
name: 1-methylpseudouridine
def: "<p></p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>eukarya rRNA</li></ul></p>" []
synonym: "]" BROAD []
synonym: "cas: 13860-38-3" EXACT []
synonym: "m1Y" BROAD []
synonym: "modomics.new_nomenclature: 19U" EXACT []
synonym: "modomics.short_name: m1Y" EXACT []
synonym: "rnamods: 55" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: OC1C(O)C(OC1c1cn(C)c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P20
l_displaced_atoms: O23-1
r_bond_atoms: O4
r_displaced_atoms: H4

[Term]
id: BpForms:rna:28A
name: 2,8-dimethyladenosine
synonym: "modomics.new_nomenclature: 28A" EXACT []
synonym: "modomics.short_name: m2,8A" EXACT []
synonym: "±" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: OC1C(O)C(OC1n1c(C)nc2c1nc(C)nc2N)COP(=O)([O-])[O-]
l_bond_atoms: P22
l_displaced_atoms: O25-1
r_bond_atoms: O4
r_displaced_atoms: H4

[Term]
id: BpForms:rna:msms2i6A
name: 2- methylthiomethylenethio-N6-isopentenyl-adenosine
synonym: "modomics.short_name: msms2i6A" EXACT []
synonym: "£" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: CSCSc1nc(NCC=C(C)C)c2c(n1)n(cn2)[C@@H]1O[C@@H](C(C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P31
l_displaced_atoms: O34-1
r_bond_atoms: O28
r_displaced_atoms: H28

[Term]
id: BpForms:rna:21U
name: 2-geranylthiouridine
synonym: "modomics.new_nomenclature: 21U" EXACT []
synonym: "modomics.short_name: ges2U" EXACT []
synonym: "Γ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: C/C(=C\CSc1nc(=O)ccn1[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-])/CCC=C(C)C
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:rna:21C
name: 2-lysidine
def: "<p>The registry number and Chemical Abstracts Index Name listed are for the chloride salt. The registry number (144796-96-3) and Chemical Abstracts Index Name (L-Lysine, N6-(1,4-dihydro-4-imino- 1-b-D-ribofuranosyl-2-pyrimidinyl)-) assigned to the neutral nucleoside are less effective in retrieval of lysidine literature. Alternate symbols are L and acp2C. The latter symbol is not recommended because the notation acp has a different structural definition, and is more commonly used in nucleoside acp3U. The common name "lysidine" was previously assigned to 4,5-dihydro-2-methyl-1H-imidazole (registry number 534-26-9).</p> <p>Phylogenetic distribution<ul><li>bacteria tRNA</li></ul></p>" []
synonym: "cas: 116120-47-9" EXACT []
synonym: "k2C" BROAD []
synonym: "lysidine" BROAD []
synonym: "modomics.new_nomenclature: 21C" EXACT []
synonym: "modomics.short_name: k2C" EXACT []
synonym: "rnamods: 28" EXACT []
synonym: "}" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: [O-]C(=O)C(CCCCNC1[NH+]=C(N)C=CN1[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-])[NH3+]
l_bond_atoms: P30
l_displaced_atoms: O33-1
r_bond_atoms: O27
r_displaced_atoms: H27

[Term]
id: BpForms:rna:2A
name: 2-methyladenosine
def: "<p>Although ref reports m2A to be in a mixture of SSU and LSU subunits, various more recent studies have shown that m2A is not present in the bacterial SSU (see SSU database) but is in the LSU.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li><li>bacteria rRNA</li></ul></p>" []
synonym: "/" BROAD []
synonym: "cas: 16526-56-0" EXACT []
synonym: "m2A" BROAD []
synonym: "modomics.new_nomenclature: 2A" EXACT []
synonym: "modomics.short_name: m2A" EXACT []
synonym: "pubchem.compound: 261450" EXACT []
synonym: "rnamods: 2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: OC1C(O)C(OC1n1cnc2c1nc(C)nc2N)COP(=O)([O-])[O-]
l_bond_atoms: P21
l_displaced_atoms: O24-1
r_bond_atoms: O4
r_displaced_atoms: H4

[Term]
id: BpForms:rna:2164A
name: 2-methylthio cyclic N6-threonylcarbamoyladenosine
synonym: "modomics.new_nomenclature: 2164A" EXACT []
synonym: "modomics.short_name: ms2ct6A" EXACT []
synonym: "ÿ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: CSc1nc(C2C(=O)N[C@H](C2=O)[C@H](O)C)c2c(n1)n(cn2)[C@@H]1O[C@@H](C(C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P35
l_displaced_atoms: O38-1
r_bond_atoms: O32
r_displaced_atoms: H32

[Term]
id: BpForms:rna:2160A
name: 2-methylthio-N6-(cis-hydroxyisopentenyl) adenosine
def: "<p></p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "cas: 52049-48-6" EXACT []
synonym: "modomics.new_nomenclature: 2160A" EXACT []
synonym: "modomics.short_name: ms2io6A" EXACT []
synonym: "ms2io6A" BROAD []
synonym: "rnamods: 9" EXACT []
synonym: "≠" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: OC/C(=C/CNc1nc(SC)nc2c1ncn2[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-])/C
l_bond_atoms: P30
l_displaced_atoms: O33-1
r_bond_atoms: O27
r_displaced_atoms: H27

[Term]
id: BpForms:rna:2163A
name: 2-methylthio-N6-hydroxynorvalylcarbamoyladenosine
def: "<p></p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li></ul></p>" []
synonym: "2-methylthio-N6-hydroxynorvalyl carbamoyladenosine" BROAD []
synonym: "cas: 146426-21-3" EXACT []
synonym: "modomics.new_nomenclature: 2163A" EXACT []
synonym: "modomics.short_name: ms2hn6A" EXACT []
synonym: "ms2hn6A" BROAD []
synonym: "rnamods: 15" EXACT []
synonym: "≈" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: CCC(C(C(=O)[O-])NC(=O)Nc1nc(SC)nc2c1ncn2[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-])O
l_bond_atoms: P35
l_displaced_atoms: O38-1
r_bond_atoms: O32
r_displaced_atoms: H32

[Term]
id: BpForms:rna:2161A
name: 2-methylthio-N6-isopentenyladenosine
def: "<p>Subsequently and independently characterized in E. coli tRNATyr.</p> <p>Phylogenetic distribution<ul><li>bacteria tRNA</li></ul></p>" []
synonym: "*" BROAD []
synonym: "cas: 20859-00-1" EXACT []
synonym: "modomics.new_nomenclature: 2161A" EXACT []
synonym: "modomics.short_name: ms2i6A" EXACT []
synonym: "ms2i6A" BROAD []
synonym: "pubchem.compound: 161337" EXACT []
synonym: "rnamods: 7" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: CSc1nc(NCC=C(C)C)c2c(n1)n(cn2)[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P30
l_displaced_atoms: O33-1
r_bond_atoms: O27
r_displaced_atoms: H27

[Term]
id: BpForms:rna:621A
name: 2-methylthio-N6-methyladenosine
def: "<p>Structure assigment is reported as a preliminary communication, without details. Source of tRNA: Thermodesulfobacterium commune.</p> <p>Phylogenetic distribution<ul><li>bacteria tRNA</li></ul></p>" []
synonym: "cas: 13406-51-4" EXACT []
synonym: "modomics.new_nomenclature: 621A" EXACT []
synonym: "modomics.short_name: ms2m6A" EXACT []
synonym: "ms2m6A" BROAD []
synonym: "rnamods: 5" EXACT []
synonym: "∞" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: CNc1nc(SC)nc2c1ncn2[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P26
l_displaced_atoms: O29-1
r_bond_atoms: O23
r_displaced_atoms: H23

[Term]
id: BpForms:rna:2162A
name: 2-methylthio-N6-threonylcarbamoyladenosine
def: "<p></p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li><li>eukarya tRNA</li></ul></p>" []
synonym: "(2S,3R)-2-({[9-{(2R,3R,4S,5R)-3,4-dihydroxy-5-[(phosphonooxy)methyl]tetrahydrofuran-2-yl}-2-(methylsulfanyl)-9H-purin-6-yl]carbamoyl}amino)-3-hydroxybutanoic acid (non-preferred name)" BROAD []
synonym: "(2S,3R)-2-[[9-[(2R,3R,4S,5R)-3,4-dihydroxy-5-(phosphonooxymethyl)oxolan-2-yl]-2-methylsulfanyl-purin-6-yl]carbamoylamino]-3-hydroxy-butanoic acid" BROAD []
synonym: "12A" BROAD []
synonym: "2-methylthio-N6-threonyl carbamoyladenosine" BROAD []
synonym: "2-methylthio-n6-(aminocarbonyl-l-threonyl)-adenosine-5'-monophosphate" BROAD []
synonym: "A" BROAD []
synonym: "[" BROAD []
synonym: "cas: 70333-82-3" EXACT []
synonym: "modomics.new_nomenclature: 2162A" EXACT []
synonym: "modomics.short_name: ms2t6A" EXACT []
synonym: "ms2t6A" BROAD []
synonym: "pdb-ccd: 12A" EXACT []
synonym: "rnamods: 12" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: CSc1nc(NC(=O)N[C@@H](C(=O)O)[C@@H](O)C)c2c(n1)n(cn2)[C@H]1O[C@@H]([C@H]([C@H]1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P38
l_displaced_atoms: O40-1
r_bond_atoms: O35
r_displaced_atoms: H35

[Term]
id: BpForms:rna:20U
name: 2-selenouridine
synonym: "modomics.new_nomenclature: 20U" EXACT []
synonym: "modomics.short_name: se2U" EXACT []
synonym: "ω" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: OC1C(O)C(OC1n1ccc(=O)[nH]c1=[Se])COP(=O)([O-])[O-]
l_bond_atoms: P19
l_displaced_atoms: O22-1
r_bond_atoms: O4
r_displaced_atoms: H4

[Term]
id: BpForms:rna:02U
name: 2-thio-2′-O-methyluridine
def: "<p>Preliminary communication of structural characterization and chemical synthesis is given in.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li></ul></p>" []
synonym: "2-thio-2'-O-methyluridine" BROAD []
synonym: "cas: 113886-72-9" EXACT []
synonym: "modomics.new_nomenclature: 02U" EXACT []
synonym: "modomics.short_name: s2Um" EXACT []
synonym: "rnamods: 60" EXACT []
synonym: "s2Um" BROAD []
synonym: "∏" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: COC1C(O)C(OC1n1ccc(=O)[nH]c1=S)COP(=O)([O-])[O-]
l_bond_atoms: P20
l_displaced_atoms: O23-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:2C
name: 2-thiocytidine
def: "<p>Initial structural and spectroscopic data are reported in, without derivation of a final structure.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li></ul></p>" []
synonym: "%" BROAD []
synonym: "4-amino-1-(5-o-phosphono-beta-d-ribofuranosyl)pyrimidine-2(1h)-thione" BROAD []
synonym: "RSP" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(4-azanyl-2-sulfanylidene-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "cas: 13239-97-9" EXACT []
synonym: "modomics.new_nomenclature: 2C" EXACT []
synonym: "modomics.short_name: s2C" EXACT []
synonym: "pdb-ccd: RSP" EXACT []
synonym: "pubchem.compound: 3011746" EXACT []
synonym: "rnamods: 23" EXACT []
synonym: "s2C" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: O[C@H]1[C@@H](O)[C@H](O[C@H]1n1ccc(nc1=S)N)COP(=O)([O-])[O-]
l_bond_atoms: P22
l_displaced_atoms: O24-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:2U
name: 2-thiouridine
def: "<p></p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li><li>eukarya tRNA</li></ul></p>" []
synonym: "2" BROAD []
synonym: "cas: 20235-78-3" EXACT []
synonym: "modomics.new_nomenclature: 2U" EXACT []
synonym: "modomics.short_name: s2U" EXACT []
synonym: "pubchem.compound: 3036443" EXACT []
synonym: "rnamods: 57" EXACT []
synonym: "s2U" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: OC1C(O)C(OC1n1ccc(=O)[nH]c1=S)COP(=O)([O-])[O-]
l_bond_atoms: P19
l_displaced_atoms: O22-1
r_bond_atoms: O4
r_displaced_atoms: H4

[Term]
id: BpForms:rna:0A
name: 2′-O-methyladenosine
def: "<p>Occurrence is rare in eukaryotes. First characterized as an O-2' or O-3' methyl derivative, and subsequently shown to be O-2'.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li><li>eukarya tRNA</li><li>archaea rRNA</li><li>bacteria rRNA</li><li>eukarya rRNA</li><li>eukarya mRNA</li><li>eukarya snRNA</li></ul></p>" []
synonym: "2'-O-methyladenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "2'-O-methyladenosine" BROAD []
synonym: "2'-o-methyladenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: ":" BROAD []
synonym: "A" BROAD []
synonym: "A2M" BROAD []
synonym: "Am" BROAD []
synonym: "[(2R,3R,4R,5R)-5-(6-aminopurin-9-yl)-3-hydroxy-4-methoxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "cas: 2140-79-6" EXACT []
synonym: "modomics.new_nomenclature: 0A" EXACT []
synonym: "modomics.short_name: Am" EXACT []
synonym: "pdb-ccd: A2M" EXACT []
synonym: "rnamods: 4" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: CO[C@@H]1[C@H](O)[C@H](O[C@@H]1n1cnc2c1ncnc2N)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O27-1
r_bond_atoms: O7
r_displaced_atoms: H7

[Term]
id: BpForms:rna:0C
name: 2′-O-methylcytidine
def: "<p>Cm was first characterized as an O-2' or O-3' methyl derivative, and subsequently shown to be O-2'.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li><li>eukarya tRNA</li><li>archaea rRNA</li><li>bacteria rRNA</li><li>eukarya rRNA</li><li>eukarya mRNA</li><li>eukarya snRNA</li></ul></p>" []
synonym: "2'-O-methylcytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "2'-O-methylcytidine" BROAD []
synonym: "B" BROAD []
synonym: "C" BROAD []
synonym: "Cm" BROAD []
synonym: "OMC" BROAD []
synonym: "[(2R,3R,4R,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-3-hydroxy-4-methoxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "cas: 2140-72-9" EXACT []
synonym: "modomics.new_nomenclature: 0C" EXACT []
synonym: "modomics.short_name: Cm" EXACT []
synonym: "o2'-methylycytidine-5'-monophosphate" BROAD []
synonym: "pdb-ccd: OMC" EXACT []
synonym: "pubchem.compound: 150971" EXACT []
synonym: "rnamods: 22" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: CO[C@H]1[C@H](O)[C@@H](O[C@H]1n1ccc(nc1=O)N)COP(=O)([O-])[O-]
l_bond_atoms: P23
l_displaced_atoms: O26-1
r_bond_atoms: O7
r_displaced_atoms: H7

[Term]
id: BpForms:rna:0G
name: 2′-O-methylguanosine
def: "<p>First characterized as an O-2' or O-3' methyl derivative, and subsequently shown to be O-2'.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li><li>eukarya tRNA</li><li>archaea rRNA</li><li>bacteria rRNA</li><li>eukarya rRNA</li><li>eukarya mRNA</li><li>eukarya snRNA</li></ul></p>" []
synonym: "#" BROAD []
synonym: "2'-O-methylguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "2'-O-methylguanosine" BROAD []
synonym: "G" BROAD []
synonym: "Gm" BROAD []
synonym: "OMG" BROAD []
synonym: "[(2R,3R,4R,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-3-hydroxy-4-methoxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "cas: 2140-71-8" EXACT []
synonym: "modomics.new_nomenclature: 0G" EXACT []
synonym: "modomics.short_name: Gm" EXACT []
synonym: "o2'-methylguanosine-5'-monophosphate" BROAD []
synonym: "pdb-ccd: OMG" EXACT []
synonym: "pubchem.compound: 188959" EXACT []
synonym: "rnamods: 32" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: CO[C@@H]1[C@H](O)[C@H](O[C@@H]1n1cnc2c1nc(N)[nH]c2=O)COP(=O)([O-])[O-]
l_bond_atoms: P27
l_displaced_atoms: O30-1
r_bond_atoms: O7
r_displaced_atoms: H7

[Term]
id: BpForms:rna:09A
name: 2′-O-methylinosine
def: "<p>More thorough characterization is reported in.</p> <p>Phylogenetic distribution<ul><li>eukarya rRNA</li></ul></p>" []
synonym: "2'-O-methylinosine" BROAD []
synonym: "Im" BROAD []
synonym: "cas: 3881-21-8" EXACT []
synonym: "modomics.new_nomenclature: 09A" EXACT []
synonym: "modomics.short_name: Im" EXACT []
synonym: "rnamods: 81" EXACT []
synonym: "≤" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: COC1C(O)C(OC1n1cnc2c1nc[nH]c2=O)COP(=O)([O-])[O-]
l_bond_atoms: P22
l_displaced_atoms: O25-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:09U
name: 2′-O-methylpseudouridine
def: "<p></p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>eukarya tRNA</li><li>eukarya rRNA</li><li>eukarya snRNA</li></ul></p>" []
synonym: "2'-O-methylpseudouridine" BROAD []
synonym: "Ym" BROAD []
synonym: "Z" BROAD []
synonym: "cas: 2140-68-3" EXACT []
synonym: "modomics.new_nomenclature: 09U" EXACT []
synonym: "modomics.short_name: Ym" EXACT []
synonym: "rnamods: 56" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: COC1C(O)C(OC1c1c[nH]c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P21
l_displaced_atoms: O24-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:0U
name: 2′-O-methyluridine
def: "<p>First characterized as an O-2' or O-3' methyl derivative, and subsequently shown to be O-2'.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li><li>eukarya tRNA</li><li>archaea rRNA</li><li>bacteria rRNA</li><li>eukarya rRNA</li><li>eukarya mRNA</li><li>eukarya snRNA</li></ul></p>" []
synonym: "2'-O-methyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "2'-O-methyluridine" BROAD []
synonym: "J" BROAD []
synonym: "OMU" BROAD []
synonym: "U" BROAD []
synonym: "Um" BROAD []
synonym: "[(2R,3R,4R,5R)-5-(2,4-dioxopyrimidin-1-yl)-3-hydroxy-4-methoxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "cas: 2140-76-3" EXACT []
synonym: "modomics.new_nomenclature: 0U" EXACT []
synonym: "modomics.short_name: Um" EXACT []
synonym: "o2'-methyluridine 5'-monophosphate" BROAD []
synonym: "pdb-ccd: OMU" EXACT []
synonym: "rnamods: 53" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: CO[C@H]1[C@H](O)[C@@H](O[C@H]1n1ccc(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O7
r_displaced_atoms: H7

[Term]
id: BpForms:rna:0503U
name: 2′-O-methyluridine 5-oxyacetic acid methyl ester	
synonym: "modomics.new_nomenclature: 0503U" EXACT []
synonym: "modomics.short_name: mcmo5Um" EXACT []
synonym: "Ͽ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: COC1[C@@H](O)[C@H](O[C@H]1n1cc(OCC(=O)OC)c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P29
l_displaced_atoms: O32-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:00A
name: 2′-O-ribosyladenosine (phosphate)
def: "<p>A nucleoside component of yeast tRNA was isolated and tentatively characterized as 2'(3')-O-ribosyladenosine by Hall, but whether the source material was tRNA was later concluded to be uncertain. Substitution at O-2' vs. O-3' was not established in an early reported synthesis. A recent and more detailed synthesis is given in. Ar registry number: 28269-89-8, Chemical Abstracts Index Name: Adenosine, 2'-O-b-D-ribofuranosyl-.</p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "2'-O-(5-O-phosphono-alpha-D-ribofuranosyl)adenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "2'-O-ribosyladenosine (phosphate)" BROAD []
synonym: "2'-o-(5-o-phosphono-alpha-d-ribofuranosyl)adenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "Ar(p)" BROAD []
synonym: "V3L" BROAD []
synonym: "[(2R,3R,4R,5R)-5-(6-aminopurin-9-yl)-4-[(2R,3R,4S,5R)-3,4-bis(oxidanyl)-5-(phosphonooxymethyl)oxolan-2-yl]oxy-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "^" BROAD []
synonym: "cas: 28050-13-7" EXACT []
synonym: "modomics.new_nomenclature: 00A" EXACT []
synonym: "modomics.short_name: Ar(p)" EXACT []
synonym: "pdb-ccd: V3L" EXACT []
synonym: "rnamods: 16" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O[C@@H]1[C@@H](O[C@H]([C@@H]1O)COP(=O)(O)O)O[C@@H]1[C@H](O)[C@@H](O[C@@H]1n1cnc2c1ncnc2N)COP(=O)([O-])[O-]
l_bond_atoms: P41
l_displaced_atoms: O43-1
r_bond_atoms: O23
r_displaced_atoms: H23

[Term]
id: BpForms:rna:00G
name: 2′-O-ribosylguanosine (phosphate)
def: "<p>This structure was initially reported in; more extensive structural data are presented in.
Gr registry number: 148711-49-3, Chemical Abstracts Index Name: Guanosine, 2'-O-b-D-ribofuranosyl-.</p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "2'-O-ribosylguanosine (phosphate)" BROAD []
synonym: "Gr(p)" BROAD []
synonym: "cas: 131293-20-4" EXACT []
synonym: "modomics.new_nomenclature: 00G" EXACT []
synonym: "modomics.short_name: Gr(p)" EXACT []
synonym: "pubchem.compound: 131365" EXACT []
synonym: "rnamods: 36" EXACT []
synonym: "ℑ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: Nc1[nH]c(=O)c2c(n1)n(cn2)[C@@H]1O[C@@H](C([C@@H]1O[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-])O)COP(=O)([O-])[O-]
l_bond_atoms: P41
l_displaced_atoms: O44-1
r_bond_atoms: O38
r_displaced_atoms: H38

[Term]
id: BpForms:rna:03U
name: 3,2′-O-dimethyluridine
def: "<p></p> <p>Phylogenetic distribution<ul><li>eukarya mRNA</li></ul></p>" []
synonym: "3,2'-O-dimethyluridine" BROAD []
synonym: "cas: 7103-27-7" EXACT []
synonym: "m3Um" BROAD []
synonym: "modomics.new_nomenclature: 03U" EXACT []
synonym: "modomics.short_name: m3Um" EXACT []
synonym: "rnamods: 92" EXACT []
synonym: "σ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: COC1[C@@H](O)[C@H](O[C@H]1n1ccc(=O)n(c1=O)C)COP(=O)([O-])[O-]
l_bond_atoms: P23
l_displaced_atoms: O26-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:308U
name: 3-(3-amino-3-carboxypropyl)-5,6-dihydrouridine
synonym: "modomics.new_nomenclature: 308U" EXACT []
synonym: "modomics.short_name: acp3D" EXACT []
synonym: "Ð" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: [O-]C(=O)C(CCN1C(=O)CCN(C1=O)C1OC(C(C1O)O)COP(=O)([O-])[O-])[NH3+]
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O21
r_displaced_atoms: H21

[Term]
id: BpForms:rna:309U
name: 3-(3-amino-3-carboxypropyl)pseudouridine
synonym: "modomics.new_nomenclature: 309U" EXACT []
synonym: "modomics.short_name: acp3Y" EXACT []
synonym: "Þ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: [O-]C(=O)C(CCn1c(=O)[nH]cc(c1=O)C1OC(C(C1O)O)COP(=O)([O-])[O-])[NH3+]
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:rna:30U
name: 3-(3-amino-3-carboxypropyl)uridine
def: "<p>Earlier symbols used were 4abu3U and X. Symbol X for acp3U has been confused in the literature with "unknown nucleoside" and its use is therefore discouraged.</p> <p>Phylogenetic distribution<ul><li>bacteria tRNA</li><li>archaea rRNA</li></ul></p>" []
synonym: "X" BROAD []
synonym: "acp3U" BROAD []
synonym: "cas: 52745-94-5" EXACT []
synonym: "modomics.new_nomenclature: 30U" EXACT []
synonym: "modomics.short_name: acp3U" EXACT []
synonym: "rnamods: 61" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: [O-]C(=O)C(CCn1c(=O)ccn(c1=O)C1OC(C(C1O)O)COP(=O)([O-])[O-])[NH3+]
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O21
r_displaced_atoms: H21

[Term]
id: BpForms:rna:3C
name: 3-methylcytidine
def: "<p></p> <p>Phylogenetic distribution<ul><li>bacteria tRNA</li><li>eukarya tRNA</li><li>eukarya rRNA</li></ul></p>" []
synonym: "'" BROAD []
synonym: "cas: 2140-64-9" EXACT []
synonym: "m3C" BROAD []
synonym: "modomics.new_nomenclature: 3C" EXACT []
synonym: "modomics.short_name: m3C" EXACT []
synonym: "pubchem.compound: 159649" EXACT []
synonym: "rnamods: 20" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: OC1[C@@H](O)[C@H](O[C@H]1n1ccc([n+](c1=O)C)N)COP(=O)([O-])[O-]
l_bond_atoms: P22
l_displaced_atoms: O25-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:39U
name: 3-methylpseudouridine
def: "<p>Preparation of m3Y was reported in as one of several products formed by reaction of Y with diazomethane; however, the structure assignment of the synthetic material was regarded as tentative.</p> <p>Phylogenetic distribution<ul><li>bacteria rRNA</li></ul></p>" []
synonym: "cas: 81691-06-7" EXACT []
synonym: "m3Y" BROAD []
synonym: "modomics.new_nomenclature: 39U" EXACT []
synonym: "modomics.short_name: m3Y" EXACT []
synonym: "rnamods: 94" EXACT []
synonym: "κ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: OC1C(O)C(OC1c1c[nH]c(=O)n(c1=O)C)COP(=O)([O-])[O-]
l_bond_atoms: P20
l_displaced_atoms: O23-1
r_bond_atoms: O4
r_displaced_atoms: H4

[Term]
id: BpForms:rna:3U
name: 3-methyluridine
def: "<p>Verification that the early report of m3U synthesis was correct was made much later. Although this nucleoside was reported present in both 18S and 28S rRNA from HeLa cells, later studies showed it to be confined to the 28S rRNA.</p> <p>Phylogenetic distribution<ul><li>archaea rRNA</li><li>bacteria rRNA</li><li>eukarya rRNA</li></ul></p>" []
synonym: "3-methyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "3-methyluridine-5'-monophoshate" BROAD []
synonym: "U" BROAD []
synonym: "UR3" BROAD []
synonym: "[(2R,3S,4R,5R)-5-[3-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "cas: 2140-69-4" EXACT []
synonym: "m3U" BROAD []
synonym: "modomics.new_nomenclature: 3U" EXACT []
synonym: "modomics.short_name: m3U" EXACT []
synonym: "pdb-ccd: UR3" EXACT []
synonym: "pubchem.compound: 316991" EXACT []
synonym: "rnamods: 85" EXACT []
synonym: "δ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@H]1[C@@H](O)[C@H](O[C@H]1n1ccc(=O)n(c1=O)C)COP(=O)([O-])[O-]
l_bond_atoms: P23
l_displaced_atoms: O26-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:4G
name: 4-demethylwyosine
def: "<p>Nomenclature for the yW family of nucleosides is discussed in and. Numbering is based on 1H-imidazo[1,2-a]purine.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li></ul></p>" []
synonym: "cas: 59327-60-5" EXACT []
synonym: "imG-14" BROAD []
synonym: "modomics.new_nomenclature: 4G" EXACT []
synonym: "modomics.short_name: imG-14" EXACT []
synonym: "pubchem.compound: 477875" EXACT []
synonym: "rnamods: 100" EXACT []
synonym: "†" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: OC1C(O)C(OC1n1cnc2c1[nH]c1nc(cn1c2=O)C)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O4
r_displaced_atoms: H4

[Term]
id: BpForms:rna:74U
name: 4-thiouridine
def: "<p></p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li></ul></p>" []
synonym: "1-(5-O-phosphono-beta-D-ribofuranosyl)-4-thioxo-3,4-dihydropyrimidin-2(1H)-one" BROAD []
synonym: "4" BROAD []
synonym: "4-thiouridine-5'-monophosphate" BROAD []
synonym: "4SU" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,4R,5R)-3,4-dihydroxy-5-(2-oxo-4-sulfanylidene-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "cas: 13957-31-8" EXACT []
synonym: "modomics.new_nomenclature: 74U" EXACT []
synonym: "modomics.short_name: s4U" EXACT []
synonym: "pdb-ccd: 4SU" EXACT []
synonym: "pubchem.compound: 3954028" EXACT []
synonym: "rnamods: 58" EXACT []
synonym: "s4U" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@H]1[C@H](O)[C@@H](O[C@H]1n1ccc(=S)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P23
l_displaced_atoms: O26-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:05C
name: 5,2′-O-dimethylcytidine
def: "<p>Preliminary communication of structural characterization and chemical synthesis is given in.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li></ul></p>" []
synonym: "5,2'-O-dimethylcytidine" BROAD []
synonym: "cas: 113886-70-7" EXACT []
synonym: "m5Cm" BROAD []
synonym: "modomics.new_nomenclature: 05C" EXACT []
synonym: "modomics.short_name: m5Cm" EXACT []
synonym: "rnamods: 26" EXACT []
synonym: "τ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: COC1C(O)C(OC1n1cc(C)c(nc1=O)N)COP(=O)([O-])[O-]
l_bond_atoms: P20
l_displaced_atoms: O23-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:05U
name: 5,2′-O-dimethyluridine
def: "<p>Alternate symbol is Tm.</p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "2',5-dimethyluridine-5'-monophosphate" BROAD []
synonym: "2MU" BROAD []
synonym: "5,2'-O-dimethyluridine" BROAD []
synonym: "5-methyl-2'-O-methyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3R,4R,5R)-3-hydroxy-4-methoxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "\" BROAD []
synonym: "cas: 55486-09-4" EXACT []
synonym: "m5Um" BROAD []
synonym: "modomics.new_nomenclature: 05U" EXACT []
synonym: "modomics.short_name: m5Um" EXACT []
synonym: "pdb-ccd: 2MU" EXACT []
synonym: "rnamods: 54" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: CO[C@H]1[C@H](O)[C@@H](O[C@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O7
r_displaced_atoms: H7

[Term]
id: BpForms:rna:0522U
name: 5-(carboxyhydroxymethyl)-2′-O-methyluridine methyl ester
synonym: "b" BROAD []
synonym: "modomics.new_nomenclature: 0522U" EXACT []
synonym: "modomics.short_name: mchm5Um" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: COC1[C@@H](O)[C@H](O[C@H]1n1cc(c(=O)[nH]c1=O)C(C(=O)OC)O)COP(=O)([O-])[O-]
l_bond_atoms: P29
l_displaced_atoms: O32-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:522U
name: 5-(carboxyhydroxymethyl)uridine methyl ester
def: "<p></p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "," BROAD []
synonym: "cas: 89665-83-8" EXACT []
synonym: "mchm5U" BROAD []
synonym: "modomics.new_nomenclature: 522U" EXACT []
synonym: "modomics.short_name: mchm5U" EXACT []
synonym: "rnamods: 67" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: COC(=O)C(c1cn(c(=O)[nH]c1=O)C1OC(C(C1O)O)COP(=O)([O-])[O-])O
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O21
r_displaced_atoms: H21

[Term]
id: BpForms:rna:2583U
name: 5-(isopentenylaminomethyl)-2-thiouridine
def: "<p>Preparation of conventional manuscript is in progress. Source of tRNA: Thermodesulfobacterium commune. Coautors for this work: Phillips, D.R., Hashizume, T., Crain, P.F., Widdel, F.</p> <p>Phylogenetic distribution<ul><li>bacteria tRNA</li></ul></p>" []
synonym: "5-(isopentenylaminomethyl)- 2-thiouridine" BROAD []
synonym: "cas: 872710-78-6" EXACT []
synonym: "inm5s2U" BROAD []
synonym: "modomics.new_nomenclature: 2583U" EXACT []
synonym: "modomics.short_name: inm5s2U" EXACT []
synonym: "rnamods: 104" EXACT []
synonym: "½" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: CC(=CC[NH2+]Cc1cn(c(=S)[nH]c1=O)C1OC(C(C1O)O)COP(=O)([O-])[O-])C
l_bond_atoms: P27
l_displaced_atoms: O30-1
r_bond_atoms: O24
r_displaced_atoms: H24

[Term]
id: BpForms:rna:0583U
name: 5-(isopentenylaminomethyl)-2′-O-methyluridine
def: "<p>Preparation of conventional manuscript is in progress. Source of tRNA: Thermodesulfobacterium commune. Coautors for this work: Phillips, D.R., Hashizume, T., Crain, P.F., Widdel, F.</p> <p>Phylogenetic distribution<ul><li>bacteria tRNA</li></ul></p>" []
synonym: "5-(isopentenylaminomethyl)- 2'-O-methyluridine" BROAD []
synonym: "cas: 872710-80-0" EXACT []
synonym: "inm5Um" BROAD []
synonym: "modomics.new_nomenclature: 0583U" EXACT []
synonym: "modomics.short_name: inm5Um" EXACT []
synonym: "rnamods: 105" EXACT []
synonym: "¼" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: COC1C(O)C(OC1n1cc(C[NH2+]CC=C(C)C)c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P29
l_displaced_atoms: O32-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:583U
name: 5-(isopentenylaminomethyl)uridine
def: "<p>Preparation of conventional manuscript is in progress. Source of tRNA: Thermodesulfobacterium commune. Coautors for this work: Phillips, D.R., Hashizume, T., Crain, P.F., Widdel, F.</p> <p>Phylogenetic distribution<ul><li>bacteria tRNA</li></ul></p>" []
synonym: "cas: 872710-76-4" EXACT []
synonym: "inm5U" BROAD []
synonym: "modomics.new_nomenclature: 583U" EXACT []
synonym: "modomics.short_name: inm5U" EXACT []
synonym: "rnamods: 103" EXACT []
synonym: "¾" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: CC(=CC[NH2+]Cc1cn(c(=O)[nH]c1=O)C1OC(C(C1O)O)COP(=O)([O-])[O-])C
l_bond_atoms: P27
l_displaced_atoms: O30-1
r_bond_atoms: O24
r_displaced_atoms: H24

[Term]
id: BpForms:rna:21510U
name: 5-aminomethyl-2-geranylthiouridine
synonym: "modomics.new_nomenclature: 21510U" EXACT []
synonym: "modomics.short_name: nm5ges2U" EXACT []
synonym: "Δ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: [NH3+]Cc1cn(c(nc1=O)SC/C=C(/CCC=C(C)C)\C)[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P36
l_displaced_atoms: O39-1
r_bond_atoms: O33
r_displaced_atoms: H33

[Term]
id: BpForms:rna:20510U
name: 5-aminomethyl-2-selenouridine
synonym: "modomics.new_nomenclature: 20510U" EXACT []
synonym: "modomics.short_name: nm5se2U" EXACT []
synonym: "π" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: [NH3+]Cc1cn(c(=[Se])[nH]c1=O)[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P27
l_displaced_atoms: O30-1
r_bond_atoms: O24
r_displaced_atoms: H24

[Term]
id: BpForms:rna:2510U
name: 5-aminomethyl-2-thiouridine
def: "<p>Observed as a component of unfractionated tRNA from E. coli mutants, as a biosynthetic precursor to mnm5s2U; not rigorously characterized by conventional means. No chemical synthesis reported.</p> <p>Phylogenetic distribution<ul><li>bacteria tRNA</li></ul></p>" []
synonym: "cas: 109666-14-0" EXACT []
synonym: "modomics.new_nomenclature: 2510U" EXACT []
synonym: "modomics.short_name: nm5s2U" EXACT []
synonym: "nm5s2U" BROAD []
synonym: "rnamods: 71" EXACT []
synonym: "∫" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: [NH3+]Cc1cn(c(=S)[nH]c1=O)[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P27
l_displaced_atoms: O30-1
r_bond_atoms: O24
r_displaced_atoms: H24

[Term]
id: BpForms:rna:510U
name: 5-aminomethyluridine
synonym: "modomics.new_nomenclature: 510U" EXACT []
synonym: "modomics.short_name: nm5U" EXACT []
synonym: "∪" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: [NH3+]Cc1cn(c(=O)[nH]c1=O)C1OC(C(C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O21
r_displaced_atoms: H21

[Term]
id: BpForms:rna:531U
name: 5-carbamoylhydroxymethyluridine
synonym: "modomics.new_nomenclature: 531U" EXACT []
synonym: "modomics.short_name: nchm5U" EXACT []
synonym: "r" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: NC(=O)C(c1cn(c(=O)[nH]c1=O)[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-])O
l_bond_atoms: P26
l_displaced_atoms: O29-1
r_bond_atoms: O23
r_displaced_atoms: H23

[Term]
id: BpForms:rna:253U
name: 5-carbamoylmethyl-2-thiouridine
synonym: "l" BROAD []
synonym: "modomics.new_nomenclature: 253U" EXACT []
synonym: "modomics.short_name: ncm5s2U" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: NC(=O)Cc1cn(c(=S)[nH]c1=O)[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P26
l_displaced_atoms: O29-1
r_bond_atoms: O23
r_displaced_atoms: H23

[Term]
id: BpForms:rna:053U
name: 5-carbamoylmethyl-2′-O-methyluridine
def: "<p>The first preparation of ncm5Um was by conversion of cm5Um which had been isolated from tRNA in the same study. Conventional chemical synthesis of ncm5Um is reported in.</p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "5-carbamoylmethyl-2'-O-methyluridine" BROAD []
synonym: "cas: 60197-30-0" EXACT []
synonym: "modomics.new_nomenclature: 053U" EXACT []
synonym: "modomics.short_name: ncm5Um" EXACT []
synonym: "ncm5Um" BROAD []
synonym: "rnamods: 76" EXACT []
synonym: "~" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: COC1C(O)C(OC1n1cc(CC(=O)N)c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:53U
name: 5-carbamoylmethyluridine
def: "<p></p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "&" BROAD []
synonym: "cas: 29569-30-0" EXACT []
synonym: "modomics.new_nomenclature: 53U" EXACT []
synonym: "modomics.short_name: ncm5U" EXACT []
synonym: "ncm5U" BROAD []
synonym: "rnamods: 75" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: NC(=O)Cc1cn(c(=O)[nH]c1=O)C1OC(C(C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P23
l_displaced_atoms: O26-1
r_bond_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:rna:520U
name: 5-carboxyhydroxymethyluridine
def: "<p>The Chemical Abstracts registry number listed is for the natural (S)-isomer; the (R)-isomer registry number is 127911-55-1.</p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "5-(carboxyhydroxymethyl)uridine" BROAD []
synonym: "cas: 89708-80-5" EXACT []
synonym: "chm5U" BROAD []
synonym: "modomics.new_nomenclature: 520U" EXACT []
synonym: "modomics.short_name: chm5U" EXACT []
synonym: "rnamods: 66" EXACT []
synonym: "≥" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: [O-]C(=O)C(c1cn(c(=O)[nH]c1=O)C1OC(C(C1O)O)COP(=O)([O-])[O-])O
l_bond_atoms: P23
l_displaced_atoms: O26-1
r_bond_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:rna:2540U
name: 5-carboxymethyl-2-thiouridine
synonym: "modomics.new_nomenclature: 2540U" EXACT []
synonym: "modomics.short_name: cm5s2U" EXACT []
synonym: "℘" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: [O-]C(=O)Cc1cn(c(=S)[nH]c1=O)[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P26
l_displaced_atoms: O29-1
r_bond_atoms: O23
r_displaced_atoms: H23

[Term]
id: BpForms:rna:2151U
name: 5-carboxymethylaminomethyl-2-geranylthiouridine
def: "<p>None</p> <p>Phylogenetic distribution<ul><li></li></ul></p>" []
synonym: "cas: 1401688-11-6" EXACT []
synonym: "f" BROAD []
synonym: "gcmnm5s2U" BROAD []
synonym: "geranylated 5-carboxymethylaminomethyl-2-thiouridine" BROAD []
synonym: "modomics.new_nomenclature: 2151U" EXACT []
synonym: "modomics.short_name: cmnm5ges2U" EXACT []
synonym: "rnamods: 119" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: [O-]C(=O)C[NH2+]Cc1cn(c(nc1=O)SC/C=C(/CCC=C(C)C)\C)[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P39
l_displaced_atoms: O42-1
r_bond_atoms: O36
r_displaced_atoms: H36

[Term]
id: BpForms:rna:2051U
name: 5-carboxymethylaminomethyl-2-selenouridine
synonym: "modomics.new_nomenclature: 2051U" EXACT []
synonym: "modomics.short_name: cmnm5se2U" EXACT []
synonym: "⊥" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: [O-]C(=O)C[NH2+]Cc1cn(c(=[Se])[nH]c1=O)[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P30
l_displaced_atoms: O33-1
r_bond_atoms: O27
r_displaced_atoms: H27

[Term]
id: BpForms:rna:251U
name: 5-carboxymethylaminomethyl-2-thiouridine
def: "<p>Alternate symbol is cmam5s2U.</p> <p>Phylogenetic distribution<ul><li>bacteria tRNA</li></ul></p>" []
synonym: "$" BROAD []
synonym: "cas: 78173-95-2" EXACT []
synonym: "cmnm5s2U" BROAD []
synonym: "modomics.new_nomenclature: 251U" EXACT []
synonym: "modomics.short_name: cmnm5s2U" EXACT []
synonym: "pubchem.compound: 3037867" EXACT []
synonym: "rnamods: 79" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: [O-]C(=O)C[NH2+]Cc1cn(c(=S)[nH]c1=O)[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P30
l_displaced_atoms: O33-1
r_bond_atoms: O27
r_displaced_atoms: H27

[Term]
id: BpForms:rna:051U
name: 5-carboxymethylaminomethyl-2′-O-methyluridine
def: "<p>Alternate symbol is cmam5Um. The natural nucleoside from E. coli tRNALeu was originally characterized by comparison of its NMR spectrum with that of synthetic material. The discovery of cmnm5Um is cited in as a meeting abstract, in which, however, the compound is neither named nor structural data presented. A recent and more rigorous structural characterization is reported in.</p> <p>Phylogenetic distribution<ul><li>bacteria tRNA</li></ul></p>" []
synonym: ")" BROAD []
synonym: "5-carboxymethylaminomethyl- 2'-O-methyluridine" BROAD []
synonym: "cas: 110419-13-1" EXACT []
synonym: "cmnm5Um" BROAD []
synonym: "modomics.new_nomenclature: 051U" EXACT []
synonym: "modomics.short_name: cmnm5Um" EXACT []
synonym: "rnamods: 78" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: COC1C(O)C(OC1n1cc(C[NH2+]CC(=O)[O-])c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P28
l_displaced_atoms: O31-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:51U
name: 5-carboxymethylaminomethyluridine
def: "<p>Alternate symbol is cmam5U.</p> <p>Phylogenetic distribution<ul><li>bacteria tRNA</li><li>eukarya tRNA</li></ul></p>" []
synonym: "!" BROAD []
synonym: "cas: 69181-26-6" EXACT []
synonym: "cmnm5U" BROAD []
synonym: "modomics.new_nomenclature: 51U" EXACT []
synonym: "modomics.short_name: cmnm5U" EXACT []
synonym: "pubchem.compound: 194306" EXACT []
synonym: "rnamods: 77" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: [O-]C(=O)C[NH2+]Cc1cn(c(=O)[nH]c1=O)C1OC(C(C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P27
l_displaced_atoms: O30-1
r_bond_atoms: O24
r_displaced_atoms: H24

[Term]
id: BpForms:rna:52U
name: 5-carboxymethyluridine
def: "<p>5-(Hydroxymethyl)cytidine and 5-(carboxymethyl)uridine were identified as the monophosphates by their UV spectra following separation by 2D-TLC (data not shown); however, availability of authentic compounds or of previously cited properties was not addressed. These structure assignments are therefore considered inconclusive.</p> <p>Phylogenetic distribution<ul><li>eukarya rRNA</li></ul></p>" []
synonym: "cas: 20964-06-1" EXACT []
synonym: "cm5U" BROAD []
synonym: "modomics.new_nomenclature: 52U" EXACT []
synonym: "modomics.short_name: cm5U" EXACT []
synonym: "pubchem.compound: 3080720" EXACT []
synonym: "rnamods: 87" EXACT []
synonym: "◊" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: [O-]C(=O)Cc1cn(c(=O)[nH]c1=O)C1OC(C(C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P23
l_displaced_atoms: O26-1
r_bond_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:rna:55U
name: 5-cyanomethyluridine
def: "<p>None</p> <p>Phylogenetic distribution<ul><li></li></ul></p>" []
synonym: "5-cyanomethyl-uridine" BROAD []
synonym: "cas: 58479-73-5" EXACT []
synonym: "cnm5U" BROAD []
synonym: "modomics.new_nomenclature: 55U" EXACT []
synonym: "modomics.short_name: cnm5U" EXACT []
synonym: "rnamods: 120" EXACT []
synonym: "Ѷ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: N#CCc1cn(c(=O)[nH]c1=O)[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:rna:071C
name: 5-formyl-2′-O-methylcytidine
def: "<p></p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "5-formyl-2'-O-methylcytidine" BROAD []
synonym: "cas: 176858-79-0" EXACT []
synonym: "f5Cm" BROAD []
synonym: "modomics.new_nomenclature: 071C" EXACT []
synonym: "modomics.short_name: f5Cm" EXACT []
synonym: "rnamods: 95" EXACT []
synonym: "°" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: COC1C(O)C(OC1n1cc(C=O)c(nc1=O)N)COP(=O)([O-])[O-]
l_bond_atoms: P21
l_displaced_atoms: O24-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:71C
name: 5-formylcytidine
def: "<p></p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "5-formylcytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: ">" BROAD []
synonym: "RSQ" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(4-azanyl-5-methanoyl-2-oxidanylidene-pyrimidin-1-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "cas: 148608-53-1" EXACT []
synonym: "f5C" BROAD []
synonym: "modomics.new_nomenclature: 71C" EXACT []
synonym: "modomics.short_name: f5C" EXACT []
synonym: "pdb-ccd: RSQ" EXACT []
synonym: "rnamods: 25" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: O=Cc1cn(c(=O)nc1N)[C@H]1O[C@H]([C@@H]([C@@H]1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O21
r_displaced_atoms: H21

[Term]
id: BpForms:rna:50C
name: 5-hydroxycytidine
synonym: "modomics.new_nomenclature: 50C" EXACT []
synonym: "modomics.short_name: ho5C" EXACT []
synonym: "Ç" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: OC1C(O)C(OC1n1cc(O)c(nc1=O)N)COP(=O)([O-])[O-]
l_bond_atoms: P19
l_displaced_atoms: O22-1
r_bond_atoms: O4
r_displaced_atoms: H4

[Term]
id: BpForms:rna:51C
name: 5-hydroxymethylcytidine
def: "<p>5-(Hydroxymethyl)cytidine and 5-(carboxymethyl)uridine were identified as the monophosphates by their UV spectra following separation by 2D-TLC (data not shown); however, availability of authentic compounds or of previously cited properties was not addressed. These structure assignments are therefore considered inconclusive.</p> <p>Phylogenetic distribution<ul><li>eukarya rRNA</li></ul></p>" []
synonym: "cas: 19235-17-7" EXACT []
synonym: "hm5C" BROAD []
synonym: "modomics.new_nomenclature: 51C" EXACT []
synonym: "modomics.short_name: hm5C" EXACT []
synonym: "rnamods: 84" EXACT []
synonym: "∅" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: OCc1cn(c(=O)nc1N)C1OC(C(C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P20
l_displaced_atoms: O23-1
r_bond_atoms: O17
r_displaced_atoms: H17

[Term]
id: BpForms:rna:50U
name: 5-hydroxyuridine
def: "<p></p> <p>Phylogenetic distribution<ul><li>bacteria tRNA</li><li>eukarya tRNA</li></ul></p>" []
synonym: "cas: 957-77-7" EXACT []
synonym: "ho5U" BROAD []
synonym: "modomics.new_nomenclature: 50U" EXACT []
synonym: "modomics.short_name: ho5U" EXACT []
synonym: "rnamods: 62" EXACT []
synonym: "∝" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: OC1C(O)C(OC1n1cc(O)c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P20
l_displaced_atoms: O23-1
r_bond_atoms: O4
r_displaced_atoms: H4

[Term]
id: BpForms:rna:2521U
name: 5-methoxycarbonylmethyl-2-thiouridine
def: "<p></p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "3" BROAD []
synonym: "5-(2-methoxy-2-oxoethyl)-1-(5-O-phosphono-beta-D-ribofuranosyl)-2-thioxo-2,3-dihydropyrimidin-4(1H)-one" BROAD []
synonym: "5-(o-methylaceto)-2-thio-2-deoxy-uridine-5'-monophosphate" BROAD []
synonym: "70U" BROAD []
synonym: "U" BROAD []
synonym: "cas: 20299-15-4" EXACT []
synonym: "mcm5s2U" BROAD []
synonym: "methyl 2-[1-[(2R,3R,4S,5R)-3,4-dihydroxy-5-(phosphonooxymethyl)oxolan-2-yl]-4-oxo-2-sulfanylidene-pyrimidin-5-yl]ethanoate" BROAD []
synonym: "modomics.new_nomenclature: 2521U" EXACT []
synonym: "modomics.short_name: mcm5s2U" EXACT []
synonym: "pdb-ccd: 70U" EXACT []
synonym: "rnamods: 70" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: COC(=O)Cc1cn(c(=S)[nH]c1=O)[C@@H]1O[C@H]([C@@H]([C@@H]1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P28
l_displaced_atoms: O31-1
r_bond_atoms: O25
r_displaced_atoms: H25

[Term]
id: BpForms:rna:0521U
name: 5-methoxycarbonylmethyl-2′-O-methyluridine
def: "<p></p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "5-methoxycarbonylmethyl-2'-O-methyluridine" BROAD []
synonym: "cas: 60197-31-1" EXACT []
synonym: "mcm5Um" BROAD []
synonym: "modomics.new_nomenclature: 0521U" EXACT []
synonym: "modomics.short_name: mcm5Um" EXACT []
synonym: "rnamods: 69" EXACT []
synonym: "∩" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: COC1C(O)C(OC1n1cc(CC(=O)OC)c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:521U
name: 5-methoxycarbonylmethyluridine
def: "<p></p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "1" BROAD []
synonym: "cas: 29428-50-0" EXACT []
synonym: "mcm5U" BROAD []
synonym: "modomics.new_nomenclature: 521U" EXACT []
synonym: "modomics.short_name: mcm5U" EXACT []
synonym: "rnamods: 68" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: COC(=O)Cc1cn(c(=O)[nH]c1=O)C1OC(C(C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O21
r_displaced_atoms: H21

[Term]
id: BpForms:rna:501U
name: 5-methoxyuridine
def: "<p></p> <p>Phylogenetic distribution<ul><li>bacteria tRNA</li></ul></p>" []
synonym: "5" BROAD []
synonym: "cas: 35542-01-9" EXACT []
synonym: "mo5U" BROAD []
synonym: "modomics.new_nomenclature: 501U" EXACT []
synonym: "modomics.short_name: mo5U" EXACT []
synonym: "pubchem.compound: 169704" EXACT []
synonym: "rnamods: 63" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: COc1cn(c(=O)[nH]c1=O)C1OC(C(C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P21
l_displaced_atoms: O24-1
r_bond_atoms: O18
r_displaced_atoms: H18

[Term]
id: BpForms:rna:25U
name: 5-methyl-2-thiouridine
def: "<p>Alternate symbol is s2T. The occurrence of m5s2U in archaeal tRNA is unusual.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li><li>eukarya tRNA</li></ul></p>" []
synonym: "F" BROAD []
synonym: "cas: 32738-09-3" EXACT []
synonym: "m5s2U" BROAD []
synonym: "modomics.new_nomenclature: 25U" EXACT []
synonym: "modomics.short_name: m5s2U" EXACT []
synonym: "pubchem.compound: 3035361" EXACT []
synonym: "rnamods: 59" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: OC1[C@@H](O)[C@H](O[C@H]1n1cc(C)c(=O)[nH]c1=S)COP(=O)([O-])[O-]
l_bond_atoms: P23
l_displaced_atoms: O26-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:21511U
name: 5-methylaminomethyl-2-geranylthiouridine
def: "<p>None</p> <p>Phylogenetic distribution<ul><li></li></ul></p>" []
synonym: "cas: 1401688-10-5" EXACT []
synonym: "geranylated 5-methylaminomethyl-2-thiouridine" BROAD []
synonym: "gmnm5s2U" BROAD []
synonym: "h" BROAD []
synonym: "modomics.new_nomenclature: 21511U" EXACT []
synonym: "modomics.short_name: mnm5ges2U" EXACT []
synonym: "rnamods: 118" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: C[NH2+]Cc1cn(c(nc1=O)SC/C=C(/CCC=C(C)C)\C)[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P36
l_displaced_atoms: O39-1
r_bond_atoms: O33
r_displaced_atoms: H33

[Term]
id: BpForms:rna:20511U
name: 5-methylaminomethyl-2-selenouridine
def: "<p>Earlier reports of se4U in RNA cited in were discounted, as discussed in. Although only one selenonucleoside, mnm5se2U, has been structurally characterized, it is likely that others exist but have not been detected due to oxidation, for example, in eukaryotic tRNA.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li></ul></p>" []
synonym: "cas: 89314-80-7" EXACT []
synonym: "mnm5se2U" BROAD []
synonym: "modomics.new_nomenclature: 20511U" EXACT []
synonym: "modomics.short_name: mnm5se2U" EXACT []
synonym: "pubchem.compound: 6336326" EXACT []
synonym: "rnamods: 74" EXACT []
synonym: "≅" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: C[NH2+]Cc1cn(c(=[Se])[nH]c1=O)[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P27
l_displaced_atoms: O30-1
r_bond_atoms: O24
r_displaced_atoms: H24

[Term]
id: BpForms:rna:2511U
name: 5-methylaminomethyl-2-thiouridine
def: "<p>Alternate symbol is mam5s2U.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li></ul></p>" []
synonym: "5-[(methylamino)methyl]-1-(5-O-phosphono-beta-D-ribofuranosyl)-2-thioxo-2,3-dihydropyrimidin-4(1H)-one" BROAD []
synonym: "5-methylaminomethyl-2-thiouridine-5'-monophosphate" BROAD []
synonym: "S" BROAD []
synonym: "U" BROAD []
synonym: "U8U" BROAD []
synonym: "[(2R,3S,4R,5R)-3,4-dihydroxy-5-[5-(methylaminomethyl)-4-oxo-2-sulfanylidene-pyrimidin-1-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "cas: 32860-54-1" EXACT []
synonym: "mnm5s2U" BROAD []
synonym: "modomics.new_nomenclature: 2511U" EXACT []
synonym: "modomics.short_name: mnm5s2U" EXACT []
synonym: "pdb-ccd: U8U" EXACT []
synonym: "pubchem.compound: 3036488" EXACT []
synonym: "rnamods: 73" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: CNCc1cn(c(=S)[nH]c1=O)[C@@H]1O[C@H]([C@@H]([C@@H]1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P26
l_displaced_atoms: O29-1
r_bond_atoms: O23
r_displaced_atoms: H23

[Term]
id: BpForms:rna:511U
name: 5-methylaminomethyluridine
def: "<p>Alternate symbol is mam5U. More thorough characterization in.</p> <p>Phylogenetic distribution<ul><li>bacteria tRNA</li></ul></p>" []
synonym: "(2r,4s)-1-[(4r)-3,4-dihydroxytetrahydrofuran-2-yl]-5-[(methylamino)methyl]-1,2,3,4-tetrahydropyrimidine-2,4-diol-5'-monophosphate" BROAD []
synonym: "5-[(methylamino)methyl]uridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "MNU" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,4R,5R)-3,4-dihydroxy-5-[5-(methylaminomethyl)-2,4-dioxo-pyrimidin-1-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "cas: 72667-55-1" EXACT []
synonym: "mnm5U" BROAD []
synonym: "modomics.new_nomenclature: 511U" EXACT []
synonym: "modomics.short_name: mnm5U" EXACT []
synonym: "pdb-ccd: MNU" EXACT []
synonym: "rnamods: 72" EXACT []
synonym: "{" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: CNCc1cn(c(=O)[nH]c1=O)[C@@H]1O[C@@H]([C@@H]([C@@H]1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P26
l_displaced_atoms: O29-1
r_bond_atoms: O23
r_displaced_atoms: H23

[Term]
id: BpForms:rna:5C
name: 5-methylcytidine
def: "<p></p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>eukarya tRNA</li><li>archaea rRNA</li><li>bacteria rRNA</li><li>eukarya rRNA</li><li>eukarya mRNA</li></ul></p>" []
synonym: "5-methylcytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "5-methylcytidine-5'-monophosphate" BROAD []
synonym: "5MC" BROAD []
synonym: "?" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(4-amino-5-methyl-2-oxo-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "cas: 2140-61-6" EXACT []
synonym: "m5C" BROAD []
synonym: "modomics.new_nomenclature: 5C" EXACT []
synonym: "modomics.short_name: m5C" EXACT []
synonym: "pdb-ccd: 5MC" EXACT []
synonym: "pubchem.compound: 92918" EXACT []
synonym: "rnamods: 21" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1n1cc(C)c(nc1=O)N)COP(=O)([O-])[O-]
l_bond_atoms: P23
l_displaced_atoms: O26-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:58U
name: 5-methyldihydrouridine
def: "<p>This RNA is reported as a chromatin-associated 3.2-3.8S species, with an unusual concentration of dihydropyrimidine nucleosides, but its occurrence as a separate class of RNA remains controversial. For review, see. Characterization of this nucleoside, not otherwise reported in RNA, was based on detection of 2-amino-isobutyric acid following treatment with alkali. Direct comparison with the authentic nucleoside was not made.</p> <p>Phylogenetic distribution<ul><li>eukarya chromosomal RNA</li></ul></p>" []
synonym: "cas: 23067-10-9" EXACT []
synonym: "m5D" BROAD []
synonym: "modomics.new_nomenclature: 58U" EXACT []
synonym: "modomics.short_name: m5D" EXACT []
synonym: "rnamods: 93" EXACT []
synonym: "ρ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: OC1C(O)C(OC1N1CC(C)C(=O)NC1=O)COP(=O)([O-])[O-]
l_bond_atoms: P19
l_displaced_atoms: O22-1
r_bond_atoms: O4
r_displaced_atoms: H4

[Term]
id: BpForms:rna:5U
name: 5-methyluridine
def: "<p>Alternate commonly used symbol is T. Other common names are thymine riboside and ribosylthymine. Occurrence is rare in archaeal tRNA. Enzymatic synthesis was reported in, which preceded the first report of chemical synthesis.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li><li>eukarya tRNA</li><li>bacteria rRNA</li><li>bacteria tmRNA</li></ul></p>" []
synonym: "5-methyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "5-methyluridine 5'-monophosphate" BROAD []
synonym: "5MU" BROAD []
synonym: "T" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,4R,5R)-3,4-dihydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "cas: 1463-10-1" EXACT []
synonym: "m5U" BROAD []
synonym: "modomics.new_nomenclature: 5U" EXACT []
synonym: "modomics.short_name: m5U" EXACT []
synonym: "pdb-ccd: 5MU" EXACT []
synonym: "pubchem.compound: 445408" EXACT []
synonym: "rnamods: 52" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@H]1[C@H](O)[C@@H](O[C@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:254U
name: 5-taurinomethyl-2-thiouridine
def: "<p>Alternate symbol is taum5s2U. See also</p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "cas: 497258-54-5" EXACT []
synonym: "modomics.new_nomenclature: 254U" EXACT []
synonym: "modomics.short_name: tm5s2U" EXACT []
synonym: "rnamods: 99" EXACT []
synonym: "tm5s2U" BROAD []
synonym: "∃" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: OC1[C@@H](O)[C@H](O[C@H]1n1cc(C[NH2+]CCS(=O)(=O)[O-])c(=O)[nH]c1=S)COP(=O)([O-])[O-]
l_bond_atoms: P32
l_displaced_atoms: O35-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:54U
name: 5-taurinomethyluridine
def: "<p>Alternate symbol is tau5U. See also</p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "cas: 497258-53-4" EXACT []
synonym: "modomics.new_nomenclature: 54U" EXACT []
synonym: "modomics.short_name: tm5U" EXACT []
synonym: "rnamods: 98" EXACT []
synonym: "tm5U" BROAD []
synonym: "Ê" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: OC1C(O)C(OC1n1cc(C[NH2+]CCS(=O)(=O)[O-])c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P29
l_displaced_atoms: O32-1
r_bond_atoms: O4
r_displaced_atoms: H4

[Term]
id: BpForms:rna:47G
name: 7-aminocarboxypropyl-demethylwyosine
synonym: "modomics.new_nomenclature: 47G" EXACT []
synonym: "modomics.short_name: yW-86" EXACT []
synonym: "¥" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: [O-]C(=O)C(CCc1c(C)nc2n1c(=O)c1c([nH]2)n(cn1)[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-])[NH3+]
l_bond_atoms: P34
l_displaced_atoms: O37-1
r_bond_atoms: O31
r_displaced_atoms: H31

[Term]
id: BpForms:rna:347G
name: 7-aminocarboxypropylwyosine
synonym: "modomics.new_nomenclature: 347G" EXACT []
synonym: "modomics.short_name: yW-72" EXACT []
synonym: "Ω" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: [O-]C(=O)C(CCc1c(C)nc2n1c(=O)c1c(n2C)n(cn1)[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-])[NH3+]
l_bond_atoms: P34
l_displaced_atoms: O37-1
r_bond_atoms: O31
r_displaced_atoms: H31

[Term]
id: BpForms:rna:348G
name: 7-aminocarboxypropylwyosine methyl ester
synonym: "modomics.new_nomenclature: 348G" EXACT []
synonym: "modomics.short_name: yW-58" EXACT []
synonym: "⇑" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: COC(=O)C(CCc1c(C)nc2n1c(=O)c1c(n2C)n(cn1)[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-])[NH3+]
l_bond_atoms: P35
l_displaced_atoms: O38-1
r_bond_atoms: O32
r_displaced_atoms: H32

[Term]
id: BpForms:rna:101G
name: 7-aminomethyl-7-deazaguanosine
def: "<p>preQ0 and preQ1 are undermodified Q nucleosides isolated from methyl-deficient mutant E. coli tRNA.</p> <p>Phylogenetic distribution<ul><li>bacteria tRNA</li></ul></p>" []
synonym: "cas: 66048-70-2" EXACT []
synonym: "modomics.new_nomenclature: 101G" EXACT []
synonym: "modomics.short_name: preQ1tRNA" EXACT []
synonym: "preQ1" BROAD []
synonym: "rnamods: 48" EXACT []
synonym: "∉" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: [NH3+]Cc1cn(c2c1c(=O)[nH]c(n2)N)[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P30
l_displaced_atoms: O33-1
r_bond_atoms: O27
r_displaced_atoms: H27

[Term]
id: BpForms:rna:100G
name: 7-cyano-7-deazaguanosine
def: "<p>preQ0 and preQ1 are undermodified Q nucleosides isolated from methyl-deficient mutant E. coli tRNA.</p> <p>Phylogenetic distribution<ul><li>bacteria tRNA</li></ul></p>" []
synonym: "cas: 61210-21-7" EXACT []
synonym: "modomics.new_nomenclature: 100G" EXACT []
synonym: "modomics.short_name: preQ0tRNA" EXACT []
synonym: "preQ0" BROAD []
synonym: "rnamods: 47" EXACT []
synonym: "φ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: N#Cc1cn(c2c1c(=O)[nH]c(n2)N)[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P27
l_displaced_atoms: O30-1
r_bond_atoms: O24
r_displaced_atoms: H24

[Term]
id: BpForms:rna:7G
name: 7-methylguanosine
def: "<p>First characterized as the base and later as the monoribonucleotide.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li><li>eukarya tRNA</li><li>archaea rRNA</li><li>bacteria rRNA</li><li>eukarya rRNA</li><li>eukarya mRNA</li></ul></p>" []
synonym: "7" BROAD []
synonym: "cas: 20244-86-4" EXACT []
synonym: "m7G" BROAD []
synonym: "modomics.new_nomenclature: 7G" EXACT []
synonym: "modomics.short_name: m7G" EXACT []
synonym: "rnamods: 31" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: OC1[C@H](O)[C@@H](O[C@@H]1n1c[n+](c2c1N=C(N)NC2O)C)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:8A
name: 8-methyladenosine
def: "<p>None</p> <p>Phylogenetic distribution<ul><li>bacteria rRNA</li></ul></p>" []
synonym: "cas: 56973-12-7" EXACT []
synonym: "m8A" BROAD []
synonym: "modomics.new_nomenclature: 8A" EXACT []
synonym: "modomics.short_name: m8A" EXACT []
synonym: "rnamods: 114" EXACT []
synonym: "â" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: OC1C(O)C(OC1n1c(C)nc2c1ncnc2N)COP(=O)([O-])[O-]
l_bond_atoms: P21
l_displaced_atoms: O24-1
r_bond_atoms: O4
r_displaced_atoms: H4

[Term]
id: BpForms:rna:02G
name: N2,2′-O-dimethylguanosine
def: "<p>A preliminary report of characterization is given in.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li></ul></p>" []
synonym: "N2,2'-O-dimethylguanosine" BROAD []
synonym: "cas: 135023-21-1" EXACT []
synonym: "m2Gm" BROAD []
synonym: "modomics.new_nomenclature: 02G" EXACT []
synonym: "modomics.short_name: m2Gm" EXACT []
synonym: "rnamods: 34" EXACT []
synonym: "γ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: COC1C(O)C(OC1n1cnc2c1nc(NC)[nH]c2=O)COP(=O)([O-])[O-]
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:027G
name: N2,7,2′-O-trimethylguanosine
def: "<p>Sources of tRNA: Aeropyrum pernix, Stetteria hydrogenophila. See also: Noon, K.R. et al. (2003) J. Bacteriol., 185, 5483-5490. Coauthors for this work: Van Wagoner, R.M., Hashizume, T., Nomura, M., Sako, Y.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li></ul></p>" []
synonym: "N2,7,2'-O-trimethylguanosine" BROAD []
synonym: "cas: 872710-82-2" EXACT []
synonym: "m2,7Gm" BROAD []
synonym: "modomics.new_nomenclature: 027G" EXACT []
synonym: "modomics.short_name: m2,7Gm" EXACT []
synonym: "rnamods: 106" EXACT []
synonym: "æ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: COC1[C@H](O)[C@@H](O[C@@H]1n1c[n+](c2c1[NH+]=C(NC)NC2O)C)COP(=O)([O-])[O-]
l_bond_atoms: P28
l_displaced_atoms: O31-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:27G
name: N2,7-dimethylguanosine
def: "<p>This 5'-cap nucleoside is joined to the RNA through a unique 3'-triphosphate bridge (GpppN...).</p> <p>Phylogenetic distribution<ul><li>eukarya mRNA</li></ul></p>" []
synonym: "cas: 62122-07-0" EXACT []
synonym: "m2,7G" BROAD []
synonym: "modomics.new_nomenclature: 27G" EXACT []
synonym: "modomics.short_name: m2,7G" EXACT []
synonym: "rnamods: 90" EXACT []
synonym: "∨" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: CNC1=[NH+]c2c(C(N1)O)[n+](cn2[C@H]1O[C@H]([C@H](C1O)O)COP(=O)([O-])[O-])C
l_bond_atoms: P26
l_displaced_atoms: O29-1
r_bond_atoms: O23
r_displaced_atoms: H23

[Term]
id: BpForms:rna:022G
name: N2,N2,2′-O-trimethylguanosine
def: "<p>Preliminary communication of structural characterization and chemical synthesis is given in. Unknown nucleoside N-26 in Sulfolobus acidocaldarius tRNAiMet was postulated to be m22Gm in, without experimental evidence.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li></ul></p>" []
synonym: "N2,N2,2'-O-trimethylguanosine" BROAD []
synonym: "cas: 113886-73-0" EXACT []
synonym: "m22Gm" BROAD []
synonym: "modomics.new_nomenclature: 022G" EXACT []
synonym: "modomics.short_name: m2,2Gm" EXACT []
synonym: "rnamods: 35" EXACT []
synonym: "|" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: COC1C(O)C(OC1n1cnc2c1nc([nH]c2=O)N(C)C)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:227G
name: N2,N2,7-trimethylguanosine
def: "<p>The structure was first assigned using material from 2-10S RNA from Chinese hamster ovary cells, and later from snRNA from Novikoff hepatoma ascites cells. More rigorous characterization of the synthetic nucleoside used for comparison is given in.</p> <p>Phylogenetic distribution<ul><li>eukarya mRNA</li><li>eukarya snRNA</li></ul></p>" []
synonym: "cas: 40027-70-1" EXACT []
synonym: "m2,2,7G" BROAD []
synonym: "modomics.new_nomenclature: 227G" EXACT []
synonym: "modomics.short_name: m2,2,7G" EXACT []
synonym: "rnamods: 91" EXACT []
synonym: "∠" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: OC1[C@H](O)[C@@H](O[C@@H]1n1c[n+](c2c1[NH+]=C(NC2O)N(C)C)C)COP(=O)([O-])[O-]
l_bond_atoms: P28
l_displaced_atoms: O31-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:22G
name: N2,N2-dimethylguanosine
def: "<p></p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>eukarya tRNA</li><li>bacteria rRNA</li><li>eukarya rRNA</li></ul></p>" []
synonym: "G" BROAD []
synonym: "M2G" BROAD []
synonym: "N,N-dimethylguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "R" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(2-dimethylamino-6-oxo-1H-purin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "cas: 2140-67-2" EXACT []
synonym: "m22G" BROAD []
synonym: "modomics.new_nomenclature: 22G" EXACT []
synonym: "modomics.short_name: m2,2G" EXACT []
synonym: "n2-dimethylguanosine-5'-monophosphate" BROAD []
synonym: "pdb-ccd: M2G" EXACT []
synonym: "pubchem.compound: 601633" EXACT []
synonym: "rnamods: 33" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1n1cnc2c1nc([nH]c2=O)N(C)C)COP(=O)([O-])[O-]
l_bond_atoms: P28
l_displaced_atoms: O31-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:2G
name: N2-methylguanosine
def: "<p></p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>eukarya tRNA</li><li>archaea rRNA</li><li>bacteria rRNA</li><li>eukarya rRNA</li><li>eukarya snRNA</li></ul></p>" []
synonym: "2MG" BROAD []
synonym: "2n-methylguanosine-5'-monophosphate" BROAD []
synonym: "G" BROAD []
synonym: "L" BROAD []
synonym: "N-methylguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,4R,5R)-3,4-dihydroxy-5-(2-methylamino-6-oxo-1H-purin-9-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "cas: 2140-77-4" EXACT []
synonym: "m2G" BROAD []
synonym: "modomics.new_nomenclature: 2G" EXACT []
synonym: "modomics.short_name: m2G" EXACT []
synonym: "pdb-ccd: 2MG" EXACT []
synonym: "pubchem.compound: 3035422" EXACT []
synonym: "rnamods: 30" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: CNc1[nH]c(=O)c2c(n1)n(cn2)[C@H]1O[C@@H]([C@H]([C@H]1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P27
l_displaced_atoms: O30-1
r_bond_atoms: O24
r_displaced_atoms: H24

[Term]
id: BpForms:rna:04C
name: N4,2′-O-dimethylcytidine
def: "<p>More thorough characterization is reported in.</p> <p>Phylogenetic distribution<ul><li>bacteria rRNA</li></ul></p>" []
synonym: "4OC" BROAD []
synonym: "4n,o2'-methylcytidine-5'-monophosphate" BROAD []
synonym: "C" BROAD []
synonym: "N-methyl-2'-O-methylcytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "N4,2'-O-dimethylcytidine" BROAD []
synonym: "[(2R,3R,4R,5R)-3-hydroxy-4-methoxy-5-(4-methylamino-2-oxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "cas: 13048-95-8" EXACT []
synonym: "m4Cm" BROAD []
synonym: "modomics.new_nomenclature: 04C" EXACT []
synonym: "modomics.short_name: m4Cm" EXACT []
synonym: "pdb-ccd: 4OC" EXACT []
synonym: "rnamods: 83" EXACT []
synonym: "λ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: CO[C@H]1[C@H](O)[C@H](O[C@@H]1n1ccc(nc1=O)NC)COP(=O)([O-])[O-]
l_bond_atoms: P24
l_displaced_atoms: O26-1
r_bond_atoms: O7
r_displaced_atoms: H7

[Term]
id: BpForms:rna:044C
name: N4,N4,2′-O-trimethylcytidine
def: "<p>Source of RNA, Aeropyrum pernix attributed to 16S rRNA although tRNA cannot be rigorously excluded.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li></ul></p>" []
synonym: "N4,N4,2'-O-trimethylcytidine" BROAD []
synonym: "cas: 34218-81-0" EXACT []
synonym: "m42Cm" BROAD []
synonym: "modomics.new_nomenclature: 044C" EXACT []
synonym: "modomics.short_name: m4,4Cm" EXACT []
synonym: "rnamods: 107" EXACT []
synonym: "β" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: COC1C(O)C(OC1n1ccc(nc1=O)N(C)C)COP(=O)([O-])[O-]
l_bond_atoms: P21
l_displaced_atoms: O24-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:44C
name: N4,N4-dimethylcytidine
synonym: "modomics.new_nomenclature: 44C" EXACT []
synonym: "modomics.short_name: m4,4C" EXACT []
synonym: "pubchem.compound: 3082389" EXACT []
synonym: "μ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: OC1C(O)C(OC1n1ccc(nc1=O)N(C)C)COP(=O)([O-])[O-]
l_bond_atoms: P20
l_displaced_atoms: O23-1
r_bond_atoms: O4
r_displaced_atoms: H4

[Term]
id: BpForms:rna:042C
name: N4-acetyl-2′-O-methylcytidine
def: "<p>Preliminary communication of structural characterization and chemical synthesis is given in.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>archaea rRNA</li></ul></p>" []
synonym: "N4-acetyl-2'-O-methylcytidine" BROAD []
synonym: "ac4Cm" BROAD []
synonym: "cas: 113886-71-8" EXACT []
synonym: "modomics.new_nomenclature: 042C" EXACT []
synonym: "modomics.short_name: ac4Cm" EXACT []
synonym: "rnamods: 27" EXACT []
synonym: "ℵ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: COC1C(O)C(OC1n1ccc(nc1=O)NC(=O)C)COP(=O)([O-])[O-]
l_bond_atoms: P22
l_displaced_atoms: O25-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:42C
name: N4-acetylcytidine
def: "<p></p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li><li>eukarya tRNA</li><li>archaea rRNA</li><li>eukarya rRNA</li></ul></p>" []
synonym: "4AC" BROAD []
synonym: "M" BROAD []
synonym: "N" BROAD []
synonym: "N-acetylcytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(4-acetamido-2-oxo-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "ac4C" BROAD []
synonym: "cas: 3768-18-1" EXACT []
synonym: "modomics.new_nomenclature: 42C" EXACT []
synonym: "modomics.short_name: ac4C" EXACT []
synonym: "n(4)-acetylcytidine-5'-monophosphate" BROAD []
synonym: "pdb-ccd: 4AC" EXACT []
synonym: "rnamods: 24" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: CC(=O)Nc1ccn(c(=O)n1)[C@H]1O[C@@H]([C@H]([C@H]1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O27-1
r_bond_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:rna:4C
name: N4-methylcytidine
def: "<p>The base (m4Cyt) was previously reported in acid-treated HeLa rRNA, and was presumed to have originated from N4,2'-O-dimethylcytidine.</p> <p>Phylogenetic distribution<ul><li>eukarya rRNA</li></ul></p>" []
synonym: "cas: 10578-79-7" EXACT []
synonym: "m4C" BROAD []
synonym: "modomics.new_nomenclature: 4C" EXACT []
synonym: "modomics.short_name: m4C" EXACT []
synonym: "rnamods: 82" EXACT []
synonym: "ν" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: CNc1ccn(c(=O)n1)C1OC(C(C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P19
l_displaced_atoms: O22-1
r_bond_atoms: O16
r_displaced_atoms: H16

[Term]
id: BpForms:rna:06A
name: N6,2′-O-dimethyladenosine
def: "<p></p> <p>Phylogenetic distribution<ul><li>eukarya mRNA</li><li>eukarya snRNA</li></ul></p>" []
synonym: "N6,2'-O-dimethyladenosine" BROAD []
synonym: "cas: 57817-83-1" EXACT []
synonym: "m6Am" BROAD []
synonym: "modomics.new_nomenclature: 06A" EXACT []
synonym: "modomics.short_name: m6Am" EXACT []
synonym: "rnamods: 88" EXACT []
synonym: "χ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: COC1C(O)C(OC1n1cnc2c1ncnc2NC)COP(=O)([O-])[O-]
l_bond_atoms: P22
l_displaced_atoms: O25-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:066A
name: N6,N6,2′-O-trimethyladenosine
def: "<p>Presence of m62Am in adenovirus mRNA was inferred from 3H labeling data, but it was not chemically characterized.</p> <p>Phylogenetic distribution<ul><li>eukarya mRNA</li></ul></p>" []
synonym: "N6,N6,2'-O-trimethyladenosine" BROAD []
synonym: "cas: 30891-53-3" EXACT []
synonym: "m62Am" BROAD []
synonym: "modomics.new_nomenclature: 066A" EXACT []
synonym: "modomics.short_name: m6,6Am" EXACT []
synonym: "rnamods: 89" EXACT []
synonym: "η" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: COC1C(O)C(OC1n1cnc2c1ncnc2N(C)C)COP(=O)([O-])[O-]
l_bond_atoms: P23
l_displaced_atoms: O26-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:66A
name: N6,N6-dimethyladenosine
def: "<p></p> <p>Phylogenetic distribution<ul><li>archaea rRNA</li><li>bacteria rRNA</li><li>eukarya rRNA</li></ul></p>" []
synonym: "6n-dimethyladenosine-5'-monophoshate" BROAD []
synonym: "A" BROAD []
synonym: "MA6" BROAD []
synonym: "N,N-dimethyladenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(6-dimethylaminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "cas: 2620-62-4" EXACT []
synonym: "m62A" BROAD []
synonym: "modomics.new_nomenclature: 66A" EXACT []
synonym: "modomics.short_name: m6,6A" EXACT []
synonym: "pdb-ccd: MA6" EXACT []
synonym: "pubchem.compound: 72266" EXACT []
synonym: "rnamods: 80" EXACT []
synonym: "ζ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O[C@H]1[C@@H](O)[C@H](O[C@H]1n1cnc2c1ncnc2N(C)C)COP(=O)([O-])[O-]
l_bond_atoms: P26
l_displaced_atoms: O29-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:60A
name: N6-(cis-hydroxyisopentenyl)adenosine
def: "<p>Also known as cis-zeatin riboside (symbol cZ). The name zeatin riboside refers to the trans-isomer, a cytokinin (registry number 6025-53-2).</p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "`" BROAD []
synonym: "cas: 15896-46-5" EXACT []
synonym: "io6A" BROAD []
synonym: "modomics.new_nomenclature: 60A" EXACT []
synonym: "modomics.short_name: io6A" EXACT []
synonym: "rnamods: 8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: OCC(=CCNc1ncnc2c1ncn2C1OC(C(C1O)O)COP(=O)([O-])[O-])C
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:rna:64A
name: N6-acetyladenosine
def: "<p></p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li></ul></p>" []
synonym: "ac6A" BROAD []
synonym: "cas: 16265-37-5" EXACT []
synonym: "modomics.new_nomenclature: 64A" EXACT []
synonym: "modomics.short_name: ac6A" EXACT []
synonym: "rnamods: 102" EXACT []
synonym: "⇓" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: CC(=O)Nc1ncnc2c1ncn2C1OC(C(C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P23
l_displaced_atoms: O26-1
r_bond_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:rna:67A
name: N6-formyladenosine
synonym: "modomics.new_nomenclature: 67A" EXACT []
synonym: "modomics.short_name: f6A" EXACT []
synonym: "Ϩ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O=CNc1ncnc2c1ncn2[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:rna:65A
name: N6-glycinylcarbamoyladenosine
def: "<p></p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "cas: 29902-55-4" EXACT []
synonym: "g6A" BROAD []
synonym: "modomics.new_nomenclature: 65A" EXACT []
synonym: "modomics.short_name: g6A" EXACT []
synonym: "rnamods: 10" EXACT []
synonym: "≡" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O=C(Nc1ncnc2c1ncn2[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-])NCC(=O)[O-]
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:rna:68A
name: N6-hydroxymethyladenosine
synonym: "modomics.new_nomenclature: 68A" EXACT []
synonym: "modomics.short_name: hm6A" EXACT []
synonym: "Ϫ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: OCNc1ncnc2c1ncn2[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:rna:63A
name: N6-hydroxynorvalylcarbamoyladenosine
def: "<p></p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li></ul></p>" []
synonym: "cas: 146426-20-2" EXACT []
synonym: "hn6A" BROAD []
synonym: "modomics.new_nomenclature: 63A" EXACT []
synonym: "modomics.short_name: hn6A" EXACT []
synonym: "rnamods: 14" EXACT []
synonym: "√" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: CCC(C(C(=O)[O-])NC(=O)Nc1ncnc2c1ncn2C1OC(C(C1O)O)COP(=O)([O-])[O-])O
l_bond_atoms: P30
l_displaced_atoms: O33-1
r_bond_atoms: O27
r_displaced_atoms: H27

[Term]
id: BpForms:rna:61A
name: N6-isopentenyladenosine
def: "<p>i6A is somewhat characteristically eukaryal but does occur in some bacterial tRNAs, e.g., E. coli. It appears to be absent in archaea. Symbol used in early literature is IPA.</p> <p>Phylogenetic distribution<ul><li>bacteria tRNA</li><li>eukarya tRNA</li></ul></p>" []
synonym: "+" BROAD []
synonym: "cas: 7724-76-7" EXACT []
synonym: "i6A" BROAD []
synonym: "modomics.new_nomenclature: 61A" EXACT []
synonym: "modomics.short_name: i6A" EXACT []
synonym: "pubchem.compound: 266767" EXACT []
synonym: "rnamods: 6" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: CC(=CCNc1ncnc2c1ncn2C1OC(C(C1O)O)COP(=O)([O-])[O-])C
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O21
r_displaced_atoms: H21

[Term]
id: BpForms:rna:662A
name: N6-methyl-N6-threonylcarbamoyladenosine
def: "<p>Previously used symbol is mt6A.</p> <p>Phylogenetic distribution<ul><li>bacteria tRNA</li></ul></p>" []
synonym: "(2S,3R)-2-[[[9-[(2R,3R,4S,5R)-3,4-dihydroxy-5-(phosphonooxymethyl)oxolan-2-yl]purin-6-yl]-methyl-carbamoyl]amino]-3-hydroxy-butanoic acid" BROAD []
synonym: "(2S,3R)-2-{[(9-{(2R,3R,4S,5R)-3,4-dihydroxy-5-[(phosphonooxy)methyl]tetrahydrofuran-2-yl}-9H-purin-6-yl)(methyl)carbamoyl]amino}-3-hydroxybutanoic acid (non-preferred name)" BROAD []
synonym: "A" BROAD []
synonym: "AET" BROAD []
synonym: "E" BROAD []
synonym: "cas: 39667-81-7" EXACT []
synonym: "m6t6A" BROAD []
synonym: "modomics.new_nomenclature: 662A" EXACT []
synonym: "modomics.short_name: m6t6A" EXACT []
synonym: "n-[n-(9-b-d-ribofuranosylpurin-6-yl)methylcarbamoyl]threonine-5'-monophosphate" BROAD []
synonym: "pdb-ccd: AET" EXACT []
synonym: "rnamods: 13" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: C[C@@H]([C@H](C(=O)O)NC(=O)N(c1ncnc2c1ncn2[C@H]1O[C@@H]([C@H]([C@H]1O)O)COP(=O)([O-])[O-])C)O
l_bond_atoms: P35
l_displaced_atoms: O38-1
r_bond_atoms: O32
r_displaced_atoms: H32

[Term]
id: BpForms:rna:6A
name: N6-methyladenosine
def: "<p></p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li><li>archaea rRNA</li><li>bacteria rRNA</li><li>eukarya rRNA</li><li>eukarya mRNA</li><li>eukarya snRNA</li></ul></p>" []
synonym: "=" BROAD []
synonym: "cas: 1867-73-8" EXACT []
synonym: "m6A" BROAD []
synonym: "modomics.new_nomenclature: 6A" EXACT []
synonym: "modomics.short_name: m6A" EXACT []
synonym: "rnamods: 3" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: CNc1ncnc2c1ncn2C1OC(C(C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P21
l_displaced_atoms: O24-1
r_bond_atoms: O18
r_displaced_atoms: H18

[Term]
id: BpForms:rna:62A
name: N6-threonylcarbamoyladenosine
def: "<p>[1] reports characterization of the base of this nucleoside. The L configuration for threonine in t6A was established in.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li><li>eukarya tRNA</li></ul></p>" []
synonym: "6" BROAD []
synonym: "cas: 24719-82-2" EXACT []
synonym: "modomics.new_nomenclature: 62A" EXACT []
synonym: "modomics.short_name: t6A" EXACT []
synonym: "rnamods: 11" EXACT []
synonym: "t6A" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O=C(Nc1ncnc2c1ncn2[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-])NC(=O)C(C(O)C)N
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:rna:A
name: adenosine
synonym: "5'-adenylic acid" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "adenosine-5'-monophosphate" BROAD []
synonym: "modomics.new_nomenclature: A" EXACT []
synonym: "modomics.short_name: A" EXACT []
synonym: "pdb-ccd: A" EXACT []
synonym: "pubchem.compound: 60961" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: OC1C(O)C(OC1n1cnc2c1ncnc2N)COP(=O)([O-])[O-]
l_bond_atoms: P20
l_displaced_atoms: O23-1
r_bond_atoms: O4
r_displaced_atoms: H4

[Term]
id: BpForms:rna:20C
name: agmatidine
def: "<p>[1]</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li></ul></p>" []
synonym: "C+" BROAD []
synonym: "cas: 1221169-70-5" EXACT []
synonym: "modomics.new_nomenclature: 20C" EXACT []
synonym: "modomics.short_name: C+" EXACT []
synonym: "rnamods: 113" EXACT []
synonym: "¿" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: OC1C(O)C(OC1n1ccc(=N)[nH+]c1NCCCCNC(=[NH2+])N)COP(=O)([O-])[O-]
l_bond_atoms: P29
l_displaced_atoms: O32-1
r_bond_atoms: O4
r_displaced_atoms: H4

[Term]
id: BpForms:rna:103G
name: archaeosine
def: "<p>Symbol G+ was assigned based on the positive charge carried by the nucleoside, as noted at the time of its original discovery; G* or G*-15 have been used but are no longer preferred. Alternate name is 7-formamidino-7-deazaguanosine. The Chemical Abstracts Index Name is based on nomenclature for the 4(1H)-quinazolinone ring system. Chemical synthesis of the corresponding base is reported in.
The bacterial nucleoside preQ0 is a biosynthetic precursor of G+.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li></ul></p>" []
synonym: "(" BROAD []
synonym: "G+" BROAD []
synonym: "cas: 148608-52-0" EXACT []
synonym: "modomics.new_nomenclature: 103G" EXACT []
synonym: "modomics.short_name: G+" EXACT []
synonym: "rnamods: 49" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: OC1[C@@H](O)[C@H](O[C@H]1n1cc(c2c1nc(N)[nH]c2=O)C(=[NH2+])N)COP(=O)([O-])[O-]
l_bond_atoms: P30
l_displaced_atoms: O33-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:69A
name: cyclic N6-threonylcarbamoyladenosine
synonym: "e" BROAD []
synonym: "modomics.new_nomenclature: 69A" EXACT []
synonym: "modomics.short_name: ct6A" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: OC1[C@@H](O)[C@H](O[C@H]1n1cnc2c1ncnc2/N=C\1/OC(=O)C(N1)C(O)C)COP(=O)([O-])[O-]
l_bond_atoms: P32
l_displaced_atoms: O35-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:C
name: cytidine
synonym: "5'-cytidylic acid" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "cytidine-5'-monophosphate" BROAD []
synonym: "modomics.new_nomenclature: C" EXACT []
synonym: "modomics.short_name: C" EXACT []
synonym: "pdb-ccd: C" EXACT []
synonym: "pubchem.compound: 6175" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: OC1C(O)C(OC1n1ccc(nc1=O)N)COP(=O)([O-])[O-]
l_bond_atoms: P18
l_displaced_atoms: O21-1
r_bond_atoms: O4
r_displaced_atoms: H4

[Term]
id: BpForms:rna:8U
name: dihydrouridine
def: "<p></p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li><li>eukarya tRNA</li><li>bacteria rRNA</li><li>eukarya snRNA</li><li>eukarya chromosomal RNA</li></ul></p>" []
synonym: "5'-uridylic acid" BROAD []
synonym: "5,6-dihydrouridine-5'-monophosphate" BROAD []
synonym: "D" BROAD []
synonym: "H2U" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(2,4-dioxo-1,3-diazinan-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "cas: 5627-05-4" EXACT []
synonym: "modomics.new_nomenclature: 8U" EXACT []
synonym: "modomics.short_name: D" EXACT []
synonym: "pdb-ccd: H2U" EXACT []
synonym: "pubchem.compound: 94312" EXACT []
synonym: "rnamods: 51" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O=C1CCN(C(=O)N1)[C@H]1O[C@@H]([C@H]([C@@H]1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P22
l_displaced_atoms: O25-1
r_bond_atoms: O19
r_displaced_atoms: H19

[Term]
id: BpForms:rna:102G
name: epoxyqueuosine
def: "<p></p> <p>Phylogenetic distribution<ul><li>bacteria tRNA</li></ul></p>" []
synonym: "cas: 107865-20-3" EXACT []
synonym: "modomics.new_nomenclature: 102G" EXACT []
synonym: "modomics.short_name: oQtRNA" EXACT []
synonym: "oQ" BROAD []
synonym: "rnamods: 44" EXACT []
synonym: "ς" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:10G ! queuosine
structure: OC1[C@@H](O)[C@H](O[C@H]1n1cc(c2c1nc(N)[nH]c2=O)CNC1C(O)C(C2C1O2)O)COP(=O)([O-])[O-]
l_bond_atoms: P35
l_displaced_atoms: O38-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:104G
name: galactosyl-queuosine
def: "<p>Symbol Q* is also used for either manQ, galQ, or a mixture of the two.</p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "9" BROAD []
synonym: "cas: 60426-58-6" EXACT []
synonym: "galQ" BROAD []
synonym: "modomics.new_nomenclature: 104G" EXACT []
synonym: "modomics.short_name: galQtRNA" EXACT []
synonym: "rnamods: 45" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:10G ! queuosine
structure: OCC1O[C@@H](OC2C(C=CC2O)NCc2cn(c3c2c(=O)[nH]c(n3)N)[C@@H]2O[C@@H](C([C@@H]2O)O)COP(=O)([O-])[O-])C([C@@H]([C@H]1O)O)O
l_bond_atoms: P40
l_displaced_atoms: O43-1
r_bond_atoms: O37
r_displaced_atoms: H37

[Term]
id: BpForms:rna:G
name: guanosine
synonym: "5'-guanylic acid" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "guanosine-5'-monophosphate" BROAD []
synonym: "modomics.new_nomenclature: G" EXACT []
synonym: "modomics.short_name: G" EXACT []
synonym: "pdb-ccd: G" EXACT []
synonym: "pubchem.compound: 6802" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: OC1C(O)C(OC1n1cnc2c1nc(N)[nH]c2=O)COP(=O)([O-])[O-]
l_bond_atoms: P22
l_displaced_atoms: O25-1
r_bond_atoms: O4
r_displaced_atoms: H4

[Term]
id: BpForms:rna:2165A
name: hydroxy-N6-threonylcarbamoyladenosine
synonym: "modomics.new_nomenclature: 2165A" EXACT []
synonym: "modomics.short_name: ht6A" EXACT []
synonym: "«" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: OCC(C(C(=O)[O-])NC(=O)Nc1ncnc2c1ncn2[C@@H]1O[C@@H](C(C1O)O)COP(=O)([O-])[O-])O
l_bond_atoms: P32
l_displaced_atoms: O35-1
r_bond_atoms: O29
r_displaced_atoms: H29

[Term]
id: BpForms:rna:34830G
name: hydroxywybutosine
def: "<p>Nomenclature for the yW family of nucleosides is discussed in and. Structural characterization was made from the acid-liberated base. A Chemical Abstracts registry number was then assigned to the corresponding ribonucleoside. Common name for the corresponding base is hydroxy-Y.</p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "OHyW" BROAD []
synonym: "cas: 84270-21-3" EXACT []
synonym: "modomics.new_nomenclature: 34830G" EXACT []
synonym: "modomics.short_name: OHyW" EXACT []
synonym: "rnamods: 39" EXACT []
synonym: "⊆" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: COC(=O)C(C(Cc1c(C)nc2n1c(=O)c1c(n2C)n(cn1)[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-])O)NC(=O)OC
l_bond_atoms: P35
l_displaced_atoms: O38-1
r_bond_atoms: O32
r_displaced_atoms: H32

[Term]
id: BpForms:rna:9A
name: inosine
def: "<p>The presence of I in mRNA had been implied earlier from discrepencies between genomic and cDNA sequences, but provides the first direct evidence for its occurrence.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li><li>eukarya tRNA</li><li>eukarya mRNA</li></ul></p>" []
synonym: "9-(5-O-phosphono-alpha-D-xylofuranosyl)-1,9-dihydro-6H-purin-6-one" BROAD []
synonym: "I" BROAD []
synonym: "[(2R,3S,4R,5R)-3,4-bis(oxidanyl)-5-(6-oxidanylidene-1H-purin-9-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "cas: 58-63-9" EXACT []
synonym: "inosinic acid" BROAD []
synonym: "modomics.new_nomenclature: 9A" EXACT []
synonym: "modomics.short_name: I" EXACT []
synonym: "pdb-ccd: I" EXACT []
synonym: "pubchem.compound: 6021" EXACT []
synonym: "rnamods: 17" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1n1cnc2c1nc[nH]c2=O)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O27-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:42G
name: isowyosine
def: "<p>Nomenclature for the yW family of nucleosides is discussed in and. Numbering is based on 1H-imidazo[1,2-a]purine.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li></ul></p>" []
synonym: "cas: 577773-09-2" EXACT []
synonym: "imG2" BROAD []
synonym: "modomics.new_nomenclature: 42G" EXACT []
synonym: "modomics.short_name: imG2" EXACT []
synonym: "rnamods: 101" EXACT []
synonym: "⊇" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: OC1C(COP(=O)([O-])[O-])OC(C1O)n1cnc2c1[nH]c1nc(c(n1c2=O)C)C
l_bond_atoms: P6
l_displaced_atoms: O9-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:rna:106G
name: mannosyl-queuosine
synonym: "8" BROAD []
synonym: "modomics.new_nomenclature: 106G" EXACT []
synonym: "modomics.short_name: manQtRNA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:10G ! queuosine
structure: OCC1O[C@@H](OC2C(C=CC2O)NCc2cn(c3c2c(=O)[nH]c(n3)N)[C@@H]2O[C@@H](C([C@@H]2O)O)COP(=O)([O-])[O-])C([C@@H]([C@@H]1O)O)O
l_bond_atoms: P40
l_displaced_atoms: O43-1
r_bond_atoms: O37
r_displaced_atoms: H37

[Term]
id: BpForms:rna:3480G
name: methylated undermodified hydroxywybutosine
synonym: "modomics.new_nomenclature: 3480G" EXACT []
synonym: "modomics.short_name: OHyWy" EXACT []
synonym: "y" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: COC(=O)C(C(Cc1c(C)nc2n1c(=O)c1c(n2C)n(cn1)[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-])O)N
l_bond_atoms: P35
l_displaced_atoms: O38-1
r_bond_atoms: O32
r_displaced_atoms: H32

[Term]
id: BpForms:rna:342G
name: methylwyosine
def: "<p>Nomenclature for the yW family of nucleosides is discussed in and.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li></ul></p>" []
synonym: "cas: 108274-04-0" EXACT []
synonym: "mimG" BROAD []
synonym: "modomics.new_nomenclature: 342G" EXACT []
synonym: "modomics.short_name: mimG" EXACT []
synonym: "rnamods: 42" EXACT []
synonym: "∑" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: OC1C(COP(=O)([O-])[O-])OC(C1O)n1cnc2c1n(C)c1nc(c(n1c2=O)C)C
l_bond_atoms: P6
l_displaced_atoms: O9-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:rna:34832G
name: peroxywybutosine
def: "<p>Nomenclature for the yW family of nucleosides is discussed in and. Structural characterization was made from the acid-liberated base. A Chemical Abstracts registry number was then assigned to the corresponding ribonucleoside. Alternate name is wybutoxine. Common name for the corresponding base is peroxy-Y, symbol Yr. Initial report in with complete characterization in. Occurrence of the peroxy function in the natural nucleoside has been questioned and led to the confusing use of Yr as a symbol for the base of hydroxywybutosine in.</p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "W" BROAD []
synonym: "cas: 78355-49-4" EXACT []
synonym: "modomics.new_nomenclature: 34832G" EXACT []
synonym: "modomics.short_name: o2yW" EXACT []
synonym: "o2yW" BROAD []
synonym: "rnamods: 38" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: OOC(C(C(=O)OC)NC(=O)OC)Cc1c(C)nc2n1c(=O)c1c(n2C)n(cn1)[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P42
l_displaced_atoms: O45-1
r_bond_atoms: O39
r_displaced_atoms: H39

[Term]
id: BpForms:rna:9U
name: pseudouridine
def: "<p>The structure of pseudouridine was determined by Yu and Allen from material isolated from unfractionated yeast RNA, and was independently reported by Cohn in a manuscript submitted eight days later. Leading references to the pseudouridine literature can be found in a recent review.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>bacteria tRNA</li><li>eukarya tRNA</li><li>archaea rRNA</li><li>bacteria rRNA</li><li>eukarya rRNA</li><li>bacteria tmRNA</li><li>eukarya snRNA</li></ul></p>" []
synonym: "(1S)-1,4-anhydro-1-(2,4-dioxo-1,2,3,4-tetrahydropyrimidin-5-yl)-5-O-phosphono-D-ribitol" BROAD []
synonym: "P" BROAD []
synonym: "PSU" BROAD []
synonym: "U" BROAD []
synonym: "Y" BROAD []
synonym: "[(2R,3S,4R,5S)-5-(2,4-dioxo-1H-pyrimidin-5-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "cas: 1445-07-4" EXACT []
synonym: "modomics.new_nomenclature: 9U" EXACT []
synonym: "modomics.short_name: Y" EXACT []
synonym: "pdb-ccd: PSU" EXACT []
synonym: "pseudouridine-5'-monophosphate" BROAD []
synonym: "pubchem.compound: 15047" EXACT []
synonym: "rnamods: 50" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@H]1[C@H](O)[C@@H](O[C@H]1c1c[nH]c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:10G
name: queuosine
def: "<p>Characterization of queuine, the base of queuosine, is reported in. Biosynthesis of qeuosine has recently been reviewed.</p> <p>Phylogenetic distribution<ul><li>bacteria tRNA</li><li>eukarya tRNA</li></ul></p>" []
synonym: "Q" BROAD []
synonym: "cas: 57072-36-3" EXACT []
synonym: "modomics.new_nomenclature: 10G" EXACT []
synonym: "modomics.short_name: QtRNA" EXACT []
synonym: "rnamods: 43" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: OC1[C@@H](O)[C@H](O[C@H]1n1cc(c2c1nc(N)[nH]c2=O)CNC1C=CC(C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P34
l_displaced_atoms: O37-1
r_bond_atoms: O5
r_displaced_atoms: H5

[Term]
id: BpForms:rna:3470G
name: undermodified hydroxywybutosine
synonym: "modomics.new_nomenclature: 3470G" EXACT []
synonym: "modomics.short_name: OHyWx" EXACT []
synonym: "š" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: OC(C(C(=O)[O-])[NH3+])Cc1c(C)nc2n1c(=O)c1c(n2C)n(cn1)[C@@H]1O[C@@H]([C@@H](C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P39
l_displaced_atoms: O42-1
r_bond_atoms: O36
r_displaced_atoms: H36

[Term]
id: BpForms:rna:U
name: uridine
synonym: "5'-uridylic acid" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(2,4-dioxopyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "modomics.new_nomenclature: U" EXACT []
synonym: "modomics.short_name: U" EXACT []
synonym: "pdb-ccd: U" EXACT []
synonym: "pubchem.compound: 6029" EXACT []
synonym: "uridine-5'-monophosphate" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: OC1C(O)C(OC1n1ccc(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P19
l_displaced_atoms: O22-1
r_bond_atoms: O4
r_displaced_atoms: H4

[Term]
id: BpForms:rna:502U
name: uridine 5-oxyacetic acid
def: "<p>Alternate commonly used symbols are o5U and V.</p> <p>Phylogenetic distribution<ul><li>bacteria tRNA</li></ul></p>" []
synonym: "V" BROAD []
synonym: "cas: 28144-25-4" EXACT []
synonym: "cmo5U" BROAD []
synonym: "modomics.new_nomenclature: 502U" EXACT []
synonym: "modomics.short_name: cmo5U" EXACT []
synonym: "pubchem.compound: 193091" EXACT []
synonym: "rnamods: 64" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: [O-]C(=O)COc1cn(c(=O)[nH]c1=O)C1OC(C(C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O21
r_displaced_atoms: H21

[Term]
id: BpForms:rna:503U
name: uridine 5-oxyacetic acid methyl ester
def: "<p>Alternate commonly used symbol is mV.</p> <p>Phylogenetic distribution<ul><li>bacteria tRNA</li></ul></p>" []
synonym: "cas: 66536-81-0" EXACT []
synonym: "mcmo5U" BROAD []
synonym: "modomics.new_nomenclature: 503U" EXACT []
synonym: "modomics.short_name: mcmo5U" EXACT []
synonym: "pubchem.compound: 191808" EXACT []
synonym: "rnamods: 65" EXACT []
synonym: "υ" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: COC(=O)COc1cn(c(=O)[nH]c1=O)C1OC(C(C1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:rna:3483G
name: wybutosine
def: "<p>Nomenclature for the yW family of nucleosides is discussed in and. Errata for structure determination of yW are reported in. Alternate commonly used name is "Y nucleoside". Commonly used symbol for the corresponding base is Y. Structural characterization was made from the acid-liberated base. A Chemical Abstracts registry number was then assigned to the corresponding ribonucleoside.</p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "4-(3-[5-o-phosphonoribofuranosyl]-4,6-dimethyl-8-oxo-4,8-dihydro-3h-1,3,4,5,7a-pentaaza-s-indacen-ylamino-butyric acid methyl ester" BROAD []
synonym: "7-{(3S)-4-methoxy-3-[(methoxycarbonyl)amino]-4-oxobutyl}-4,6-dimethyl-3-(5-O-phosphono-beta-D-ribofuranosyl)-3,4-dihydro-9H-imidazo[1,2-a]purin-9-one" BROAD []
synonym: "G" BROAD []
synonym: "Y" BROAD []
synonym: "YYG" BROAD []
synonym: "cas: 55196-46-8" EXACT []
synonym: "methyl (2S)-4-[3-[(2R,3R,4S,5R)-3,4-dihydroxy-5-(phosphonooxymethyl)oxolan-2-yl]-4,6-dimethyl-9-oxo-imidazo[3,2-a]purin-7-yl]-2-(methoxycarbonylamino)butanoate" BROAD []
synonym: "modomics.new_nomenclature: 3483G" EXACT []
synonym: "modomics.short_name: yW" EXACT []
synonym: "pdb-ccd: YYG" EXACT []
synonym: "rnamods: 37" EXACT []
synonym: "yW" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: COC(=O)[C@@H](NC(=O)OC)CCc1c(C)nc2n1c(=O)c1c(n2C)n(cn1)[C@H]1O[C@@H]([C@H]([C@H]1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P42
l_displaced_atoms: O45-1
r_bond_atoms: O39
r_displaced_atoms: H39

[Term]
id: BpForms:rna:34G
name: wyosine
def: "<p>Nomenclature for the yW family of nucleosides is discussed in and. Structural characterization was made from the acid-liberated base. A Chemical Abstracts registry number was then assigned to the corresponding ribonucleoside. Symbol for the corresponding base is Yt.</p> <p>Phylogenetic distribution<ul><li>archaea tRNA</li><li>eukarya tRNA</li></ul></p>" []
synonym: "cas: 52662-10-9" EXACT []
synonym: "imG" BROAD []
synonym: "modomics.new_nomenclature: 34G" EXACT []
synonym: "modomics.short_name: imG" EXACT []
synonym: "rnamods: 41" EXACT []
synonym: "€" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: O[C@@H]1[C@H](O)[C@H](O[C@H]1n1cnc2c1n(C)c1n(c2=O)cc(n1)C)COP(=O)([O-])[O-]
l_bond_atoms: P29
l_displaced_atoms: O32-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:OHyW*
name: undermodified hydroxywybutosine
def: "<p>Nomenclature for the yW nucleosides is discussed in and. Structure characterization was from the acid-liberated base. A Chemical Abstracts registry number was then assigned to the corresponding ribonucleoside. Symbol for the corresponding base is Ye.</p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "cas: 84270-20-2" EXACT []
synonym: "rnamods: 40" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: OC(C(C(=O)[O-])[NH3+])Cc1c(C)nc2n1c(=O)c1c(n2C)ncn1[C@@H]1O[C@@H]([C@H]([C@H]1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P40
l_displaced_atoms: O43-1
r_bond_atoms: O37
r_displaced_atoms: H37

[Term]
id: BpForms:rna:manQ
name: mannosyl-queuosine
def: "<p>Symbol Q* is also used for either manQ, galQ, or a mixture of the two.</p> <p>Phylogenetic distribution<ul><li>eukarya tRNA</li></ul></p>" []
synonym: "cas: 60398-20-1" EXACT []
synonym: "rnamods: 46" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:10G ! queuosine
structure: OC[C@H]1O[C@@H](O[C@@H]2[C@H](C=C[C@@H]2O)NCc2cn(c3c2c(=O)nc([nH]3)N)[C@@H]2O[C@@H]([C@H]([C@H]2O)O)COP(=O)([O-])[O-])[C@H]([C@H]([C@@H]1O)O)O
l_bond_atoms: P45
l_displaced_atoms: O48-1
r_bond_atoms: O42
r_displaced_atoms: H42

[Term]
id: BpForms:rna:10C
name: 4-amino-1-{2,5-anhydro-4-[(phosphonooxy)methyl]-alpha-l-lyxofuranosyl}pyrimidin-2(1h)-one
synonym: "4-amino-1-{2,5-anhydro-4-[(phosphonooxy)methyl]-alpha-L-lyxofuranosyl}pyrimidin-2(1H)-one" BROAD []
synonym: "C" BROAD []
synonym: "[(1R,4R,5R,7S)-5-(4-amino-2-oxo-pyrimidin-1-yl)-7-hydroxy-3,6-dioxabicyclo[2.2.1]heptan-1-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 10C" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: Nc1ccn(c(=O)n1)[C@@H]1O[C@]2([C@H]([C@H]1OC2)O)COP(=O)(O)O

[Term]
id: BpForms:rna:125
name: 2'-o-fluoroethyl-5-methyl-uridine-5'-monophosphate
synonym: "2'-O-(2-fluoroethyl)-5-methyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3R,4R,5R)-4-(2-fluoroethoxy)-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 125" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: FCCO[C@@H]1[C@H](O)[C@H](O[C@@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P27
l_displaced_atoms: O30-1
r_bond_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:rna:126
name: 2'-o-methyl-[tri(oxyethyl)]-5-methyl-uridine-5'-monophosphate
synonym: "2'-O-{2-[2-(2-methoxyethoxy)ethoxy]ethyl}-5-methyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3R,4R,5R)-3-hydroxy-4-[2-[2-(2-methoxyethoxy)ethoxy]ethoxy]-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 126" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: COCCOCCOCCO[C@@H]1[C@H](O)[C@H](O[C@@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P34
l_displaced_atoms: O37-1
r_bond_atoms: O16
r_displaced_atoms: H16

[Term]
id: BpForms:rna:127
name: 2'-o-aminooxy-ethyl-5-methyl-uridine-5'-monophosphate
synonym: "2'-O-[2-(aminooxy)ethyl]-5-methyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3R,4R,5R)-4-(2-aminooxyethoxy)-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 127" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: NOCCO[C@@H]1[C@H](O)[C@H](O[C@@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P28
l_displaced_atoms: O31-1
r_bond_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:rna:18M
name: 2'-o-methylguanosine 3',5'-bis(dihydrogen phosphate)
synonym: "2'-O-methylguanosine 3',5'-bis(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3R,4R,5R)-5-(2-azanyl-6-oxidanylidene-3H-purin-9-yl)-4-methoxy-2-(phosphonooxymethyl)oxolan-3-yl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 18M" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: CO[C@@H]1[C@@H](OP(=O)(O)O)[C@@H](O[C@@H]1n1cnc2c1[nH]c(N)nc2=O)COP(=O)([O-])[O-]
l_bond_atoms: P31
l_displaced_atoms: O33-1

[Term]
id: BpForms:rna:1DP
name: n1-deaza-adenosine-5'-monophosphate
synonym: "3-(5-O-phosphono-beta-D-ribofuranosyl)-3H-imidazo[4,5-b]pyridin-7-amine" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(7-aminoimidazo[5,4-b]pyridin-3-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 1DP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@H]1[C@@H](O)[C@@H](O[C@@H]1n1cnc2c1nccc2N)COP(=O)(O)O
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:1PR
name: phosphoric acid mono-[5-({[5-carbamoyl-3-(5-phosphonooxy-5-deoxy-ribofuranosyl)- 3h-imidazol-4-ylamino]-methyl}-amino)-2,3,4-trihydroxy-pentyl] ester
synonym: "N" BROAD []
synonym: "[(2R,3S)-5-[[[5-aminocarbonyl-3-[(2R,3R,4S,5R)-3,4-dihydroxy-5-(phosphonooxymethyl)oxolan-2-yl]imidazol-4-yl]amino]methylamino]-2,3,4-trihydroxy-pentyl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 1PR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@H]([C@@H](COP(=O)(O)O)O)[C@H](CNCNc1n(cnc1C(=O)N)[C@H]1O[C@@H]([C@H]([C@H]1O)O)COP(=O)(O)O)O
r_bond_atoms: O37
r_displaced_atoms: H37

[Term]
id: BpForms:rna:1RN
name: (e)-n-{[4-oxo-1-(5-o-phosphono-beta-d-arabinofuranosyl)-2-thioxo-1,2,3,4-tetrahydropyrimidin-5-yl]methylidene}glycine
synonym: "(E)-N-{[4-oxo-1-(5-O-phosphono-beta-D-arabinofuranosyl)-2-thioxo-1,2,3,4-tetrahydropyrimidin-5-yl]methylidene}glycine" BROAD []
synonym: "2-[(E)-[1-[(2R,3S,4S,5R)-3,4-bis(oxidanyl)-5-(phosphonooxymethyl)oxolan-2-yl]-4-oxidanylidene-2-sulfanylidene-pyrimidin-5-yl]methylideneamino]ethanoic acid" BROAD []
synonym: "pdb-ccd: 1RN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: OC(=O)C/N=C/c1cn(c(=S)[nH]c1=O)[C@@H]1O[C@H]([C@@H]([C@@H]1O)O)COP(=O)(O)O

[Term]
id: BpForms:rna:1SC
name: 5'-o-thiophosphonocytidine
synonym: "5'-O-thiophosphonocytidine" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-sulfanyl-phosphinic acid" BROAD []
synonym: "pdb-ccd: 1SC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1n1ccc(nc1=O)N)CO[P@@](=O)(S)O
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:23G
name: guanosine-5'-phosphate-2',3'-cyclic phosphate
synonym: "[(1R,3S,5R,6R,8R)-8-(2-azanyl-6-oxo-1H-purin-9-yl)-3-hydroxy-3-oxo-2,4,7-trioxa-3$l^{5}-phosphabicyclo[3.3.0]octan-6-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(2S,3aR,4R,6R,6aR)-6-(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)-2-hydroxy-2-oxidotetrahydrofuro[3,4-d][1,3,2]dioxaphosphol-4-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 23G" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: Nc1[nH]c(=O)c2c(n1)n(cn2)[C@@H]1O[C@H]([C@H]2[C@@H]1O[P@@](=O)(O2)O)COP(=O)([O-])[O-]
l_bond_atoms: P29
l_displaced_atoms: O32-1

[Term]
id: BpForms:rna:2AT
name: 2'-o-allyl thymidine-5'-monophosphate
synonym: "5-methyl-2'-O-prop-2-en-1-yluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3R,4R,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)-4-prop-2-enoxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2AT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: C=CCO[C@H]1[C@@H](O)[C@H](O[C@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P27
l_displaced_atoms: O30-1
r_bond_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:rna:2AU
name: 2'-aminouridine
synonym: "2'-amino-2'-deoxyuridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,4R,5R)-4-amino-5-(2,4-dioxopyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2AU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: N[C@H]1[C@H](O)[C@H](O[C@@H]1n1ccc(=O)[nH]c1=O)COP(=O)(O)O
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:2BT
name: 2'-o-butyl-thymidine
synonym: "2'-O-butyl-5-methyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3R,4R,5R)-4-butoxy-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2BT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: CCCCO[C@H]1[C@@H](O)[C@H](O[C@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P28
l_displaced_atoms: O30-1
r_bond_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:rna:2GT
name: 2'-o-propargyl thymidine-5'-monophosphate
synonym: "5-methyl-2'-O-prop-2-yn-1-yluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3R,4R,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)-4-prop-2-ynoxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2GT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: C#CCO[C@H]1[C@@H](O)[C@H](O[C@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P27
l_displaced_atoms: O30-1
r_bond_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:rna:2MA
name: 2-methyladenosine-5'-monophosphate
synonym: "2-methyladenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,4R,5R)-3,4-dihydroxy-5-(6-imino-2-methyl-1H-purin-9-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2MA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1n1cnc2c1nc(C)[nH]c2=N)COP(=O)([O-])[O-]
l_bond_atoms: P26
l_displaced_atoms: O29-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:2NT
name: 2'-o-[2-[hydroxy(methyleneamino)oxy]ethyl thymidine-5'-monophosphate
synonym: "2'-O-(2-{[(hydroxymethyl)amino]oxy}ethyl)-5-methyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3R,4R,5R)-3-hydroxy-4-[2-(hydroxymethylamino)oxyethoxy]-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2NT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: OCNOCCO[C@H]1[C@@H](O)[C@H](O[C@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P30
l_displaced_atoms: O32-1
r_bond_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:rna:2OM
name: 5,6-dihydroorotidine 5'-monophosphate
synonym: "(4R)-3-[(2R,3R,4S,5R)-3,4-dihydroxy-5-(phosphonooxymethyl)oxolan-2-yl]-2,6-dioxo-1,3-diazinane-4-carboxylic acid" BROAD []
synonym: "6-carboxyuridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "pdb-ccd: 2OM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O=C1NC(=O)N([C@@H](C1)C(=O)O)[C@H]1O[C@H]([C@H]([C@H]1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P26
l_displaced_atoms: O28-1
r_bond_atoms: O23
r_displaced_atoms: H23

[Term]
id: BpForms:rna:2OT
name: 2'-o-[2-(n,n-dimethylaminooxy)ethyl] thymidine-5'-monophosphate
synonym: "2'-O-{2-[(dimethylamino)oxy]ethyl}-5-methyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3R,4R,5R)-4-(2-dimethylaminooxyethoxy)-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 2OT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: CN(OCCO[C@H]1[C@@H](O)[C@H](O[C@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)([O-])[O-])C
l_bond_atoms: P29
l_displaced_atoms: O32-1
r_bond_atoms: O11
r_displaced_atoms: H11

[Term]
id: BpForms:rna:2SA
name: 2-[9-(3,4-dihydroxy-5-phosphonooxymethyl-tetrahydro-furan-2-yl)-9h-purin-6-ylamino]-succinic acid
synonym: "(2S)-2-[(9-{(2R,3R,4S,5R)-3,4-dihydroxy-5-[(phosphonooxy)methyl]tetrahydrofuran-2-yl}-9H-purin-6-yl)amino]butanedioic acid (non-preferred name)" BROAD []
synonym: "(2S)-2-[[9-[(2R,3R,4S,5R)-3,4-dihydroxy-5-(phosphonooxymethyl)oxolan-2-yl]purin-6-yl]amino]butanedioic acid" BROAD []
synonym: "N" BROAD []
synonym: "pdb-ccd: 2SA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: OC(=O)C[C@H](C(=O)O)Nc1ncnc2c1ncn2[C@@H]1O[C@@H]([C@@H]([C@@H]1O)O)COP(=O)(O)O

[Term]
id: BpForms:rna:2SG
name: guanosine phosphorodithioate
synonym: "2-azanyl-9-[(2R,3R,4S,5R)-3,4-bis(oxidanyl)-5-[[oxidanyl-bis(sulfanyl)-$l^{5}-phosphanyl]oxymethyl]oxolan-2-yl]-1H-purin-6-one" BROAD []
synonym: "5'-O-[hydroxy(disulfanyl)-lambda~5~-phosphanyl]guanosine" BROAD []
synonym: "pdb-ccd: 2SG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: O[C@H]1[C@H](O)[C@H](O[C@H]1n1cnc2c1nc(N)[nH]c2=O)COP(S)(S)O

[Term]
id: BpForms:rna:31H
name: 3'-deoxy-3'-[(n-formyl-l-methionyl)amino]adenosine 5'-(dihydrogen phosphate)
synonym: "3'-deoxy-3'-[(N-formyl-L-methionyl)amino]adenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2S,3S,4R,5R)-5-(6-aminopurin-9-yl)-3-[[(2S)-2-formamido-4-methylsulfanyl-butanoyl]amino]-4-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 31H" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: CSCC[C@H](C(=O)N[C@@H]1[C@H](COP(=O)([O-])[O-])O[C@H]([C@@H]1O)n1cnc2c1ncnc2N)NC=O
l_bond_atoms: P16
l_displaced_atoms: O19-1

[Term]
id: BpForms:rna:31M
name: 3'-deoxy-3'-[(l-methionyl-l-phenylalanyl)amino]adenosine 5'-(dihydrogen phosphate)
synonym: "3'-deoxy-3'-[(L-methionyl-L-phenylalanyl)amino]adenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2S,3S,4R,5R)-5-(6-aminopurin-9-yl)-3-[[(2S)-2-[[(2S)-2-azanyl-4-methylsulfanyl-butanoyl]amino]-3-phenyl-propanoyl]amino]-4-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 31M" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: CSCC[C@H](C(=O)N[C@H](C(=O)N[C@H]1[C@@H](COP(=O)([O-])[O-])O[C@H]([C@@H]1O)n1cnc2c1ncnc2N)Cc1ccccc1)N
l_bond_atoms: P21
l_displaced_atoms: O24-1

[Term]
id: BpForms:rna:3AU
name: 3-[(3s)-3-amino-3-carboxypropyl]uridine 5'-(dihydrogen phosphate)
synonym: "(2S)-2-azanyl-4-[3-[(2R,3R,4S,5R)-3,4-dihydroxy-5-(phosphonooxymethyl)oxolan-2-yl]-2,6-dioxo-pyrimidin-1-yl]butanoic acid" BROAD []
synonym: "3-[(3S)-3-amino-3-carboxypropyl]uridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "pdb-ccd: 3AU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: OC(=O)[C@H](CCn1c(=O)ccn(c1=O)[C@@H]1O[C@H]([C@@H]([C@@H]1O)O)COP(=O)(O)O)N
r_bond_atoms: O26
r_displaced_atoms: H26

[Term]
id: BpForms:rna:3DA
name: 3'-deoxyadenosine-5'-monophosphate
synonym: "3'-deoxy-5'-adenylic acid" BROAD []
synonym: "A" BROAD []
synonym: "[(2S,4R,5R)-5-(6-aminopurin-9-yl)-4-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 3DA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@H]1C[C@H](O[C@H]1n1cnc2c1ncnc2N)COP(=O)(O)O

[Term]
id: BpForms:rna:3ME
name: 2'-o-{2-[2-(dimethylamino)ethoxy]ethyl}-5-methyluridine 5'-(dihydrogen phosphate)
synonym: "2'-O-{2-[2-(dimethylamino)ethoxy]ethyl}-5-methyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3R,4R,5R)-4-[2-(2-dimethylaminoethyloxy)ethoxy]-5-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 3ME" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: CN(CCOCCO[C@H]1[C@@H](O)[C@H](O[C@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)(O)O)C
r_bond_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:rna:3TD
name: (1s)-1,4-anhydro-1-(3-methyl-2,4-dioxo-1,2,3,4-tetrahydropyrimidin-5-yl)-5-o-phosphono-d-ribitol
synonym: "(1S)-1,4-anhydro-1-(3-methyl-2,4-dioxo-1,2,3,4-tetrahydropyrimidin-5-yl)-5-O-phosphono-D-ribitol" BROAD []
synonym: "[(2R,3S,4R,5S)-5-[3-methyl-2,4-bis(oxidanylidene)-1H-pyrimidin-5-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 3TD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@H]1[C@@H](O)[C@@H](O[C@H]1c1c[nH]c(=O)n(c1=O)C)COP(=O)(O)O
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:45A
name: 5'-o-[(s)-hydroxy(methyl)phosphoryl]adenosine
synonym: "5'-O-[(S)-hydroxy(methyl)phosphoryl]adenosine" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-methyl-phosphinic acid" BROAD []
synonym: "pdb-ccd: 45A" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O[C@@H]1[C@@H](O)[C@@H](O[C@H]1n1cnc2c1ncnc2N)CO[P@](=O)(O)C

[Term]
id: BpForms:rna:4TA
name: p1-(5'-adenosyl)p4-(5'-(2'-deoxy-thymidyl))tetraphosphate
synonym: "N" BROAD []
synonym: "[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanidyl-phosphoryl] [[[(2R,3S,5R)-5-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methoxy-oxidanidyl-phosphoryl]oxy-oxidanidyl-phosphoryl] phosphate" BROAD []
synonym: "pdb-ccd: 4TA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@@H]1C[C@@H](O[C@@H]1CO[P@@](=O)(O[P@@](=O)(O[P@@](=O)(O[P@@](=O)(OC[C@H]1O[C@@H]([C@H]([C@H]1O)O)n1cnc2c1ncnc2N)[O-])[O-])[O-])[O-])n1cc(C)c(=O)[nH]c1=O

[Term]
id: BpForms:rna:50L
name: [(2r,3s,4r,5r)-5-(4-azanyl-2-oxidanylidene-1$l^{4},3,5,7-tetrazabicyclo[4.3.0]nona-1(6),3,8-trien-7-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate
synonym: "[(2R,3S,4R,5R)-5-(4-azanyl-2-oxidanylidene-1$l^{4},3,5,7-tetrazabicyclo[4.3.0]nona-1(6),3,8-trien-7-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 50L" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: NC1NC(=O)N2C(N1)N(CC2)[C@@H]1O[C@@H]([C@@H]([C@H]1O)O)COP(=O)(O)O

[Term]
id: BpForms:rna:50N
name: (1s)-1-(6-amino-2-hydroxy-5-nitropyridin-3-yl)-1,4-anhydro-5-o-phosphono-d-ribitol
synonym: "(1S)-1-(6-amino-2-hydroxy-5-nitropyridin-3-yl)-1,4-anhydro-5-O-phosphono-D-ribitol" BROAD []
synonym: "[(2R,3S,4R,5S)-5-(6-azanyl-5-nitro-2-oxidanyl-pyridin-3-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 50N" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@H]1[C@H](O)[C@H](O[C@H]1c1cc([N+](=O)[O-])c(nc1O)N)COP(=O)([O-])[O-]

[Term]
id: BpForms:rna:56B
name: 2-amino-5-({[(1s,4s,5r)-4,5-dihydroxycyclopent-2-en-1-yl]amino}methyl)-7-(5-o-phosphono-beta-d-ribofuranosyl)-3,7-dihydro-4h-pyrrolo[2,3-d]pyrimidin-4-one
synonym: "2-amino-5-({[(1S,4S,5R)-4,5-dihydroxycyclopent-2-en-1-yl]amino}methyl)-7-(5-O-phosphono-beta-D-ribofuranosyl)-3,7-dihydro-4H-pyrrolo[2,3-d]pyrimidin-4-one" BROAD []
synonym: "[(2R,3S,4R,5R)-5-[2-azanyl-5-[[[(1S,4S,5R)-4,5-bis(oxidanyl)cyclopent-2-en-1-yl]amino]methyl]-4-oxidanylidene-3H-pyrrolo[2,3-d]pyrimidin-7-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 56B" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@H]1[C@@H](O)[C@H](O[C@H]1n1cc(c2c1nc(N)[nH]c2=O)CN[C@H]1C=C[C@H]([C@@H]1O)O)CO[P@@](=O)(O)[O-]

[Term]
id: BpForms:rna:574
name: [(3as,4r,6r,6ar)-2-{2-[(1s)-2-amino-1-hydroxyethyl]phenyl}-6-(6-amino-9h-purin-9-yl)tetrahydrofuro[3,4-d][1,3,2]dioxaborol-4-yl]methyl dihydrogen phosphite
synonym: "[(3aR,4R,6R,6aS)-4-(6-aminopurin-9-yl)-2-[2-[(1S)-2-azanyl-1-oxidanyl-ethyl]phenyl]-3a,4,6,6a-tetrahydrofuro[3,4-d][1,3,2]dioxaborol-6-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(3aS,4R,6R,6aR)-2-{2-[(1S)-2-amino-1-hydroxyethyl]phenyl}-6-(6-amino-9H-purin-9-yl)tetrahydrofuro[3,4-d][1,3,2]dioxaborol-4-yl]methyl dihydrogen phosphite" BROAD []
synonym: "pdb-ccd: 574" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: NC[C@H](c1ccccc1B1O[C@H]2[C@H](O1)[C@@H](O[C@@H]2n1cnc2c1ncnc2N)COP(=O)(O)O)O

[Term]
id: BpForms:rna:5AA
name: n6-dimethyl-3'-amino-adenosine-5'-monophosphate
synonym: "3'-amino-3'-deoxy-N,N-dimethyladenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "A" BROAD []
synonym: "[(2S,3S,4R,5R)-3-amino-5-(6-dimethylaminopurin-9-yl)-4-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 5AA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@H]1[C@@H](N)[C@H](O[C@H]1n1cnc2c1ncnc2N(C)C)COP(=O)([O-])[O-]
l_bond_atoms: P26
l_displaced_atoms: O28-1

[Term]
id: BpForms:rna:5BU
name: 5-bromo-uridine-5'-monophosphate
synonym: "5-bromouridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(5-bromo-2,4-dioxo-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 5BU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1n1cc(Br)c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:5CF
name: 5-fluorocytidine 5'-(dihydrogen phosphate)
synonym: "5-fluorocytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(4-azanyl-5-fluoro-2-oxo-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 5CF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@@H]1[C@@H](O)[C@H](O[C@H]1n1cc(F)c(nc1=O)N)COP(=O)([O-])[O-]
l_bond_atoms: P23
l_displaced_atoms: O25-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:5CG
name: 5'-chloro-5'-deoxy-guanosine
synonym: "2-amino-9-[(2R,3R,4S,5S)-5-(chloromethyl)-3,4-dihydroxy-oxolan-2-yl]-1H-purin-6-one" BROAD []
synonym: "5'-chloro-5'-deoxyguanosine" BROAD []
synonym: "G" BROAD []
synonym: "pdb-ccd: 5CG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: ClC[C@H]1O[C@@H]([C@@H]([C@@H]1O)O)n1cnc2c1nc(N)[nH]c2=O
r_bond_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:rna:5FA
name: adenosine-5'-pentaphosphate
synonym: "5'-O-[(S)-hydroxy{[(R)-hydroxy{[(R)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]oxy}phosphoryl]oxy}phosphoryl]oxy}phosphoryl]adenosine" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl [hydroxy-[hydroxy-(hydroxy-phosphonooxy-phosphoryl)oxy-phosphoryl]oxy-phosphoryl] hydrogen phosphate" BROAD []
synonym: "pdb-ccd: 5FA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O[C@@H]1[C@@H](CO[P@](=O)(O[P@](=O)(O[P@](=O)(O[P@](=O)(OP(=O)(O)O)O)O)O)O)O[C@@H]([C@@H]1O)n1cnc2c1ncnc2N

[Term]
id: BpForms:rna:5FU
name: 5-fluoro-uridine-5'-monophosphate
synonym: "5-fluorouridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(5-fluoro-2,4-dioxo-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 5FU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@@H]1[C@@H](O)[C@@H](O[C@@H]1n1cc(F)c(=O)[nH]c1=O)COP(=O)(O)O

[Term]
id: BpForms:rna:5HM
name: 5-(hydroxymethyl)cytidine 5'-(dihydrogen phosphate)
synonym: "5-(hydroxymethyl)cytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,4R,5R)-5-[4-azanyl-5-(hydroxymethyl)-2-oxidanylidene-pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 5HM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: OCc1cn(c(=O)nc1N)[C@H]1O[C@H]([C@H]([C@@H]1O)O)COP(=O)(O)O
r_bond_atoms: O21
r_displaced_atoms: H21

[Term]
id: BpForms:rna:5IC
name: 5-iodo-cytidine-5'-monophosphate
synonym: "4-amino-5-iodo-1-(5-O-phosphono-beta-D-arabinofuranosyl)pyrimidin-2(1H)-one" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,4S,5R)-5-(4-amino-5-iodo-2-oxo-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 5IC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: O[C@H]1[C@@H](O)[C@@H](O[C@H]1n1cc(I)c(nc1=O)N)COP(=O)([O-])[O-]
l_bond_atoms: P23
l_displaced_atoms: O25-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:5JO
name: 2'-o-prop-2-yn-1-yladenosine 5'-(dihydrogen phosphate)
synonym: "2'-O-prop-2-yn-1-yladenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3R,4R,5R)-5-(6-aminopurin-9-yl)-3-oxidanyl-4-prop-2-ynoxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 5JO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: C#CCO[C@@H]1[C@H](O)[C@H](O[C@H]1n1cnc2c1ncnc2N)COP(=O)(O)O

[Term]
id: BpForms:rna:6F7
name: 3'-deoxy-5-methyluridine 5'-(dihydrogen phosphate)
synonym: "3'-deoxy-5-methyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2~{S},4~{R},5~{R})-5-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-4-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 6F7" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@@H]1C[C@@H](O[C@@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)(O)O

[Term]
id: BpForms:rna:6FC
name: 2'-trifluoromethylthio-2'-deoxycytidine
synonym: "2'-thio-2'-S-(trifluoromethyl)-5'-O-(trihydroxy-lambda~5~-phosphanyl)cytidine" BROAD []
synonym: "4-azanyl-1-[(2R,3R,4R,5R)-4-oxidanyl-3-(trifluoromethylsulfanyl)-5-[[tris(oxidanyl)-$l^{5}-phosphanyl]oxymethyl]oxolan-2-yl]pyrimidin-2-one" BROAD []
synonym: "pdb-ccd: 6FC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@@H]1[C@H](COP(O)(O)O)O[C@H]([C@@H]1SC(F)(F)F)n1ccc(nc1=O)N

[Term]
id: BpForms:rna:6FU
name: 2'-trifluoromethylthio-2'-deoxyuridine
synonym: "1-[(2R,3R,4R,5R)-4-oxidanyl-3-(trifluoromethylsulfanyl)-5-[[tris(oxidanyl)-$l^{5}-phosphanyl]oxymethyl]oxolan-2-yl]pyrimidine-2,4-dione" BROAD []
synonym: "2'-thio-2'-S-(trifluoromethyl)-5'-O-(trihydroxy-lambda~5~-phosphanyl)uridine" BROAD []
synonym: "pdb-ccd: 6FU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@H]1[C@@H](COP(O)(O)O)O[C@H]([C@@H]1SC(F)(F)F)n1ccc(=O)[nH]c1=O

[Term]
id: BpForms:rna:6IA
name: n6-isopentenyl-adenosine-5'-monophosphate
synonym: "A" BROAD []
synonym: "N-(3-methylbutyl)adenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,4R,5R)-3,4-dihydroxy-5-[6-(3-methylbutylamino)purin-9-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 6IA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: CC(CCNc1ncnc2c1ncn2[C@H]1O[C@@H]([C@H]([C@H]1O)O)COP(=O)([O-])[O-])C
l_bond_atoms: P28
l_displaced_atoms: O30-1
r_bond_atoms: O25
r_displaced_atoms: H25

[Term]
id: BpForms:rna:6MZ
name: n6-methyladenosine-5'-monophosphate
synonym: "A" BROAD []
synonym: "N-methyladenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,4R,5R)-5-[6-(methylamino)purin-9-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 6MZ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: CNc1ncnc2c1ncn2[C@@H]1O[C@H]([C@H]([C@H]1O)O)COP(=O)(O)O

[Term]
id: BpForms:rna:6NW
name: 2'-o-methyl-5'-o-thiophosphonoadenosine
synonym: "2'-O-methyl-5'-O-thiophosphonoadenosine" BROAD []
synonym: "[(2~{R},3~{R},4~{R},5~{R})-5-(6-aminopurin-9-yl)-4-methoxy-3-oxidanyl-oxolan-2-yl]methoxy-sulfanyl-phosphinic acid" BROAD []
synonym: "pdb-ccd: 6NW" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: CO[C@@H]1[C@H](O)[C@H](O[C@@H]1n1cnc2c1ncnc2N)CO[P@](=O)(S)[O-]
r_bond_atoms: O7
r_displaced_atoms: H7

[Term]
id: BpForms:rna:6OO
name: 2'-o-methyl-5'-o-thiophosphonocytidine
synonym: "[(2~{R},3~{R},4~{R},5~{R})-5-(4-azanyl-2-oxidanylidene-pyrimidin-1-yl)-4-methoxy-3-oxidanyl-oxolan-2-yl]methoxy-sulfanyl-phosphinic acid" BROAD []
synonym: "pdb-ccd: 6OO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: CO[C@H]1[C@H](O)[C@H](O[C@H]1n1ccc(nc1=O)N)CO[P@@](=O)(S)O

[Term]
id: BpForms:rna:6OP
name: 1-[(5e)-5,6-dideoxy-2-o-(2-methoxyethyl)-6-phosphono-beta-d-ribo-hex-5-enofuranosyl]-5-methylpyrimidine-2,4(1h,3h)-dione
synonym: "1-[(5E)-5,6-dideoxy-2-O-(2-methoxyethyl)-6-phosphono-beta-D-ribo-hex-5-enofuranosyl]-5-methylpyrimidine-2,4(1H,3H)-dione" BROAD []
synonym: "[(~{E})-2-[(2~{R},3~{R},4~{R},5~{R})-4-(2-methoxyethoxy)-5-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]ethenyl]phosphonic acid" BROAD []
synonym: "pdb-ccd: 6OP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: COCCO[C@H]1[C@H](O)[C@H](O[C@@H]1n1cc(C)c(=O)[nH]c1=O)/C=C/[P@@](=O)(O)[O-]
r_bond_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:rna:73W
name: 5'-o-[(dithiophosphono)]cytidine
synonym: "4-azanyl-1-[(2~{R},3~{R},4~{S},5~{R})-3,4-bis(oxidanyl)-5-[[oxidanyl(sulfanyl)phosphinothioyl]oxymethyl]oxolan-2-yl]pyrimidin-2-one" BROAD []
synonym: "5'-O-[(dithiophosphono)]cytidine" BROAD []
synonym: "pdb-ccd: 73W" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: O[C@H]1[C@@H](O)[C@@H](O[C@H]1n1ccc(nc1=O)N)CO[P@@](=S)(S)O

[Term]
id: BpForms:rna:75B
name: 5-selenophen-2-yluridine 5'-(dihydrogen phosphate)
synonym: "5-selenophen-2-yluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2~{R},3~{S},4~{R},5~{R})-5-[2,4-bis(oxidanylidene)-5-selenophen-2-yl-pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 75B" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@H]1[C@H](O)[C@H](O[C@H]1n1cc(c2ccc[se]2)c(=O)[nH]c1=O)CO[P@](=O)(O)[O-]

[Term]
id: BpForms:rna:7AT
name: 1-(5-o-phosphono-beta-d-ribofuranosyl)-3-(1h-1,2,3-triazol-5-yl)-1h-pyrazolo[3,4-d]pyrimidin-4-amine
synonym: "1-(5-O-phosphono-beta-D-ribofuranosyl)-3-(1H-1,2,3-triazol-5-yl)-1H-pyrazolo[3,4-d]pyrimidin-4-amine" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,4R,5R)-5-[4-azanyl-3-(1H-1,2,3-triazol-5-yl)pyrazolo[3,4-d]pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 7AT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1n1nc(c2c1ncnc2N)c1cnn[nH]1)CO[P@](=O)(O)[O-]

[Term]
id: BpForms:rna:7MG
name: 7n-methyl-8-hydroguanosine-5'-monophosphate
synonym: "7-methylguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(2-amino-7-methyl-6-oxo-1,8-dihydropurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 7MG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1N1CN(c2c1nc(N)[nH]c2=O)C)COP(=O)([O-])[O-]
l_bond_atoms: P27
l_displaced_atoms: O30-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:85Y
name: 2'-deoxy-5-{[(naphthalen-2-yl)methyl]carbamoyl}uridine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-5-{[(naphthalen-2-yl)methyl]carbamoyl}uridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2~{R},3~{S},5~{R})-5-[5-(naphthalen-2-ylmethylcarbamoyl)-2,4-bis(oxidanylidene)pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 85Y" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@@H]1C[C@@H](O[C@H]1COP(=O)([O-])[O-])n1cc(C(=O)NCc2ccc3c(c2)cccc3)c(=O)[nH]c1=O
l_bond_atoms: P12
l_displaced_atoms: O15-1

[Term]
id: BpForms:rna:8AN
name: 3'-amino-3'-deoxyadenosine 5'-(dihydrogen phosphate)
synonym: "3'-amino-3'-deoxyadenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "A" BROAD []
synonym: "[(2S,3S,4R,5R)-3-amino-5-(6-aminopurin-9-yl)-4-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 8AN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: N[C@H]1[C@@H](COP(=O)(O)O)O[C@@H]([C@H]1O)n1cnc2c1ncnc2N

[Term]
id: BpForms:rna:8AZ
name: 8-aza-nebularine-5'-monophosphate
synonym: "[(2~{R},3~{S},4~{R},5~{R})-3,4-bis(oxidanyl)-5-[(7~{R})-7-oxidanyl-6,7-dihydro-[1,2,3]triazolo[4,5-d]pyrimidin-3-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 8AZ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@H]1[C@H](O)[C@H](O[C@@H]1n1nnc2c1N=CN[C@H]2O)COP(=O)(O)O

[Term]
id: BpForms:rna:8OS
name: 5'-o-[(s)-hydroxy(4-methyl-1h-imidazol-5-yl)phosphoryl]guanosine
synonym: "5'-O-[(S)-hydroxy(4-methyl-1H-imidazol-5-yl)phosphoryl]guanosine" BROAD []
synonym: "[(2~{R},3~{S},4~{R},5~{R})-5-(2-azanyl-6-oxidanylidene-1~{H}-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-(4-methyl-1~{H}-imidazol-5-yl)phosphinic acid" BROAD []
synonym: "pdb-ccd: 8OS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: O[C@H]1[C@H](CO[P@@](=O)(c2[nH]cnc2C)O)O[C@@H]([C@@H]1O)n1cnc2c1nc(N)[nH]c2=O

[Term]
id: BpForms:rna:8RJ
name: (r)-1'-(2',3'-dihydroxypropyl)-thymine
synonym: "(2R)-2-hydroxy-3-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)propyl dihydrogen phosphate" BROAD []
synonym: "[(2~{R})-3-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-2-oxidanyl-propyl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 8RJ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@@H](Cn1cc(C)c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P17
l_displaced_atoms: O20-1

[Term]
id: BpForms:rna:9QV
name: uridine 2',5'-bis(dihydrogen phosphate)
synonym: "[(2~{R},3~{R},4~{R},5~{R})-2-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-4-oxidanyl-5-(phosphonooxymethyl)oxolan-3-yl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 9QV" EXACT []
synonym: "uridine 2',5'-bis(dihydrogen phosphate)" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@@H]1[C@@H](COP(=O)(O)O)O[C@@H]([C@H]1OP(=O)(O)O)n1ccc(=O)[nH]c1=O

[Term]
id: BpForms:rna:A23
name: adenosine-5'-phosphate-2',3'-cyclic phosphate
synonym: "A" BROAD []
synonym: "[(1R,3S,5R,6R,8R)-6-(6-aminopurin-9-yl)-3-hydroxy-3-oxo-2,4,7-trioxa-3$l^{5}-phosphabicyclo[3.3.0]octan-8-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(2S,3aR,4R,6R,6aR)-6-(6-amino-9H-purin-9-yl)-2-hydroxy-2-oxidotetrahydrofuro[3,4-d][1,3,2]dioxaphosphol-4-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: A23" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: Nc1ncnc2c1ncn2[C@H]1O[C@@H]([C@@H]2[C@H]1O[P@@](=O)(O2)O)COP(=O)([O-])[O-]
l_bond_atoms: P27
l_displaced_atoms: O30-1

[Term]
id: BpForms:rna:A2L
name: 3'-o-methyoxyethyl-adenosine 5'-monophosphate
synonym: "3'-O-(2-methoxyethyl)adenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-4-hydroxy-3-(2-methoxyethoxy)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: A2L" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: COCCO[C@@H]1[C@H](COP(=O)([O-])[O-])O[C@H]([C@@H]1O)n1cnc2c1ncnc2N
l_bond_atoms: P12
l_displaced_atoms: O14-1

[Term]
id: BpForms:rna:A3P
name: adenosine-3'-5'-diphosphate
synonym: "A" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-4-hydroxy-2-(phosphonooxymethyl)oxolan-3-yl] dihydrogen phosphate" BROAD []
synonym: "adenosine 3',5'-bis(dihydrogen phosphate)" BROAD []
synonym: "pdb-ccd: A3P" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O[C@@H]1[C@H](OP(=O)(O)O)[C@H](O[C@@H]1n1cnc2c1ncnc2N)COP(=O)(O)O

[Term]
id: BpForms:rna:A44
name: 2'-o-methyoxyethyl-adenosine 5'-monophosphate
synonym: "2'-O-(2-methoxyethyl)adenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3R,4R,5R)-5-(6-aminopurin-9-yl)-4-(2-methoxyethoxy)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: A44" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: COCCO[C@@H]1[C@@H](O)[C@@H](O[C@@H]1n1cnc2c1ncnc2N)COP(=O)([O-])[O-]
l_bond_atoms: P28
l_displaced_atoms: O31-1
r_bond_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:rna:A5M
name: 2'-amine-cytidine-5'-monophosphate
synonym: "2'-amino-2'-deoxycytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,4R,5R)-4-amino-5-(4-amino-2-oxo-pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: A5M" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: N[C@H]1[C@@H](O)[C@H](O[C@H]1n1ccc(nc1=O)N)COP(=O)([O-])[O-]
l_bond_atoms: P22
l_displaced_atoms: O25-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:A5O
name: adenine arabinose-5'-phosphate
synonym: "9-(5-O-phosphono-beta-D-arabinofuranosyl)-9H-purin-6-amine" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,4S,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: A5O" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O[C@@H]1[C@@H](O)[C@H](O[C@@H]1n1cnc2c1ncnc2N)COP(=O)([O-])[O-]
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:A6A
name: 2-(6-amino-9h-purin-9-yl)-1,5-anhydro-2-deoxy-6-o-phosphono-d-altritol
synonym: "2-(6-amino-9H-purin-9-yl)-1,5-anhydro-2-deoxy-6-O-phosphono-D-altritol" BROAD []
synonym: "[(2R,3S,4S,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: A6A" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O[C@@H]1[C@@H](O)[C@H](OC[C@H]1n1cnc2c1ncnc2N)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:A6C
name: 2-(4-amino-2-oxopyrimidin-1(2h)-yl)-1,5-anhydro-2-deoxy-6-o-phosphono-d-altritol
synonym: "2-(4-amino-2-oxopyrimidin-1(2H)-yl)-1,5-anhydro-2-deoxy-6-O-phosphono-D-altritol" BROAD []
synonym: "[(2R,3S,4S,5R)-5-(4-azanyl-2-oxo-pyrimidin-1-yl)-3,4-dihydroxy-oxan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: A6C" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: O[C@@H]1[C@@H](O)[C@H](OC[C@H]1n1ccc(nc1=O)N)COP(=O)([O-])[O-]
l_bond_atoms: P23
l_displaced_atoms: O26-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:A6G
name: 2-(2-amino-6-oxo-1,6-dihydro-9h-purin-9-yl)-1,5-anhydro-2-deoxy-6-o-phosphono-d-altritol
synonym: "2-(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)-1,5-anhydro-2-deoxy-6-O-phosphono-D-altritol" BROAD []
synonym: "[(2R,3S,4S,5R)-5-(2-azanyl-6-oxo-1H-purin-9-yl)-3,4-dihydroxy-oxan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: A6G" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: O[C@@H]1[C@@H](O)[C@H](OC[C@H]1n1cnc2c1nc(N)[nH]c2=O)COP(=O)([O-])[O-]
l_bond_atoms: P27
l_displaced_atoms: O30-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:A6U
name: 1,5-anhydro-2-deoxy-2-(2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)-6-o-phosphono-d-altritol
synonym: "1,5-anhydro-2-deoxy-2-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-6-O-phosphono-D-altritol" BROAD []
synonym: "[(2R,3S,4S,5R)-5-(2,4-dioxopyrimidin-1-yl)-3,4-dihydroxy-oxan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: A6U" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@@H]1[C@@H](O)[C@H](OC[C@H]1n1ccc(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:A7C
name: 3-[1-(4-bromophenyl)-1h-1,2,3-triazol-4-yl]-1-[5-o-(trihydroxy-lambda~5~-phosphanyl)-beta-d-ribofuranosyl]-1h-pyrazolo[3,4-d]pyrimidin-4-amine
synonym: "(2~{R},3~{R},4~{S},5~{R})-2-[4-azanyl-3-[1-(4-bromophenyl)-1,2,3-triazol-4-yl]pyrazolo[3,4-d]pyrimidin-1-yl]-5-[[tris(oxidanyl)-$l^{5}-phosphanyl]oxymethyl]oxolane-3,4-diol" BROAD []
synonym: "3-[1-(4-bromophenyl)-1H-1,2,3-triazol-4-yl]-1-[5-O-(trihydroxy-lambda~5~-phosphanyl)-beta-D-ribofuranosyl]-1H-pyrazolo[3,4-d]pyrimidin-4-amine" BROAD []
synonym: "pdb-ccd: A7C" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1n1nc(c2c1ncnc2N)c1nnn(c1)c1ccc(cc1)Br)COP(O)(O)O

[Term]
id: BpForms:rna:A7E
name: 3-ethynyl-1-(5-o-phosphono-beta-d-ribofuranosyl)-1h-pyrazolo[3,4-d]pyrimidin-4-amine
synonym: "3-ethynyl-1-(5-O-phosphono-beta-D-ribofuranosyl)-1H-pyrazolo[3,4-d]pyrimidin-4-amine" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(4-azanyl-3-ethynyl-pyrazolo[3,4-d]pyrimidin-1-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: A7E" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: C#Cc1nn(c2c1c(N)ncn2)[C@H]1O[C@@H]([C@H]([C@H]1O)O)CO[P@](=O)(O)[O-]

[Term]
id: BpForms:rna:A9Z
name: 2'-deoxy-2'-(4-ethyl-1h-1,2,3-triazol-1-yl)adenosine 5'-(dihydrogen phosphate)
synonym: "2'-deoxy-2'-(4-ethyl-1H-1,2,3-triazol-1-yl)adenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-4-(4-ethyl-1,2,3-triazol-1-yl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: A9Z" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: CCc1nnn(c1)[C@@H]1[C@@H](O)[C@H](O[C@H]1n1cnc2c1ncnc2N)COP(=O)(O)O

[Term]
id: BpForms:rna:ADX
name: adenosine-5'-phosphosulfate
synonym: "5'-O-[(S)-hydroxy(sulfooxy)phosphoryl]adenosine" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl sulfo hydrogen phosphate" BROAD []
synonym: "pdb-ccd: ADX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@@H]1[C@@H](CO[P@@](=O)(OS(=O)(=O)O)O)O[C@@H]([C@@H]1O)n1cnc2c1ncnc2N
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:rna:AP7
name: n1-protonated adenosine-5'-monophosphate
synonym: "5'-adenylic acid" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(6-azanylpurin-1-ium-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: AP7" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O[C@H]1[C@@H](O)[C@@H](O[C@H]1n1cnc2c1nc[nH+]c2N)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:ATL
name: [(1s,3r,4s,7r)-7-hydroxy-3-(thymin-1-yl)-2,5-dioxabicyclo[2.2.1]hept-1-yl]methyl dihydrogen phosphate
synonym: "1-{2,5-anhydro-4-[(phosphonooxy)methyl]-beta-D-lyxofuranosyl}-5-methylpyrimidine-2,4(1H,3H)-dione" BROAD []
synonym: "T" BROAD []
synonym: "[(1S,4S,5R,7R)-7-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)-3,6-dioxabicyclo[2.2.1]heptan-1-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: ATL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@H]1[C@H]2OC[C@]1(COP(=O)(O)O)O[C@@H]2n1cc(C)c(=O)[nH]c1=O

[Term]
id: BpForms:rna:B8H
name: [(2~{r},3~{s},4~{r},5~{s})-5-[1-methyl-2,4-bis(oxidanylidene)pyrimidin-5-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate
synonym: "U" BROAD []
synonym: "[(2~{R},3~{S},4~{R},5~{S})-5-[1-methyl-2,4-bis(oxidanylidene)pyrimidin-5-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: B8H" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@H]1[C@H](O)[C@H](O[C@@H]1c1cn(C)c(=O)[nH]c1=O)COP(=O)(O)O

[Term]
id: BpForms:rna:B8K
name: 7-acetyl, guanosine-5'-monophosphate
synonym: "G" BROAD []
synonym: "[(2~{R},3~{S},4~{R},5~{R})-5-(2-azanyl-7-ethanoyl-6-oxidanylidene-1,8-dihydropurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: B8K" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: O[C@H]1[C@@H](O)[C@H](O[C@H]1N1CN(c2c1nc(N)[nH]c2=O)C(=O)C)COP(=O)(O)O

[Term]
id: BpForms:rna:B8N
name: (2~{r})-2-azanyl-4-[5-[(2~{s},3~{r},4~{s},5~{r})-3,4-bis(oxidanyl)-5-(phosphonooxymethyl)oxolan-2-yl]-3-methyl-2,6-bis(oxidanylidene)pyrimidin-1-yl]butanoic acid
synonym: "(2~{R})-2-azanyl-4-[5-[(2~{S},3~{R},4~{S},5~{R})-3,4-bis(oxidanyl)-5-(phosphonooxymethyl)oxolan-2-yl]-3-methyl-2,6-bis(oxidanylidene)pyrimidin-1-yl]butanoic acid" BROAD []
synonym: "pdb-ccd: B8N" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: OC(=O)[C@H](CCn1c(=O)c(cn(c1=O)C)[C@H]1O[C@@H]([C@H]([C@@H]1O)O)COP(=O)(O)O)N

[Term]
id: BpForms:rna:B8Q
name: 3-methyl, cytidine-5'-monophosphate
synonym: "C" BROAD []
synonym: "[(2~{R},3~{S},4~{R},5~{R})-5-(4-azanyl-3-methyl-2-oxidanylidene-4~{H}-pyrimidin-1-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: B8Q" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: O[C@@H]1[C@@H](O)[C@@H](O[C@H]1N1C=C[C@@H](N(C1=O)C)N)COP(=O)(O)O

[Term]
id: BpForms:rna:B8T
name: 4-methyl, cytidine-5'-monophosphate
synonym: "C" BROAD []
synonym: "[(2~{R},3~{S},4~{R},5~{R})-5-[4-(methylamino)-2-oxidanylidene-pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: B8T" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: CNc1ccn(c(=O)n1)[C@H]1O[C@H]([C@@H]([C@H]1O)O)COP(=O)(O)O

[Term]
id: BpForms:rna:B8W
name: 6-methyl, guanosine-5'-monophosphate
synonym: "G" BROAD []
synonym: "[(2~{R},3~{S},4~{R},5~{R})-5-(2-azanyl-6-methoxy-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: B8W" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: COc1nc(N)nc2c1ncn2[C@H]1O[C@H]([C@H]([C@H]1O)O)COP(=O)(O)O

[Term]
id: BpForms:rna:B9B
name: 6-propyl, guanosine-5'-monophosphate
synonym: "G" BROAD []
synonym: "[(2~{R},3~{S},4~{R},5~{R})-5-(2-azanyl-6-propoxy-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: B9B" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: CCCOc1nc(N)nc2c1ncn2[C@H]1O[C@H]([C@@H]([C@H]1O)O)COP(=O)(O)O

[Term]
id: BpForms:rna:B9H
name: 2'-methyl, 3-propyl, cytidine-5'-monophosphate
synonym: "C" BROAD []
synonym: "[(2~{R},3~{R},4~{R},5~{R})-5-(4-azanyl-2-oxidanylidene-3-propyl-4~{H}-pyrimidin-1-yl)-4-methoxy-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: B9H" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: CCCN1[C@@H](N)C=CN(C1=O)[C@H]1O[C@@H]([C@H]([C@H]1OC)O)COP(=O)(O)O

[Term]
id: BpForms:rna:BGH
name: [(2~{r},3~{r},4~{r},5~{r})-5-(2-azanyl-7-ethanoyl-6-oxidanylidene-1,8-dihydropurin-9-yl)-4-methoxy-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate
synonym: "G" BROAD []
synonym: "[(2~{R},3~{R},4~{R},5~{R})-5-(2-azanyl-7-ethanoyl-6-oxidanylidene-1,8-dihydropurin-9-yl)-4-methoxy-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: BGH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: CO[C@@H]1[C@@H](O)[C@H](O[C@H]1N1CN(c2c1nc(N)[nH]c2=O)C(=O)C)COP(=O)(O)O

[Term]
id: BpForms:rna:BMP
name: 6-hydroxyuridine-5'-phosphate
synonym: "6-hydroxyuridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,4R,5R)-3,4-dihydroxy-5-(6-hydroxy-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: BMP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1n1c(O)cc(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:BMQ
name: 1-(5'-phospho-beta-d-ribofuranosyl)barbituric acid
synonym: "6-oxouridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,4R,5R)-3,4-bis(oxidanyl)-5-[2,4,6-tris(oxidanylidene)-1,3-diazinan-1-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: BMQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O=C1CC(=O)N(C(=O)N1)[C@H]1O[C@@H]([C@H]([C@H]1O)O)COP(=O)(O)O
r_bond_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:rna:BOE
name: 2'-o-[2-(benzyloxy)ethyl] thymidine-5'-monophosphate
synonym: "2'-O-[2-(benzyloxy)ethyl]-5-methyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3R,4R,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)-4-(2-phenylmethoxyethoxy)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: BOE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@H]1[C@@H](COP(=O)([O-])[O-])O[C@H]([C@H]1OCCOCc1ccccc1)n1cc(C)c(=O)[nH]c1=O
l_bond_atoms: P8
l_displaced_atoms: O11-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:rna:BT5
name: biotinyl-5-amp
synonym: "5'-O-[(R)-hydroxy({5-[(3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]pentanoyl}oxy)phosphoryl]adenosine" BROAD []
synonym: "N" BROAD []
synonym: "[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl] 5-[(3aS,4S,6aR)-2-oxo-1,3,3a,4,6,6a-hexahydrothieno[3,4-d]imidazol-4-yl]pentanoate" BROAD []
synonym: "pdb-ccd: BT5" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O=C1N[C@H]2[C@@H](N1)[C@H](SC2)CCCCC(=O)O[P@](=O)(OC[C@H]1O[C@@H]([C@@H]([C@@H]1O)O)n1cnc2c1ncnc2N)O

[Term]
id: BpForms:rna:C2L
name: 5-methyl-3'-o-methoxyethyl cytidine 5'-monophosphate
synonym: "3'-O-(2-methoxyethyl)-5-methylcytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(4-amino-5-methyl-2-oxo-pyrimidin-1-yl)-4-hydroxy-3-(2-methoxyethoxy)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: C2L" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: COCCO[C@@H]1[C@@H](COP(=O)([O-])[O-])O[C@@H]([C@@H]1O)n1cc(C)c(nc1=O)N
l_bond_atoms: P12
l_displaced_atoms: O14-1

[Term]
id: BpForms:rna:C31
name: 2'-o-3-aminopropyl cytidine-5'-monophosphate
synonym: "2'-O-(3-aminopropyl)cytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3R,4R,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-4-(3-aminopropoxy)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: C31" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: NCCCO[C@@H]1[C@H](O)[C@H](O[C@@H]1n1ccc(nc1=O)N)COP(=O)(O)O

[Term]
id: BpForms:rna:C43
name: 2'-o-methyoxyethyl-cytidine-5'-monophosphate
synonym: "2'-O-(2-methoxyethyl)cytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3R,4R,5R)-5-(4-azanyl-2-oxidanylidene-pyrimidin-1-yl)-4-(2-methoxyethoxy)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: C43" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: COCCO[C@@H]1[C@H](O)[C@H](O[C@@H]1n1ccc(nc1=O)N)COP(=O)([O-])[O-]
l_bond_atoms: P26
l_displaced_atoms: O28-1

[Term]
id: BpForms:rna:C4J
name: (5s)-5-{3-[(3s)-3-amino-3-carboxypropyl]-1-methyl-2,4-dioxo-1,2,3,4-tetrahydropyrimidin-5-yl}-2,5-anhydro-1-o-phosphono-l-arabinitol
synonym: "(2~{S})-2-azanyl-4-[5-[(2~{S},3~{R},4~{S},5~{S})-3,4-bis(oxidanyl)-5-(phosphonooxymethyl)oxolan-2-yl]-3-methyl-2,6-bis(oxidanylidene)pyrimidin-1-yl]butanoic acid" BROAD []
synonym: "(5S)-5-{3-[(3S)-3-amino-3-carboxypropyl]-1-methyl-2,4-dioxo-1,2,3,4-tetrahydropyrimidin-5-yl}-2,5-anhydro-1-O-phosphono-L-arabinitol" BROAD []
synonym: "pdb-ccd: C4J" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: OC(=O)[C@H](CCn1c(=O)c(cn(c1=O)C)[C@H]1O[C@@H]([C@H]([C@@H]1O)O)COP(=O)(O)O)N

[Term]
id: BpForms:rna:C5L
name: 2'-o-(2-methoxyethyl)-5-methylcytidine 5'-(dihydrogen phosphate)
synonym: "2'-O-(2-methoxyethyl)-5-methylcytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3R,4R,5R)-5-(4-azanyl-5-methyl-2-oxidanylidene-pyrimidin-1-yl)-4-(2-methoxyethoxy)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: C5L" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: COCCO[C@H]1[C@H](O)[C@@H](O[C@H]1n1cc(C)c(nc1=O)N)COP(=O)([O-])[O-]
l_bond_atoms: P27
l_displaced_atoms: O29-1
r_bond_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:rna:CAR
name: cytosine arabinose-5'-phosphate
synonym: "4-amino-1-(5-O-phosphono-beta-D-arabinofuranosyl)pyrimidin-2(1H)-one" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,4S,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: CAR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1n1ccc(nc1=O)N)COP(=O)([O-])[O-]
l_bond_atoms: P22
l_displaced_atoms: O25-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:CBV
name: 5-bromocytidine 5'-(dihydrogen phosphate)
synonym: "5-bromocytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(4-amino-5-bromo-2-oxo-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: CBV" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1n1cc(Br)c(nc1=O)N)COP(=O)(O)O
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:CCC
name: cytidine-5'-phosphate-2',3'-cyclic phosphate
synonym: "C" BROAD []
synonym: "[(1R,3S,5R,6R,8R)-6-(4-amino-2-oxo-pyrimidin-1-yl)-3-hydroxy-3-oxo-2,4,7-trioxa-3$l^{5}-phosphabicyclo[3.3.0]octan-8-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(2S,3aR,4R,6R,6aR)-6-(4-amino-2-oxopyrimidin-1(2H)-yl)-2-hydroxy-2-oxidotetrahydrofuro[3,4-d][1,3,2]dioxaphosphol-4-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: CCC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: Nc1ccn(c(=O)n1)[C@H]1O[C@@H]([C@@H]2[C@H]1O[P@@](=O)(O2)O)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O28-1

[Term]
id: BpForms:rna:CG1
name: 5'-o-[(r)-hydroxy(methoxy)phosphoryl]guanosine
synonym: "5'-O-[(R)-hydroxy(methoxy)phosphoryl]guanosine" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl methyl hydrogen phosphate" BROAD []
synonym: "pdb-ccd: CG1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: CO[P@](=O)(OC[C@H]1O[C@@H]([C@H]([C@@H]1O)O)n1cnc2c1nc(N)[nH]c2=O)[O-]
r_bond_atoms: O16
r_displaced_atoms: H16

[Term]
id: BpForms:rna:CH
name: n3-protonated cytidine-5'-monophosphate
synonym: "5'-cytidylic acid" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(4-amino-2-oxo-3H-pyrimidin-1-ium-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: CH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1[n+]1ccc([nH]c1=O)N)COP(=O)([O-])[O-]
l_bond_atoms: P23
l_displaced_atoms: O25-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:CM0
name: 5-(carboxymethoxy) uridine-5'-monophosphate
synonym: "2-[1-[(2R,3R,4S,5R)-3,4-dihydroxy-5-(phosphonooxymethyl)oxolan-2-yl]-2,4-dioxo-pyrimidin-5-yl]oxyethanoic acid" BROAD []
synonym: "5-(carboxymethoxy)uridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "N" BROAD []
synonym: "pdb-ccd: CM0" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: OC(=O)COc1cn(c(=O)[nH]c1=O)[C@@H]1O[C@@H]([C@@H]([C@@H]1O)O)COP(=O)(O)O

[Term]
id: BpForms:rna:CNU
name: 5-cyano-uridine-5'-monophosphate
synonym: "5-cyanouridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(5-cyano-2,4-dioxo-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: CNU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: N#Cc1cn(c(=O)[nH]c1=O)[C@H]1O[C@@H]([C@@H]([C@@H]1O)O)COP(=O)(O)O
r_bond_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:rna:CS8
name: 3-thiaoctanoyl-coenzyme a
synonym: "N" BROAD []
synonym: "S-[2-[3-[[(2R)-4-[[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-4-hydroxy-3-phosphonooxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl]oxy-hydroxy-phosphoryl]oxy-2-hydroxy-3,3-dimethyl-butanoyl]amino]propanoylamino]ethyl] 2-pentylsulfanylethanethioate" BROAD []
synonym: "S-{(9R,13S,15R)-17-[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-4-hydroxy-3-(phosphonooxy)tetrahydrofuran-2-yl]-9,13,15-trihydroxy-10,10-dimethyl-13,15-dioxido-4,8-dioxo-12,14,16-trioxa-3,7-diaza-13,15-diphosphaheptadec-1-yl} (pentylsulfanyl)ethanethioate (non-preferred name)" BROAD []
synonym: "pdb-ccd: CS8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: CCCCCSCC(=O)SCCNC(=O)CCNC(=O)[C@@H](C(CO[P@](=O)(O[P@](=O)(OC[C@H]1O[C@H]([C@H]([C@H]1OP(=O)(O)O)O)n1cnc2c1ncnc2N)O)O)(C)C)O

[Term]
id: BpForms:rna:CSF
name: cytidine-5'-monophosphate-3-fluoro-n-acetyl-neuraminic acid
synonym: "(2S,3R,4R,5R,6R)-5-(acetylamino)-2-{[(R)-{[(2R,3S,4R,5R)-5-(4-amino-2-oxopyrimidin-1(2H)-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methoxy}(hydroxy)phosphoryl]oxy}-3-fluoro-4-hydroxy-6-[(1R,2R)-1,2,3-trihydroxypropyl]tetrahydro-2H-pyran-2-carboxylic acid (non-preferred name)" BROAD []
synonym: "(3R,4R,5R,6R)-5-acetamido-2-[[(2R,3S,4R,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl]oxy-3-fluoro-4-hydroxy-6-[(1R,2R)-1,2,3-trihydroxypropyl]oxane-2-carboxylic acid" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: CSF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: OC[C@H]([C@H]([C@@H]1O[C@](O[P@@](=O)(OC[C@@H]2O[C@H]([C@H]([C@@H]2O)O)n2ccc(nc2=O)N)O)(C(=O)O)[C@H]([C@H]([C@@H]1NC(=O)C)O)F)O)O
r_bond_atoms: O25
r_displaced_atoms: H25

[Term]
id: BpForms:rna:DBM
name: 9-(6-deoxy-beta-d-allofuranosyl)-6-methylpurine
synonym: "(2R,3S,4R,5R)-2-(1-hydroxyethyl)-5-(6-methylpurin-9-yl)oxolane-3,4-diol" BROAD []
synonym: "9-(6-deoxy-beta-D-allofuranosyl)-6-methyl-9H-purine" BROAD []
synonym: "N" BROAD []
synonym: "pdb-ccd: DBM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: C[C@@H]([C@H]1O[C@H]([C@H]([C@H]1O)O)n1cnc2c1ncnc2C)O

[Term]
id: BpForms:rna:DJF
name: [(1s,5r,6r,8r)-6-(6-aminopurin-9-yl)-2'-(3-oxidanylpropoxy)spiro[2,4,7-trioxa-3-boranuidabicyclo[3.3.0]octane-3,9'-8-oxa-9-boranuidabicyclo[4.3.0]nona-1(6),2,4-triene]-8-yl]methyl dihydrogen phosphate
synonym: "[(1S,5R,6R,8R)-6-(6-aminopurin-9-yl)-2'-(3-oxidanylpropoxy)spiro[2,4,7-trioxa-3-boranuidabicyclo[3.3.0]octane-3,9'-8-oxa-9-boranuidabicyclo[4.3.0]nona-1(6),2,4-triene]-8-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: DJF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: OCCCOc1cccc2c1[B@-]1(OC2)O[C@H]2[C@@H](O1)[C@@H](O[C@H]2n1cnc2c1ncnc2N)COP(=O)([O-])[O-]
l_bond_atoms: P38
l_displaced_atoms: O41-1

[Term]
id: BpForms:rna:E3C
name: 3-ethyl, cytidine-5'-monophosphate
synonym: "C" BROAD []
synonym: "[(2~{R},3~{S},4~{R},5~{R})-5-(4-azanyl-3-ethyl-2-oxidanylidene-4~{H}-pyrimidin-1-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: E3C" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: CCN1[C@H](N)C=CN(C1=O)[C@H]1O[C@@H]([C@H]([C@@H]1O)O)COP(=O)(O)O

[Term]
id: BpForms:rna:E6G
name: 6-ethyl, guanosine-5'-monophosphate
synonym: "G" BROAD []
synonym: "[(2~{R},3~{S},4~{R},5~{R})-5-(2-azanyl-6-ethoxy-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: E6G" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: CCOc1nc(N)nc2c1ncn2[C@@H]1O[C@H]([C@@H]([C@@H]1O)O)COP(=O)(O)O

[Term]
id: BpForms:rna:E7G
name: 7-ethyl, guanosine-5'-monophosphate
synonym: "G" BROAD []
synonym: "[(2~{R},3~{S},4~{R},5~{R})-5-(2-azanyl-7-ethyl-6-oxidanylidene-1,8-dihydropurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: E7G" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: CCN1CN(c2c1c(=O)[nH]c(n2)N)[C@H]1O[C@@H]([C@H]([C@@H]1O)O)COP(=O)(O)O

[Term]
id: BpForms:rna:EIT
name: ((3r,4r,5r)-4-(2-(1h-imidazol-1-yl)ethoxy)-3-hydroxy-5-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)-tetrahydrofuran-2-yl)methyl dihydrogen phosphate
synonym: "2'-O-[2-(1H-imidazol-1-yl)ethyl]-5-methyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3R,4R,5R)-3-hydroxy-4-(2-imidazol-1-ylethoxy)-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: EIT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@H]1[C@@H](COP(=O)([O-])[O-])O[C@H]([C@H]1OCCn1cncc1)n1cc(C)c(=O)[nH]c1=O
l_bond_atoms: P8
l_displaced_atoms: O10-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:rna:ENA
name: etheno-nad
synonym: "[[(2R,3S,4R,5R)-5-(3-aminocarbonylpyridin-1-ium-1-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-oxidanidyl-phosphoryl] [(2R,3S,4R,5R)-3,4-dihydroxy-5-(9H-imidazo[2,1-f]purin-6-ium-3-yl)oxolan-2-yl]methyl phosphate" BROAD []
synonym: "pdb-ccd: ENA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@H]1[C@@H](CO[P@](=O)(O[P@@](=O)(OC[C@H]2O[C@@H]([C@@H]([C@@H]2O)O)[n+]2cccc(c2)C(=O)N)[O-])[O-])O[C@H]([C@@H]1O)n1cnc2c1nc[n+]1c2[nH]cc1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:rna:ENP
name: etheno-nadp
synonym: "N" BROAD []
synonym: "[(2R,3R,4R,5R)-3-hydroxy-5-(3H-imidazo[2,1-i]purin-3-yl)-4-(phosphonooxy)tetrahydrofuran-2-yl]methyl [(2R,3S,4R,5R)-3,4,5-trihydroxytetrahydrofuran-2-yl]methyl dihydrogen diphosphate (non-preferred name)" BROAD []
synonym: "[(2R,3R,4R,5R)-3-hydroxy-5-imidazo[2,1-f]purin-3-yl-4-phosphonooxy-oxolan-2-yl]methyl [hydroxy-[[(2R,3S,4R,5R)-3,4,5-trihydroxyoxolan-2-yl]methoxy]phosphoryl] hydrogen phosphate" BROAD []
synonym: "pdb-ccd: ENP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@@H]1[C@@H](CO[P@@](=O)(O[P@@](=O)(OC[C@H]2O[C@@H]([C@@H]([C@@H]2O)O)O)O)O)O[C@@H]([C@@H]1OP(=O)(O)O)n1cnc2c1ncn1c2ncc1

[Term]
id: BpForms:rna:ENQ
name: [[(2r,3s,4r,5r)-3,4-dihydroxy-5-(9h-imidazo[2,1-f]purin-6-ium-3-yl)oxolan-2-yl]methoxy-oxidanidyl-phosphoryl] [(2r,3s,4r,5r)-3,4-dihydroxy-5-oxidanidyl-oxolan-2-yl]methyl phosphate
synonym: "[[(2R,3S,4R,5R)-3,4-dihydroxy-5-(9H-imidazo[2,1-f]purin-6-ium-3-yl)oxolan-2-yl]methoxy-oxidanidyl-phosphoryl] [(2R,3S,4R,5R)-3,4,5-trihydroxyoxolan-2-yl]methyl phosphate" BROAD []
synonym: "pdb-ccd: ENQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@H]1[C@@H](CO[P@@](=O)(O[P@](=O)(OC[C@H]2O[C@H]([C@@H]([C@@H]2O)O)O)[O-])[O-])O[C@H]([C@@H]1O)n1cnc2c1nc[n+]1c2[nH]cc1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:rna:EQ4
name: 5'-o-[(r)-(2-amino-1h-imidazol-1-yl)(hydroxy)phosphoryl]guanosine
synonym: "(2-azanylimidazol-1-yl)-[[(2~{R},3~{S},4~{R},5~{R})-5-(2-azanyl-6-oxidanylidene-1~{H}-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy]phosphinic acid" BROAD []
synonym: "5'-O-[(R)-(2-amino-1H-imidazol-1-yl)(hydroxy)phosphoryl]guanosine" BROAD []
synonym: "pdb-ccd: EQ4" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: Nc1[nH]c(=O)c2c(n1)n(cn2)[C@@H]1O[C@@H]([C@@H]([C@H]1O)O)CO[P@](=O)(n1ccnc1N)O

[Term]
id: BpForms:rna:F2T
name: 2'-deoxy-2'-fluoro-5'-o-thiophosphonouridine
synonym: "2'-deoxy-2'-fluoro-5'-O-thiophosphonouridine" BROAD []
synonym: "[(2~{R},3~{R},4~{R},5~{R})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-4-fluoranyl-3-oxidanyl-oxolan-2-yl]methoxy-sulfanyl-phosphinic acid" BROAD []
synonym: "pdb-ccd: F2T" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@@H]1[C@@H](CO[P@](=O)(S)[O-])O[C@@H]([C@@H]1F)n1ccc(=O)[nH]c1=O
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:rna:F3N
name: 3'-deoxy-3'-(l-phenylalanylamino)adenosine 5'-(dihydrogen phosphate)
synonym: "3'-deoxy-3'-(L-phenylalanylamino)adenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2S,3S,4R,5R)-5-(6-aminopurin-9-yl)-3-[[(2S)-2-azanyl-3-phenyl-propanoyl]amino]-4-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: F3N" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O=C([C@H](Cc1ccccc1)N)N[C@@H]1[C@@H](COP(=O)([O-])[O-])O[C@H]([C@@H]1O)n1cnc2c1ncnc2N
l_bond_atoms: P20
l_displaced_atoms: O23-1

[Term]
id: BpForms:rna:F3O
name: 3'-o-l-phenylalanyladenosine 5'-(dihydrogen phosphate)
synonym: "3'-O-L-phenylalanyladenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-4-oxidanyl-2-(phosphonooxymethyl)oxolan-3-yl] (2S)-2-azanyl-3-phenyl-propanoate" BROAD []
synonym: "pdb-ccd: F3O" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O=C([C@@H](Cc1ccccc1)N)O[C@@H]1[C@H](COP(=O)(O)O)O[C@H]([C@@H]1O)n1cnc2c1ncnc2N

[Term]
id: BpForms:rna:FA2
name: 5-(6-amino-9h-purin-9-yl)-4-hydroxytetrahydrofuran-3-yl dihydrogen phosphate
synonym: "(3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-4-hydroxytetrahydrofuran-3-yl dihydrogen phosphate" BROAD []
synonym: "A" BROAD []
synonym: "[(3S,4R,5R)-5-(6-aminopurin-9-yl)-4-hydroxy-oxolan-3-yl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: FA2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@@H]1[C@@H](CO[C@H]1n1cnc2c1ncnc2N)OP(=O)([O-])[O-]
l_bond_atoms: P21
l_displaced_atoms: O24-1

[Term]
id: BpForms:rna:FA5
name: adenosine-5'-[phenylalaninyl-phosphate]
synonym: "5'-O-[(S)-{[(2S)-2-amino-3-phenylpropanoyl]oxy}(hydroxy)phosphoryl]adenosine" BROAD []
synonym: "N" BROAD []
synonym: "[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl] (2S)-2-amino-3-phenyl-propanoate" BROAD []
synonym: "pdb-ccd: FA5" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O=C([C@H](Cc1ccccc1)N)O[P@](=O)(OC[C@H]1O[C@@H]([C@@H]([C@@H]1O)O)n1cnc2c1ncnc2N)[O-]

[Term]
id: BpForms:rna:FAI
name: 5-(formylamino)-1-(5-o-phosphono-beta-d-ribofuranosyl)-1h-imidazole-4-carboxamide
synonym: "5-(formylamino)-1-(5-O-phosphono-beta-D-ribofuranosyl)-1H-imidazole-4-carboxamide" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(4-aminocarbonyl-5-formamido-imidazol-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: FAI" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O=CNc1c(ncn1[C@@H]1O[C@H]([C@@H]([C@H]1O)O)COP(=O)([O-])[O-])C(=O)N
l_bond_atoms: P22
l_displaced_atoms: O25-1
r_bond_atoms: O19
r_displaced_atoms: H19

[Term]
id: BpForms:rna:FHU
name: (5s,6r)-5-fluoro-6-hydroxy-pseudouridine-5'-monophosphate
synonym: "(1R)-1,4-anhydro-1-[(4R,5S)-5-fluoro-4-hydroxy-2,6-dioxohexahydropyrimidin-5-yl]-5-O-phosphono-D-ribitol" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,4R,5R)-5-[(4R,5S)-5-fluoro-4-hydroxy-2,6-dioxo-1,3-diazinan-5-yl]-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: FHU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O=C1N[C@H](O)[C@@](C(=O)N1)(F)[C@@H]1O[C@H]([C@H]([C@@H]1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:rna:FMU
name: 5-fluoro-5-methyluridine-5'-monophosphate
synonym: "5-fluoro-5-methyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,4R,5R)-5-[(5S)-5-fluoro-5-methyl-2,4-dioxo-1,3-diazinan-1-yl]-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: FMU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@H]1[C@H](O)[C@@H](O[C@H]1N1C[C@@](C)(F)C(=O)NC1=O)COP(=O)(O)O

[Term]
id: BpForms:rna:G2L
name: 3'-o-methyoxyethyl-guanosine-5'-monophosphate
synonym: "3'-O-(2-methoxyethyl)guanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-4-hydroxy-3-(2-methoxyethoxy)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: G2L" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: COCCO[C@@H]1[C@@H](COP(=O)([O-])[O-])O[C@@H]([C@@H]1O)n1cnc2c1nc(N)[nH]c2=O
l_bond_atoms: P12
l_displaced_atoms: O14-1

[Term]
id: BpForms:rna:G46
name: guanosine-5'-monothiophosphate
synonym: "5'-O-thiophosphonoguanosine" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(2-azanyl-6-oxidanylidene-1H-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-sulfanyl-phosphinic acid" BROAD []
synonym: "pdb-ccd: G46" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: O[C@H]1[C@H](O)[C@H](O[C@@H]1n1cnc2c1nc(N)[nH]c2=O)CO[P@@](=O)(S)O

[Term]
id: BpForms:rna:G48
name: 2'-o-methyoxyethyl-guanosine-5'-monophosphate
synonym: "2'-O-(2-methoxyethyl)guanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3R,4R,5R)-5-(2-azanyl-6-oxidanylidene-1H-purin-9-yl)-4-(2-methoxyethoxy)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: G48" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: COCCO[C@H]1[C@H](O)[C@H](O[C@@H]1n1cnc2c1nc(N)[nH]c2=O)COP(=O)([O-])[O-]
l_bond_atoms: P30
l_displaced_atoms: O32-1
r_bond_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:rna:G4P
name: guanosine-5',3'-tetraphosphate
synonym: "N" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-4-hydroxy-3-(hydroxy-phosphonooxy-phosphoryl)oxy-oxolan-2-yl]methyl phosphono hydrogen phosphate" BROAD []
synonym: "guanosine 3',5'-bis(trihydrogen diphosphate)" BROAD []
synonym: "pdb-ccd: G4P" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@@H]1[C@H](O[P@](=O)(OP(=O)(O)O)O)[C@H](O[C@@H]1n1cnc2c1nc(N)[nH]c2=O)CO[P@@](=O)(OP(=O)(O)O)O

[Term]
id: BpForms:rna:G7M
name: n7-methyl-guanosine-5'-monophosphate
synonym: "7-methylguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(2-amino-7-methyl-6-oxo-1H-purin-7-ium-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: G7M" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1n1c[n+](c2c1nc(N)[nH]c2=O)C)COP(=O)([O-])[O-]
l_bond_atoms: P27
l_displaced_atoms: O29-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:GAO
name: guanine arabinose-5'-phosphate
synonym: "2-amino-9-(5-O-phosphono-beta-D-arabinofuranosyl)-1,9-dihydro-6H-purin-6-one" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,4S,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: GAO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1n1cnc2c1nc(N)[nH]c2=O)COP(=O)([O-])[O-]
l_bond_atoms: P26
l_displaced_atoms: O28-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:GDO
name: 3'-deoxy-guanosine 5'-monophosphate
synonym: "3'-deoxy-5'-guanylic acid" BROAD []
synonym: "[(2S,4R,5R)-5-(2-azanyl-6-oxidanylidene-1H-purin-9-yl)-4-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: GDO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: O[C@H]1C[C@@H](O[C@H]1n1cnc2c1nc(N)[nH]c2=O)COP(=O)(O)O

[Term]
id: BpForms:rna:GDP
name: guanosine-5'-diphosphate
synonym: "G" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(2-azanyl-6-oxidanylidene-1H-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl phosphono hydrogen phosphate" BROAD []
synonym: "guanosine 5'-(trihydrogen diphosphate)" BROAD []
synonym: "pdb-ccd: GDP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: O[C@@H]1[C@@H](CO[P@@](=O)(OP(=O)(O)O)O)O[C@@H]([C@@H]1O)n1cnc2c1nc(N)[nH]c2=O
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:rna:GDR
name: guanosine-5'-diphosphate-rhamnose
synonym: "G" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl (2R,3S,4S,5S,6R)-3,4,5-trihydroxy-6-methyltetrahydro-2H-pyran-2-yl dihydrogen diphosphate (non-preferred name)" BROAD []
synonym: "[[(2R,3S,4R,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl] [(2R,3S,4S,5S,6R)-3,4,5-trihydroxy-6-methyl-oxan-2-yl] hydrogen phosphate" BROAD []
synonym: "pdb-ccd: GDR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@H]1[C@@H](CO[P@@](=O)(O[P@](=O)(O[C@@H]2O[C@@H](C)[C@@H]([C@@H]([C@@H]2O)O)O)O)O)O[C@H]([C@H]1O)n1cnc2c1nc(N)[nH]c2=O
r_bond_atoms: O27
r_displaced_atoms: H27

[Term]
id: BpForms:rna:GH3
name: 3'-deoxy-guanosine-5'-triphosphate
synonym: "3'-deoxyguanosine 5'-(tetrahydrogen triphosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[[(2S,4R,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-4-hydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl] phosphono hydrogen phosphate" BROAD []
synonym: "pdb-ccd: GH3" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: O[C@@H]1C[C@H](O[C@@H]1n1cnc2c1nc(N)[nH]c2=O)CO[P@@](=O)(O[P@@](=O)(OP(=O)(O)O)O)O

[Term]
id: BpForms:rna:GMU
name: 2'-o-[(2-guanidinium)ethyl]-5-methyluridine 5'-monophosphate
synonym: "2'-O-{2-[(diaminomethyl)amino]ethyl}-5-methyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3R,4R,5R)-4-[2-(diaminomethylamino)ethoxy]-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: GMU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: NC(NCCO[C@H]1[C@H](O)[C@H](O[C@@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)(O)O)N

[Term]
id: BpForms:rna:GOM
name: glutamol-amp
synonym: "(4S)-5-[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-oxido-phosphoryl]oxy-4-azaniumyl-pentanoate" BROAD []
synonym: "5'-O-({[(2S)-2-ammonio-4-carboxylatobutyl]oxy}phosphinato)adenosine" BROAD []
synonym: "G" BROAD []
synonym: "pdb-ccd: GOM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: [O-]C(=O)CC[C@H](CO[P@](=O)(OC[C@H]1O[C@H]([C@H]([C@H]1O)O)n1cnc2c1ncnc2N)[O-])[NH3+]
r_bond_atoms: O23
r_displaced_atoms: H23

[Term]
id: BpForms:rna:GRB
name: 8-bromoguanosine 5'-(dihydrogen phosphate)
synonym: "8-bromoguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(2-azanyl-8-bromo-6-oxo-1H-purin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: GRB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1n1c(Br)nc2c1nc(N)[nH]c2=O)COP(=O)([O-])[O-]
l_bond_atoms: P27
l_displaced_atoms: O30-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:I4U
name: 4-isopropyl, uridine-5'-monophosphate
synonym: "U" BROAD []
synonym: "[(2~{R},3~{S},4~{R},5~{R})-3,4-bis(oxidanyl)-5-(2-oxidanylidene-4-propan-2-yloxy-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: I4U" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: CC(Oc1ccn(c(=O)n1)[C@H]1O[C@@H]([C@H]([C@H]1O)O)COP(=O)(O)O)C

[Term]
id: BpForms:rna:IC
name: isocytidine-5'-monophosphate
synonym: "2-amino-1-(5-O-phosphono-beta-D-ribofuranosyl)pyrimidin-4(1H)-one" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(2-amino-4-oxo-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: IC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: O[C@@H]1[C@H](O)[C@H](O[C@H]1n1ccc(=O)nc1N)COP(=O)([O-])[O-]
l_bond_atoms: P22
l_displaced_atoms: O25-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:IG
name: isoguanosine-5'-monophosphate
synonym: "2-oxoadenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(6-amino-2-oxo-1H-purin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: IG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: O[C@@H]1[C@H](O)[C@H](O[C@H]1n1cnc2c1nc(=O)[nH]c2N)COP(=O)([O-])[O-]
l_bond_atoms: P26
l_displaced_atoms: O29-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:IPN
name: 2-aminoethylglycine-carbonylmethylene-5-iodouracil
synonym: "2-[carboxymethyl-[2-(5-iodo-2,4-dioxo-pyrimidin-1-yl)ethanoyl]amino]ethylazanium" BROAD []
synonym: "2-{(carboxymethyl)[(5-iodo-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)acetyl]amino}ethanaminium" BROAD []
synonym: "N" BROAD []
synonym: "pdb-ccd: IPN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: [NH3+]CCN(C(=O)Cn1cc(I)c(=O)[nH]c1=O)CC(=O)O

[Term]
id: BpForms:rna:IRN
name: 1-(5-o-phosphono-beta-d-ribofuranosyl)-1h-imidazole
synonym: "1-(5-O-phosphono-beta-D-ribofuranosyl)-1H-imidazole" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,4R,5R)-3,4-dihydroxy-5-imidazol-1-yl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: IRN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@H]1[C@@H](COP(=O)(O)O)O[C@@H]([C@@H]1O)n1cncc1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:rna:IU
name: 5-iodouridine-5'-monophosphate
synonym: "5-iodouridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,4R,5R)-3,4-dihydroxy-5-(5-iodo-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: IU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1n1cc(I)c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:JLN
name: 5-(formylamino)-1-(5-o-phosphono-beta-d-ribofuranosyl)-1h-imidazole-4-carboxylic acid
synonym: "1-[(2R,3R,4S,5R)-3,4-dihydroxy-5-(phosphonooxymethyl)oxolan-2-yl]-5-formamido-imidazole-4-carboxylic acid" BROAD []
synonym: "pdb-ccd: JLN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O=CNc1c(ncn1[C@@H]1O[C@@H]([C@H]([C@@H]1O)O)COP(=O)(O)O)C(=O)O

[Term]
id: BpForms:rna:JW5
name: 6-(hydroxymethyl)uridine 5'-(dihydrogen phosphate)
synonym: "6-(hydroxymethyl)uridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,4R,5R)-3,4-dihydroxy-5-[6-(hydroxymethyl)-2,4-dioxo-pyrimidin-1-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: JW5" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: OCc1cc(=O)[nH]c(=O)n1[C@H]1O[C@@H]([C@@H]([C@@H]1O)O)COP(=O)(O)O

[Term]
id: BpForms:rna:KAG
name: 2'-deoxy-n-[(1s)-1-methyl-3-oxopropyl]guanosine 5'-phosphate
synonym: "2'-deoxy-N-[(1S)-1-methyl-3-oxopropyl]guanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-3-hydroxy-5-[6-oxo-2-[[(2S)-4-oxobutan-2-yl]amino]-1H-purin-9-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: KAG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: O=CC[C@@H](Nc1[nH]c(=O)c2c(n1)n(cn2)[C@@H]1C[C@@H]([C@H](O1)COP(=O)(O)O)O)C

[Term]
id: BpForms:rna:KGV
name: 3'-deoxy-3'-(d-phenylalanylamino)adenosine 5'-(dihydrogen phosphate)
synonym: "3'-deoxy-3'-(D-phenylalanylamino)adenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2~{S},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3-[[(2~{R})-2-azanyl-3-phenyl-propanoyl]amino]-4-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: KGV" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O=C([C@@H](Cc1ccccc1)N)N[C@H]1[C@@H](COP(=O)([O-])[O-])O[C@H]([C@@H]1O)n1cnc2c1ncnc2N
l_bond_atoms: P20
l_displaced_atoms: O23-1

[Term]
id: BpForms:rna:LCA
name: [(1r,3r,4r,7s)-7-hydroxy-3-(adenin-9-yl)-2,5-dioxabicyclo[2.2.1]hept-1-yl]methyl dihydrogen phosphate
synonym: "9-{2,5-anhydro-4-[(phosphonooxy)methyl]-alpha-L-lyxofuranosyl}-9H-purin-6-amine" BROAD []
synonym: "A" BROAD []
synonym: "[(1R,4R,6R,7S)-6-(6-aminopurin-9-yl)-7-hydroxy-2,5-dioxabicyclo[2.2.1]heptan-4-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: LCA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O[C@H]1[C@@H]2OC[C@]1(COP(=O)(O)O)O[C@H]2n1cnc2c1ncnc2N

[Term]
id: BpForms:rna:LCC
name: [(1r,3r,4r,7s)-7-hydroxy-3-(5-methylcytosin-1-yl)-2,5-dioxabicyclo[2.2.1]hept-1-yl]methyl dihydrogen phosphate
synonym: "4-amino-1-{2,5-anhydro-4-[(phosphonooxy)methyl]-alpha-L-lyxofuranosyl}-5-methylpyrimidin-2(1H)-one" BROAD []
synonym: "N" BROAD []
synonym: "[(1R,4R,5R,7S)-5-(4-amino-5-methyl-2-oxo-pyrimidin-1-yl)-7-hydroxy-3,6-dioxabicyclo[2.2.1]heptan-1-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: LCC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@@H]1[C@H]2OC[C@]1(COP(=O)(O)O)O[C@H]2n1cc(C)c(nc1=O)N

[Term]
id: BpForms:rna:LCG
name: [(1r,3r,4r,7s)-7-hydroxy-3-(guanin-9-yl)-2,5-dioxabicyclo[2.2.1]hept-1-yl]methyl dihydrogen phosphate
synonym: "2-amino-9-{2,5-anhydro-4-[(phosphonooxy)methyl]-alpha-L-lyxofuranosyl}-1,9-dihydro-6H-purin-6-one" BROAD []
synonym: "G" BROAD []
synonym: "[(1R,4R,6R,7S)-6-(2-amino-6-oxo-1H-purin-9-yl)-7-hydroxy-2,5-dioxabicyclo[2.2.1]heptan-4-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: LCG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@H]1[C@@H]2OC[C@]1(COP(=O)([O-])[O-])O[C@H]2n1cnc2c1nc(N)[nH]c2=O
l_bond_atoms: P11
l_displaced_atoms: O14-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:rna:LKC
name: 4-amino-1-[(1s,3r,4r,7s)-7-hydroxy-1-(hydroxymethyl)-2,5-dioxabicyclo[2.2.1]hept-3-yl]-5-methylpyrimidin-2(1h)-one
synonym: "4-amino-1-[(1R,4S,6R,7S)-7-hydroxy-4-(hydroxymethyl)-2,5-dioxabicyclo[2.2.1]heptan-6-yl]-5-methyl-pyrimidin-2-one" BROAD []
synonym: "4-amino-1-[2,5-anhydro-4-(hydroxymethyl)-alpha-L-lyxofuranosyl]-5-methylpyrimidin-2(1H)-one" BROAD []
synonym: "N" BROAD []
synonym: "pdb-ccd: LKC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: Cc1cn([C@@H]2O[C@]3([C@H]([C@H]2OC3)O)CO)c(=O)nc1N

[Term]
id: BpForms:rna:LMS
name: [(2r,3s,4r,5r)-5-(6-amino-9h-purin-9-yl)-3,4-dihydroxytetrahydro-2-furanyl]methyl sulfamate
synonym: "5'-O-sulfamoyladenosine" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl sulfamate" BROAD []
synonym: "pdb-ccd: LMS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1n1cnc2c1ncnc2N)COS(=O)(=O)N

[Term]
id: BpForms:rna:M1Y
name: (1s)-1,4-anhydro-1-(1-methyl-2,4-dioxo-1,2,3,4-tetrahydropyrimidin-5-yl)-5-o-phosphono-d-xylitol
synonym: "(1S)-1,4-anhydro-1-(1-methyl-2,4-dioxo-1,2,3,4-tetrahydropyrimidin-5-yl)-5-O-phosphono-D-xylitol" BROAD []
synonym: "[(2~{R},3~{R},4~{R},5~{S})-5-[1-methyl-2,4-bis(oxidanylidene)pyrimidin-5-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: M1Y" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@@H]1[C@H](O)[C@H](O[C@H]1c1cn(C)c(=O)[nH]c1=O)COP(=O)(O)O

[Term]
id: BpForms:rna:M3O
name: 3'-o-(n-formyl-l-methionyl)adenosine 5'-(dihydrogen phosphate)
synonym: "3'-O-(N-formyl-L-methionyl)adenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-4-oxidanyl-2-(phosphonooxymethyl)oxolan-3-yl] (2S)-2-formamido-4-methylsulfanyl-butanoate" BROAD []
synonym: "pdb-ccd: M3O" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: CSCC[C@H](C(=O)O[C@H]1[C@@H](COP(=O)(O)O)O[C@H]([C@H]1O)n1cnc2c1ncnc2N)NC=O

[Term]
id: BpForms:rna:M5M
name: 2'-(n-acetamide)-cytidine-5'-monophosphate
synonym: "2'-(acetylamino)-2'-deoxycytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,4R,5R)-4-acetamido-5-(4-amino-2-oxo-pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: M5M" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: CC(=O)N[C@@H]1[C@@H](O)[C@H](O[C@H]1n1ccc(nc1=O)N)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:rna:M7A
name: 7-methyl, adenosine-5'-monophosphate
synonym: "A" BROAD []
synonym: "[(2~{R},3~{S},4~{R},5~{R})-5-(6-azanyl-7-methyl-8~{H}-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: M7A" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O[C@@H]1[C@@H](O)[C@@H](O[C@@H]1N1CN(c2c1ncnc2N)C)COP(=O)(O)O

[Term]
id: BpForms:rna:MGQ
name: 7-benzyl guanine monophosphate
synonym: "7-benzylguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,4R,5R)-5-[2-amino-6-oxo-7-(phenylmethyl)-1H-purin-7-ium-9-yl]-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: MGQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O[C@H]1[C@@H](O)[C@H](O[C@@H]1n1c[n+](c2c1nc(N)[nH]c2=O)Cc1ccccc1)COP(=O)([O-])[O-]
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:MGV
name: p-fluoro-7-benzyl guanine monophosphate
synonym: "7-(4-fluorobenzyl)guanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,4R,5R)-5-[2-amino-7-[(4-fluorophenyl)methyl]-6-oxo-1H-purin-7-ium-9-yl]-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: MGV" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: O[C@H]1[C@@H](O)[C@H](O[C@@H]1n1c[n+](c2c1nc(N)[nH]c2=O)Cc1ccc(cc1)F)COP(=O)([O-])[O-]
l_bond_atoms: P34
l_displaced_atoms: O36-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:MHG
name: 2-methyl, 7-(3-methyl-pentane), guanosine-5'-monophosphate
synonym: "G" BROAD []
synonym: "[(2~{R},3~{S},4~{R},5~{R})-5-[2-(methylamino)-7-[(3~{S})-3-methylpentyl]-6-oxidanylidene-1,8-dihydropurin-9-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: MHG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: CC[C@H](CCN1CN(c2c1c(=O)[nH]c(n2)NC)[C@@H]1O[C@H]([C@@H]([C@H]1O)O)COP(=O)(O)O)C

[Term]
id: BpForms:rna:MIA
name: 2-methylthio-n6-isopentenyl-adenosine-5'-monophosphate
synonym: "A" BROAD []
synonym: "N-(3-methylbutyl)-2-(methylsulfanyl)adenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3S,4R,5R)-3,4-dihydroxy-5-[6-(3-methylbutylamino)-2-methylsulfanyl-purin-9-yl]oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: MIA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: CSc1nc(NCCC(C)C)c2c(n1)n(cn2)[C@H]1O[C@@H]([C@H]([C@H]1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P31
l_displaced_atoms: O33-1
r_bond_atoms: O28
r_displaced_atoms: H28

[Term]
id: BpForms:rna:MTU
name: 9-beta-d-ribofuranosyl-9h-purin-2-amine
synonym: "9-(5-O-phosphono-beta-D-ribofuranosyl)-9H-purin-2-amine" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(2-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: MTU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O[C@H]1[C@@H](O)[C@H](O[C@H]1n1cnc2c1nc(N)nc2)COP(=O)(O)O
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:MUM
name: 5'-o-(dihydroxyphosphanyl)-5-methyl-5,6-dihydrouridine
synonym: "5'-O-(dihydroxyphosphanyl)-5-methyl-5,6-dihydrouridine" BROAD []
synonym: "[(2~{R},3~{S},4~{R},5~{R})-5-[(5~{R})-5-methyl-2,4-bis(oxidanylidene)-1,3-diazinan-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphite" BROAD []
synonym: "pdb-ccd: MUM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: OP(OC[C@H]1O[C@@H]([C@H]([C@@H]1O)O)N1C[C@@H](C)C(=O)NC1=O)O

[Term]
id: BpForms:rna:N5M
name: 5-nitrocytidine 5'-(dihydrogen phosphate)
synonym: "5-nitrocytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(4-amino-5-nitro-2-oxo-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: N5M" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: O[C@H]1[C@@H](O)[C@H](O[C@@H]1n1cc([N+](=O)[O-])c(nc1=O)N)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:N6G
name: ((2r,3s,4r,5s)-5-(2,6-diamino-9h-purin-9-yl)-3,4-dihydroxy-tetrahydrofuran-2-yl)methyl dihydrogen phosphate
synonym: "2-aminoadenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(2,6-diaminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: N6G" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: Nc1nc(N)c2c(n1)n(cn2)[C@@H]1O[C@@H]([C@@H]([C@@H]1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P25
l_displaced_atoms: O28-1
r_bond_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:rna:NF2
name: (1s)-1,4-anhydro-1-(2,4-difluoro-5-methylphenyl)-5-o-phosphono-d-ribitol
synonym: "(1S)-1,4-anhydro-1-(2,4-difluoro-5-methylphenyl)-5-O-phosphono-D-ribitol" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,4R,5S)-5-(2,4-difluoro-5-methyl-phenyl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: NF2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@H]1[C@@H](O)[C@H](O[C@@H]1c1cc(C)c(cc1F)F)COP(=O)([O-])[O-]
l_bond_atoms: P23
l_displaced_atoms: O26-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:O2C
name: 3'-deoxy-cytidine-5'-monophosphate
synonym: "3'-deoxy-5'-cytidylic acid" BROAD []
synonym: "N" BROAD []
synonym: "[(2S,4R,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-4-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: O2C" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@H]1C[C@H](O[C@H]1n1ccc(nc1=O)N)COP(=O)(O)O

[Term]
id: BpForms:rna:O2G
name: 2'-deoxy-n,n-dimethyl-5'-o-[oxido(oxo)phosphonio]guanosine
synonym: "2'-deoxy-N,N-dimethylguanosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,5R)-5-(2-dimethylamino-6-oxo-1H-purin-9-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: O2G" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: O[C@H]1C[C@H](O[C@@H]1COP(=O)(O)O)n1cnc2c1nc([nH]c2=O)N(C)C
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:rna:OAD
name: 2'-o-acetyl adenosine-5-diphosphoribose
synonym: "(2S,3R,4R,5R)-5-({[(R)-{[(S)-{[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methoxy}(hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]oxy}methyl)-2,4-dihydroxytetrahydrofuran-3-yl acetate (non-preferred name)" BROAD []
synonym: "N" BROAD []
synonym: "[(2S,3R,4R,5R)-5-[[[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl]oxy-hydroxy-phosphoryl]oxymethyl]-2,4-dihydroxy-oxolan-3-yl] ethanoate" BROAD []
synonym: "pdb-ccd: OAD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: CC(=O)O[C@@H]1[C@@H](O)O[C@@H]([C@H]1O)CO[P@@](=O)(O[P@@](=O)(OC[C@H]1O[C@@H]([C@@H]([C@@H]1O)O)n1cnc2c1ncnc2N)O)O

[Term]
id: BpForms:rna:ODP
name: 4-oxo-nicotinamide-adenine dinucleotide phosphate
synonym: "N" BROAD []
synonym: "[[(2R,3S,4R,5R)-5-(3-aminocarbonyl-4-oxo-3H-pyridin-1-ium-1-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl] [(2R,3R,4R,5R)-5-(6-aminopurin-9-yl)-3-hydroxy-4-phosphonooxy-oxolan-2-yl]methyl hydrogen phosphate" BROAD []
synonym: "pdb-ccd: ODP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@H]1[C@@H](O)[C@H](O[C@@H]1[N+]1=C[C@H](C(=O)C=C1)C(=O)N)CO[P@@](=O)(O[P@@](=O)(OC[C@@H]1O[C@@H]([C@H]([C@H]1O)OP(=O)(O)O)n1cnc2c1ncnc2N)O)O

[Term]
id: BpForms:rna:ONE
name: 1-(beta-d-ribofuranosyl)-pyridin-4-one-5'-phosphate
synonym: "1-(5-O-phosphono-beta-D-ribofuranosyl)pyridin-4(1H)-one" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,4R,5R)-3,4-dihydroxy-5-(4-oxopyridin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: ONE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@@H]1[C@@H](O)[C@H](O[C@@H]1n1ccc(=O)cc1)COP(=O)([O-])[O-]
l_bond_atoms: P21
l_displaced_atoms: O23-1

[Term]
id: BpForms:rna:OOB
name: 5'-o-[(r)-(benzoyloxy)(hydroxy)phosphoryl]adenosine
synonym: "5'-O-[(R)-(benzoyloxy)(hydroxy)phosphoryl]adenosine" BROAD []
synonym: "[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] benzoate" BROAD []
synonym: "pdb-ccd: OOB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@@H]1[C@H](CO[P@@](=O)(OC(=O)c2ccccc2)O)O[C@H]([C@@H]1O)n1cnc2c1ncnc2N

[Term]
id: BpForms:rna:P1P
name: 3-{[oxido(oxo)phosphino]oxy}propan-1-olate
synonym: "(3-oxidopropoxy)(oxo)phosphoniumolate" BROAD []
synonym: "3-(oxido-oxo-phosphaniumyl)oxypropan-1-olate" BROAD []
synonym: "N" BROAD []
synonym: "pdb-ccd: P1P" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: [O-]CCCO[P+](=O)[O-]

[Term]
id: BpForms:rna:P2T
name: 2'-o-propyl thymidine-5-monophosphate
synonym: "5-methyl-2'-O-propyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3R,4R,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)-4-propoxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: P2T" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: CCCO[C@H]1[C@@H](O)[C@H](O[C@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P27
l_displaced_atoms: O30-1
r_bond_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:rna:P4U
name: 4-propyl, uridine-5'-monophosphate
synonym: "U" BROAD []
synonym: "[(2~{R},3~{S},4~{R},5~{R})-3,4-bis(oxidanyl)-5-(2-oxidanylidene-4-propoxy-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: P4U" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: CCCOc1ccn(c(=O)n1)[C@H]1O[C@H]([C@@H]([C@H]1O)O)COP(=O)(O)O

[Term]
id: BpForms:rna:P5P
name: purine riboside-5'-monophosphate
synonym: "9-(5-O-phosphono-beta-D-ribofuranosyl)-9H-purine" BROAD []
synonym: "A" BROAD []
synonym: "[(2R,3S,4R,5R)-3,4-dihydroxy-5-purin-9-yl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: P5P" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O[C@H]1[C@@H](O)[C@@H](O[C@H]1n1cnc2c1ncnc2)COP(=O)([O-])[O-]
l_bond_atoms: P23
l_displaced_atoms: O26-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:P7G
name: 7-propyl, guanosine-5'-monophosphate
synonym: "G" BROAD []
synonym: "[(2~{R},3~{S},4~{R},5~{R})-5-(2-azanyl-6-oxidanylidene-7-propyl-3,8-dihydropurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: P7G" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: CCCN1CN(c2c1c(=O)nc([nH]2)N)[C@@H]1O[C@H]([C@@H]([C@H]1O)O)COP(=O)(O)O

[Term]
id: BpForms:rna:PGP
name: guanosine-3',5'-diphosphate
synonym: "G" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-4-hydroxy-2-(phosphonooxymethyl)oxolan-3-yl] dihydrogen phosphate" BROAD []
synonym: "guanosine 3',5'-bis(dihydrogen phosphate)" BROAD []
synonym: "pdb-ccd: PGP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: O[C@@H]1[C@H](OP(=O)(O)O)[C@H](O[C@@H]1n1cnc2c1nc(N)[nH]c2=O)COP(=O)([O-])[O-]
l_bond_atoms: P30
l_displaced_atoms: O33-1

[Term]
id: BpForms:rna:PMT
name: phosphoric acid mono-[3-(3-{[5-(4-amino-2-oxo-2h-pyrimidin-1-yl)-3,4- dihydroxy-tetrahydro-furan-2- ylmethoxy]-hydroxy-phosphoryloxy}-3-oxo-propylcarbamoyl)-3-hydroxy-2,2- dimethyl-propyl] ester
synonym: "5'-O-{(S)-hydroxy[(3-{[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]amino}propanoyl)oxy]phosphoryl}cytidine" BROAD []
synonym: "C" BROAD []
synonym: "[[(2R,3S,4R,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl] 3-[[(2R)-2-hydroxy-3,3-dimethyl-4-phosphonooxy-butanoyl]amino]propanoate" BROAD []
synonym: "pdb-ccd: PMT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: O=C(O[P@](=O)(OC[C@H]1O[C@@H]([C@@H]([C@@H]1O)O)n1ccc(nc1=O)N)O)CCNC(=O)[C@@H](C(COP(=O)(O)O)(C)C)O

[Term]
id: BpForms:rna:PPU
name: puromycin-5'-monophosphate
synonym: "3'-deoxy-N,N-dimethyl-3'-[(O-methyl-L-tyrosyl)amino]adenosine 5'-(dihydrogen phosphate)" BROAD []
synonym: "A" BROAD []
synonym: "[(2S,3S,4R,5R)-3-[[(2S)-2-amino-3-(4-methoxyphenyl)propanoyl]amino]-5-(6-dimethylaminopurin-9-yl)-4-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: PPU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: COc1ccc(cc1)C[C@H](C(=O)N[C@@H]1[C@@H](COP(=O)([O-])[O-])O[C@@H]([C@@H]1O)n1cnc2c1ncnc2N(C)C)N
l_bond_atoms: P21
l_displaced_atoms: O24-1

[Term]
id: BpForms:rna:PQ1
name: phosphoric acid mono-[5-(2-amino-5-aminomethyl-4-oxo-3,5-dihydro-4h-pyrido[2,3-d]pyrimidin-8-yl)-3,4-dihydroxy-tetrahydro-furan-2-ylmethyl] ester
synonym: "2-amino-5-(aminomethyl)-7-(5-O-phosphono-beta-D-ribofuranosyl)-3,7-dihydro-4H-pyrrolo[2,3-d]pyrimidin-4-one" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,4R,5R)-5-[2-amino-5-(aminomethyl)-4-oxo-3H-pyrrolo[2,3-d]pyrimidin-7-yl]-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: PQ1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: NCc1cn(c2c1c(=O)[nH]c(n2)N)[C@@H]1O[C@@H]([C@@H]([C@@H]1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P28
l_displaced_atoms: O30-1

[Term]
id: BpForms:rna:PU
name: puromycin-n-aminophosphonic acid
synonym: "3'-deoxy-N,N-dimethyl-3'-[(O-methyl-N-phosphono-L-tyrosyl)amino]adenosine" BROAD []
synonym: "A" BROAD []
synonym: "[[(2S)-1-[[(2S,3S,4R,5R)-5-(6-dimethylaminopurin-9-yl)-4-hydroxy-2-(hydroxymethyl)oxolan-3-yl]amino]-3-(4-methoxyphenyl)-1-oxo-propan-2-yl]amino]phosphonic acid" BROAD []
synonym: "pdb-ccd: PU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: OC[C@H]1O[C@@H]([C@@H]([C@@H]1NC(=O)[C@H](NP(=O)([O-])[O-])Cc1ccc(cc1)OC)O)n1cnc2c1ncnc2N(C)C
l_bond_atoms: P18
l_displaced_atoms: O21-1

[Term]
id: BpForms:rna:PUY
name: puromycin
synonym: "(2S)-2-amino-N-[(2S,3S,4R,5R)-5-(6-dimethylaminopurin-9-yl)-4-hydroxy-2-(hydroxymethyl)oxolan-3-yl]-3-(4-methoxyphenyl)propanamide" BROAD []
synonym: "3'-deoxy-N,N-dimethyl-3'-[(O-methyl-L-tyrosyl)amino]adenosine" BROAD []
synonym: "N" BROAD []
synonym: "pdb-ccd: PUY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: OC[C@H]1O[C@H]([C@H]([C@H]1NC(=O)[C@H](Cc1ccc(cc1)OC)N)O)n1cnc2c1ncnc2N(C)C

[Term]
id: BpForms:rna:PYO
name: 1-(beta-d-ribofuranosyl)-pyrimidin-2-one-5'-phosphate
synonym: "1-(5-O-phosphono-beta-D-ribofuranosyl)pyrimidin-2(1H)-one" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,4R,5R)-3,4-dihydroxy-5-(2-oxopyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: PYO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@H]1[C@H](O)[C@H](O[C@@H]1n1cccnc1=O)COP(=O)([O-])[O-]
l_bond_atoms: P21
l_displaced_atoms: O23-1

[Term]
id: BpForms:rna:PYY
name: d-ribofuranosyl-benzene-5'-monophosphate
synonym: "(1S)-1,4-anhydro-1-phenyl-5-O-phosphono-D-ribitol" BROAD []
synonym: "N" BROAD []
synonym: "[(2R,3S,4R,5S)-3,4-dihydroxy-5-phenyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: PYY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@H]1[C@@H](O)[C@H](O[C@H]1c1ccccc1)COP(=O)(O)O

[Term]
id: BpForms:rna:QUO
name: 2-amino-7-deaza-(2'',3''-dihydroxy-cyclopentylamino)-guanosine-5'-monophosphate
synonym: "2-amino-5-({[(1R,2S,3R)-2,3-dihydroxycyclopentyl]amino}methyl)-7-(5-O-phosphono-beta-D-ribofuranosyl)-3,7-dihydro-4H-pyrrolo[2,3-d]pyrimidin-4-one" BROAD []
synonym: "G" BROAD []
synonym: "[(2R,3S,4R,5R)-5-[2-amino-5-[[[(1R,2S,3R)-2,3-dihydroxycyclopentyl]amino]methyl]-4-oxo-3H-pyrrolo[2,3-d]pyrimidin-7-yl]-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: QUO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: O[C@H]1[C@@H](O)[C@H](O[C@H]1n1cc(c2c1nc(N)[nH]c2=O)CN[C@@H]1CC[C@@H]([C@@H]1O)O)COP(=O)([O-])[O-]
l_bond_atoms: P38
l_displaced_atoms: O41-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:RPC
name: cytidine 3',5'-bis(dihydrogen phosphate)
synonym: "[(2R,3S,4R,5R)-5-(4-azanyl-2-oxidanylidene-pyrimidin-1-yl)-4-oxidanyl-2-(phosphonooxymethyl)oxolan-3-yl] dihydrogen phosphate" BROAD []
synonym: "cytidine 3',5'-bis(dihydrogen phosphate)" BROAD []
synonym: "pdb-ccd: RPC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: O[C@@H]1[C@H](OP(=O)(O)O)[C@@H](O[C@H]1n1ccc(nc1=O)N)COP(=O)(O)O

[Term]
id: BpForms:rna:RTP
name: ribavirin triphosphate
synonym: "1-{5-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]oxy}phosphoryl]-beta-D-ribofuranosyl}-1H-1,2,4-triazole-3-carboxamide" BROAD []
synonym: "N" BROAD []
synonym: "[[(2R,3S,4R,5R)-5-(3-aminocarbonyl-1,2,4-triazol-1-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl] phosphono hydrogen phosphate" BROAD []
synonym: "pdb-ccd: RTP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@H]1[C@@H](CO[P@@](=O)(O[P@@](=O)(OP(=O)(O)O)O)O)O[C@H]([C@H]1O)n1cnc(n1)C(=O)N
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:rna:RUS
name: 1-(5-o-phosphono-beta-d-ribofuranosyl)-2-selanylpyrimidin-4(1h)-one
synonym: "1-(5-O-phosphono-beta-D-ribofuranosyl)-2-selanylpyrimidin-4(1H)-one" BROAD []
synonym: "[(2R,3S,4R,5R)-3,4-bis(oxidanyl)-5-(4-oxidanylidene-2-selanyl-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: RUS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@@H]1[C@@H](O)[C@H](O[C@H]1n1ccc(=O)nc1[SeH])COP(=O)(O)O
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:RY
name: 5'-3,6-dihydrocytidylic acid
synonym: "5'-3,6-dihydrocytidylic acid" BROAD []
synonym: "[(2~{R},3~{S},4~{R},5~{R})-5-(6-azanyl-2-oxidanylidene-1,4-dihydropyrimidin-3-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: RY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: NC1=CCN(C(=O)N1)[C@@H]1O[C@H]([C@@H]([C@@H]1O)O)COP(=O)(O)O

[Term]
id: BpForms:rna:S2M
name: 2'-o-[2-(methoxy)ethyl]-2-thiothymidine-5'-monophosphate
synonym: "1-[2-O-(2-methoxyethyl)-5-O-phosphono-beta-D-ribofuranosyl]-5-methyl-2-thioxo-2,3-dihydropyrimidin-4(1H)-one" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3R,4R,5R)-3-hydroxy-4-(2-methoxyethoxy)-5-(5-methyl-4-oxo-2-sulfanylidene-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: S2M" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: COCCO[C@@H]1[C@@H](O)[C@H](O[C@H]1n1cc(C)c(=O)[nH]c1=S)COP(=O)([O-])[O-]
l_bond_atoms: P28
l_displaced_atoms: O31-1
r_bond_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:rna:S4C
name: 4'-thio-4'-deoxy-cytosine-5'-monophosphate
synonym: "4'-thiocytidine 5'-(dihydrogen phosphate)" BROAD []
synonym: "C" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-3,4-dihydroxy-thiolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: S4C" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: O[C@H]1[C@@H](O)[C@@H](S[C@H]1n1ccc(nc1=O)N)COP(=O)(O)O

[Term]
id: BpForms:rna:S8M
name: (2~{r},3~{r},4~{s},5~{s})-2-(6-aminopurin-9-yl)-5-[[(3~{s})-3-azanyl-3-(1~{h}-1,2,3,4-tetrazol-5-yl)propyl]sulfanylmethyl]oxolane-3,4-diol
synonym: "(2~{R},3~{R},4~{S},5~{S})-2-(6-aminopurin-9-yl)-5-[[(3~{S})-3-azanyl-3-(1~{H}-1,2,3,4-tetrazol-5-yl)propyl]sulfanylmethyl]oxolane-3,4-diol" BROAD []
synonym: "pdb-ccd: S8M" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@@H]1[C@H](CSCC[C@@H](c2nnn[nH]2)N)O[C@@H]([C@H]1O)n1cnc2c1ncnc2N

[Term]
id: BpForms:rna:SMT
name: 2'-[(methylthio)ethyloxy]-thymidine-5'-monophosphate
synonym: "5-methyl-2'-O-[2-(methylsulfanyl)ethyl]uridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3R,4R,5R)-5-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-4-(2-methylsulfanylethoxy)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: SMT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: CSCCO[C@@H]1[C@H](O)[C@H](O[C@@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)(O)O

[Term]
id: BpForms:rna:SRA
name: adenosine -5'-thio-monophosphate
synonym: "(2R,3R,4S,5R)-2-(6-aminopurin-9-yl)-5-(dihydroxyphosphinothioyloxymethyl)oxolane-3,4-diol" BROAD []
synonym: "5'-O-thiophosphonoadenosine" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: SRA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O[C@H]1[C@H](O)[C@H](O[C@@H]1n1cnc2c1ncnc2N)COP(=S)([O-])[O-]
l_bond_atoms: P24
l_displaced_atoms: O27-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:SSU
name: uridine-5'-phosphorothioate
synonym: "1-[(2R,3R,4S,5R)-5-(dihydroxyphosphinothioyloxymethyl)-3,4-dihydroxy-oxolan-2-yl]pyrimidine-2,4-dione" BROAD []
synonym: "5'-O-thiophosphonouridine" BROAD []
synonym: "U" BROAD []
synonym: "pdb-ccd: SSU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@@H]1[C@H](O)[C@@H](O[C@H]1n1ccc(=O)[nH]c1=O)COP(=S)(O)O
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:SUR
name: 1-(beta-d-ribofuranosyl)-2-thio-uracil-5'-phosphate
synonym: "1-(5-O-phosphono-beta-D-ribofuranosyl)-2-thioxo-2,3-dihydropyrimidin-4(1H)-one" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,4R,5R)-3,4-dihydroxy-5-(4-oxo-2-sulfanylidene-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: SUR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@H]1[C@@H](O)[C@H](O[C@H]1n1ccc(=O)[nH]c1=S)COP(=O)([O-])[O-]
l_bond_atoms: P23
l_displaced_atoms: O26-1

[Term]
id: BpForms:rna:T2T
name: [(2s,3s,5r)-3-[(2s)-3-({[(2r,3s,4r,5r)-3-hydroxy-4-methoxy-5-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)tetrahydrofuran-2-yl]methyl}amino)-2-methyl-3-oxopropyl]-5-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)tetrahydrofuran-2-yl]methyl dihydrogen phosphate
synonym: "N" BROAD []
synonym: "[(2S,3S,5R)-3-[(2S)-3-({[(2R,3R,4R,5R)-3-hydroxy-4-methoxy-5-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)tetrahydrofuran-2-yl]methyl}amino)-2-methyl-3-oxopropyl]-5-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)tetrahydrofuran-2-yl]methyl dihydrogen phosphate (non-preferred name)" BROAD []
synonym: "[(2S,3S,5R)-3-[(2S)-3-[[(2R,3R,4R,5R)-3-hydroxy-4-methoxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methylamino]-2-methyl-3-oxo-propyl]-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: T2T" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: CO[C@H]1[C@@H](O)[C@H](O[C@@H]1n1cc(C)c(=O)[nH]c1=O)CNC(=O)[C@@H](C[C@@H]1C[C@@H](O[C@@H]1COP(=O)([O-])[O-])n1cc(C)c(=O)[nH]c1=O)C
l_bond_atoms: P40
l_displaced_atoms: O43-1
r_bond_atoms: O7
r_displaced_atoms: H7

[Term]
id: BpForms:rna:T38
name: 2'-o-ethoxymethylene thymidine 5'-monophosphate
synonym: "2'-O-(ethoxymethyl)-5-methyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3R,4R,5R)-4-(ethoxymethoxy)-5-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: T38" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: CCOCO[C@@H]1[C@H](O)[C@H](O[C@@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)(O)O

[Term]
id: BpForms:rna:T39
name: 2'-o-methoxyethylene thymidine 5'-monophosphate
synonym: "2'-O-(2-methoxyethyl)-5-methyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3R,4R,5R)-4-(2-methoxyethoxy)-5-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: T39" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: COCCO[C@H]1[C@H](O)[C@@H](O[C@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P28
l_displaced_atoms: O31-1
r_bond_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:rna:T41
name: 1-(2-o-methyl-beta-d-arabinofuranosyl)thymidine 5'-monophosphate
synonym: "5-methyl-1-(2-O-methyl-5-O-phosphono-beta-D-arabinofuranosyl)pyrimidine-2,4(1H,3H)-dione" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3R,4S,5R)-4-methoxy-5-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: T41" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: CO[C@H]1[C@H](O)[C@@H](O[C@H]1n1cc(C)c(=O)[nH]c1=O)COP(=O)(O)O

[Term]
id: BpForms:rna:T6A
name: n-[n-(9-b-d-ribofuranosylpurin-6-yl)carbamoyl]threonine-5'-monophosphate
synonym: "(2S,3R)-2-[[9-[(2R,3R,4S,5R)-3,4-dihydroxy-5-(phosphonooxymethyl)oxolan-2-yl]purin-6-yl]carbamoylamino]-3-hydroxy-butanoic acid" BROAD []
synonym: "(2S,3R)-2-{[(9-{(2R,3R,4S,5R)-3,4-dihydroxy-5-[(phosphonooxy)methyl]tetrahydrofuran-2-yl}-9H-purin-6-yl)carbamoyl]amino}-3-hydroxybutanoic acid (non-preferred name)" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: T6A" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O=C(Nc1ncnc2c1ncn2[C@H]1O[C@@H]([C@H]([C@H]1O)O)COP(=O)([O-])[O-])N[C@@H](C(=O)O)[C@@H](O)C
l_bond_atoms: P26
l_displaced_atoms: O29-1
r_bond_atoms: O23
r_displaced_atoms: H23

[Term]
id: BpForms:rna:TAL
name: 9-(6-deoxy-alpha-l-talofuranosyl)-6-methylpurine
synonym: "(2R,3S,4R,5R)-2-(1-hydroxyethyl)-5-(6-methylpurin-9-yl)oxolane-3,4-diol" BROAD []
synonym: "9-(6-deoxy-alpha-L-talofuranosyl)-6-methyl-9H-purine" BROAD []
synonym: "N" BROAD []
synonym: "pdb-ccd: TAL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: C[C@@H]([C@H]1O[C@H]([C@H]([C@H]1O)O)n1cnc2c1ncnc2C)O

[Term]
id: BpForms:rna:TFE
name: 2'-o-[2-(trifluoro)ethyl] thymidine-5'-monophosphate
synonym: "5-methyl-2'-O-(2,2,2-trifluoroethyl)uridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "T" BROAD []
synonym: "[(2R,3R,4R,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)-4-(2,2,2-trifluoroethoxy)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: TFE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@H]1[C@@H](COP(=O)([O-])[O-])O[C@H]([C@H]1OCC(F)(F)F)n1cc(C)c(=O)[nH]c1=O
l_bond_atoms: P8
l_displaced_atoms: O11-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:rna:TLB
name: 2'-o,3'-c-methylene-arabinofuranosyl-thymine-5'-monophosphate
synonym: "N" BROAD []
synonym: "[(1R,2R,4R,5S)-1-hydroxy-4-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,6-dioxabicyclo[3.2.0]hept-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "[(1R,2R,4R,5S)-1-hydroxy-4-(5-methyl-2,4-dioxo-pyrimidin-1-yl)-3,6-dioxabicyclo[3.2.0]heptan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: TLB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O=c1[nH]c(=O)n(cc1C)[C@H]1O[C@@H]([C@]2([C@H]1OC2)O)COP(=O)(O)O

[Term]
id: BpForms:rna:TLN
name: [(1r,3r,4r,7s)-7-hydroxy-3-(thymin-1-yl)-2,5-dioxabicyclo[2.2.1]hept-1-yl]methyl dihydrogen phosphate
synonym: "1-{2,5-anhydro-4-[(phosphonooxy)methyl]-alpha-L-lyxofuranosyl}-5-methylpyrimidine-2,4(1H,3H)-dione" BROAD []
synonym: "U" BROAD []
synonym: "[(1R,4R,5R,7S)-7-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)-3,6-dioxabicyclo[2.2.1]heptan-1-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: TLN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@@H]1[C@H]2OC[C@]1(COP(=O)([O-])[O-])O[C@H]2n1cc(C)c(=O)[nH]c1=O
l_bond_atoms: P11
l_displaced_atoms: O14-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:rna:TPG
name: 2,2,7-trimethyl-guanosine-5'-triphosphate-5'-guanosine
synonym: "G" BROAD []
synonym: "[[[(2R,3S,4R,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl]oxy-hydroxy-phosphoryl] [(2R,3S,4R,5R)-5-(2-dimethylamino-7-methyl-6-oxo-1,8-dihydropurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl hydrogen phosphate" BROAD []
synonym: "pdb-ccd: TPG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: Nc1[nH]c(=O)c2c(n1)n(cn2)[C@H]1O[C@@H]([C@H]([C@H]1O)O)CO[P@@](=O)(O[P@@](=O)(O[P@@](=O)(OC[C@H]1O[C@@H]([C@H]([C@H]1O)O)N1CN(c2c1nc([nH]c2=O)N(C)C)C)O)O)O

[Term]
id: BpForms:rna:TYU
name: tetrahydrouridine
synonym: "(4R)-1-[(2R,3R,4S,5R)-3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]-4-hydroxy-1,3-diazinan-2-one" BROAD []
synonym: "(4R)-4-hydroxy-1-beta-D-ribofuranosyltetrahydropyrimidin-2(1H)-one" BROAD []
synonym: "N" BROAD []
synonym: "pdb-ccd: TYU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: OC[C@H]1O[C@H]([C@H]([C@H]1O)O)N1CC[C@@H](NC1=O)O

[Term]
id: BpForms:rna:U2L
name: 5-methyl-3'-o-methoxyethyl uridine-5'-monophosphate
synonym: "3'-O-(2-methoxyethyl)-5-methyluridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,4R,5R)-4-hydroxy-3-(2-methoxyethoxy)-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: U2L" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: COCCO[C@@H]1[C@@H](COP(=O)([O-])[O-])O[C@@H]([C@@H]1O)n1cc(C)c(=O)[nH]c1=O
l_bond_atoms: P12
l_displaced_atoms: O14-1

[Term]
id: BpForms:rna:U2P
name: phosphoric acid mono-[2-(2,4-dioxo-3,4-dihydro-2h-pyrimidin-1-yl)-4-hydroxy-5-hydroxymethyl-tetrahydro-furan-3-yl] ester
synonym: "2'-uridylic acid" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3R,4R,5R)-2-(2,4-dioxopyrimidin-1-yl)-4-hydroxy-5-(hydroxymethyl)oxolan-3-yl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: U2P" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: OC[C@H]1O[C@H]([C@H]([C@H]1O)OP(=O)(O)O)n1ccc(=O)[nH]c1=O

[Term]
id: BpForms:rna:U31
name: 2'-o-3-aminopropyl 2'-deoxyuridine-5'-monophosphate
synonym: "2'-O-(3-aminopropyl)uridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3R,4R,5R)-4-(3-aminopropoxy)-5-(2,4-dioxopyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: U31" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: NCCCO[C@@H]1[C@H](O)[C@H](O[C@@H]1n1ccc(=O)[nH]c1=O)COP(=O)(O)O

[Term]
id: BpForms:rna:U34
name: uridine 5'-monomethylphosphate
synonym: "1-[(6S)-5-deoxy-6-C-phosphono-beta-D-ribo-hexofuranosyl]pyrimidine-2,4(1H,3H)-dione" BROAD []
synonym: "U" BROAD []
synonym: "[2-[(2R,3S,4R,5R)-5-(2,4-dioxopyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]-1-hydroxy-ethyl]phosphonic acid" BROAD []
synonym: "pdb-ccd: U34" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1n1ccc(=O)[nH]c1=O)C[C@H](P(=O)(O)O)O

[Term]
id: BpForms:rna:U36
name: 2'-o-methyoxyethyl-uridine-5'-monophosphate
synonym: "2'-O-(2-methoxyethyl)uridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3R,4R,5R)-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-4-(2-methoxyethoxy)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: U36" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: COCCO[C@@H]1[C@H](O)[C@H](O[C@@H]1n1ccc(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P27
l_displaced_atoms: O30-1

[Term]
id: BpForms:rna:U37
name: uridine 5'-monothiophosphate
synonym: "5'-O-thiophosphonouridine" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(2,4-dioxopyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-sulfanyl-phosphinic acid" BROAD []
synonym: "pdb-ccd: U37" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1n1ccc(=O)[nH]c1=O)CO[P@](=O)(S)O

[Term]
id: BpForms:rna:U4M
name: 1-{2,5-dideoxy-2-fluoro-4-[(phosphonooxy)methyl]-alpha-l-lyxofuranosyl}pyrimidine-2,4(1h,3h)-dione
synonym: "1-{2,5-dideoxy-2-fluoro-4-[(phosphonooxy)methyl]-alpha-L-lyxofuranosyl}pyrimidine-2,4(1H,3H)-dione" BROAD []
synonym: "[(2~{R},3~{R},4~{R},5~{R})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-4-fluoranyl-2-methyl-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: U4M" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: F[C@@H]1[C@H](O[C@@]([C@@H]1O)(C)CO[P@@](=O)(O)[O-])n1ccc(=O)[nH]c1=O

[Term]
id: BpForms:rna:U5M
name: 1-(2,6-dideoxy-2-fluoro-5-o-phosphono-alpha-l-talofuranosyl)pyrimidine-2,4(1h,3h)-dione
synonym: "1-(2,6-dideoxy-2-fluoro-5-O-phosphono-alpha-L-talofuranosyl)pyrimidine-2,4(1H,3H)-dione" BROAD []
synonym: "[(1S)-1-[(2S,3R,4R,5R)-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-4-fluoranyl-3-oxidanyl-oxolan-2-yl]ethyl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: U5M" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: C[C@H]([C@H]1O[C@@H]([C@H]([C@H]1O)F)n1ccc(=O)[nH]c1=O)OP(=O)(O)O

[Term]
id: BpForms:rna:UAR
name: uracil arabinose-5'-phosphate
synonym: "1-(5-O-phosphono-beta-D-arabinofuranosyl)pyrimidine-2,4(1H,3H)-dione" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,4S,5R)-5-(2,4-dioxopyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: UAR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1n1ccc(=O)[nH]c1=O)COP(=O)([O-])[O-]
l_bond_atoms: P23
l_displaced_atoms: O25-1
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:UBD
name: uridine 3',5'-bis(dihydrogen phosphate)
synonym: "U" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(2,4-dioxopyrimidin-1-yl)-4-hydroxy-3-phosphonooxy-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: UBD" EXACT []
synonym: "uridine 3',5'-bis(dihydrogen phosphate)" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@H]1[C@H](OP(=O)(O)O)[C@H](O[C@@H]1n1ccc(=O)[nH]c1=O)COP(=O)(O)O

[Term]
id: BpForms:rna:UD5
name: 5-fluorouridine
synonym: "5'-O-(dihydroxyphosphanyl)-5-fluorouridine" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(5-fluoro-2,4-dioxo-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphite" BROAD []
synonym: "pdb-ccd: UD5" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: OP(OC[C@H]1O[C@@H]([C@@H]([C@@H]1O)O)n1cc(F)c(=O)[nH]c1=O)O

[Term]
id: BpForms:rna:UDP
name: uridine-5'-diphosphate
synonym: "N" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(2,4-dioxopyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl phosphono hydrogen phosphate" BROAD []
synonym: "pdb-ccd: UDP" EXACT []
synonym: "uridine 5'-(trihydrogen diphosphate)" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@@H]1[C@H](CO[P@](=O)(OP(=O)(O)O)O)O[C@H]([C@H]1O)n1ccc(=O)[nH]c1=O
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:rna:UFB
name: 2'-f,4'-beta-ome uridine 5'-(dihydrogen phosphate)
synonym: "[(2S,3R,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-4-fluoro-3-hydroxy-2-methoxytetrahydrofuran-2-yl]methyl dihydrogen phosphate (non-preferred name)" BROAD []
synonym: "[(2~{S},3~{R},4~{R},5~{R})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-4-fluoranyl-2-methoxy-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: UFB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: CO[C@@]1(CO[P@](=O)(O)[O-])O[C@H]([C@H]([C@@H]1O)F)n1ccc(=O)[nH]c1=O

[Term]
id: BpForms:rna:UOA
name: [(2r,3s,4r,5r)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)-3-hydroxy-2,4-dimethoxytetrahydrofuran-2-yl]methyl dihydrogen phosphate (non-preferred name)
synonym: "[(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3-hydroxy-2,4-dimethoxytetrahydrofuran-2-yl]methyl dihydrogen phosphate (non-preferred name)" BROAD []
synonym: "[(2~{R},3~{S},4~{R},5~{R})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-2,4-dimethoxy-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: UOA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: CO[C@H]1[C@@H](O[C@@]([C@@H]1O)(OC)CO[P@](=O)(O)[O-])n1ccc(=O)[nH]c1=O

[Term]
id: BpForms:rna:UOB
name: 2'-ome,4'beta-ome uridine 5'-(dihydrogen phosphate)
synonym: "[(2S,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3-hydroxy-2,4-dimethoxytetrahydrofuran-2-yl]methyl dihydrogen phosphate (non-preferred name)" BROAD []
synonym: "[(2~{S},3~{S},4~{R},5~{R})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-2,4-dimethoxy-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: UOB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: CO[C@@H]1[C@H](O[C@]([C@H]1O)(OC)CO[P@](=O)(O)[O-])n1ccc(=O)[nH]c1=O

[Term]
id: BpForms:rna:UPV
name: 2'-o-{[(2,2-dimethylpropanoyl)oxy]methyl}uridine 5'-(dihydrogen phosphate)
synonym: "2'-O-{[(2,2-dimethylpropanoyl)oxy]methyl}uridine 5'-(dihydrogen phosphate)" BROAD []
synonym: "[(2R,3R,4R,5R)-2-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-4-oxidanyl-5-(phosphonooxymethyl)oxolan-3-yl]oxymethyl 2,2-dimethylpropanoate" BROAD []
synonym: "pdb-ccd: UPV" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@H]1[C@H](COP(=O)([O-])[O-])O[C@@H]([C@H]1OCOC(=O)C(C)(C)C)n1ccc(=O)[nH]c1=O
l_bond_atoms: P8
l_displaced_atoms: O10-1
r_bond_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:rna:URD
name: 1-((2r,3r,4s,5r)-tetrahydro-3,4-dihydroxy-5-(hydroxymethyl)furan-2-yl)pyridine-2,4(1h,3h)-dione
synonym: "1-[(2R,3R,4S,5R)-3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]pyridine-2,4-dione" BROAD []
synonym: "1-beta-D-ribofuranosylpyridine-2,4(1H,3H)-dione" BROAD []
synonym: "U" BROAD []
synonym: "pdb-ccd: URD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: OC[C@H]1O[C@H]([C@H]([C@H]1O)O)N1C=CC(=O)CC1=O
r_bond_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:rna:URU
name: ((2s,3s,4r,5r)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)-3-(2- ((((2r,5r)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)- 3,4-dihydroxytetrahydrofuran-2-yl)methyl)amino)-2-oxoethyl)-4- hydroxytetrahydrofuran-2-yl)methyl phosphate
synonym: "[(2S,3S,4R,5R)-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3-[2-[[(2R,3S,4R,5R)-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methylamino]-2-oxidanylidene-ethyl]-4-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: URU" EXACT []
synonym: "{(2S,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3-[2-({[(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl}amino)-2-oxoethyl]-4-hydroxytetrahydrofuran-2-yl}methyl dihydrogen phosphate (non-preferred name)" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O=C(C[C@@H]1[C@@H](COP(=O)(O)O)O[C@@H]([C@H]1O)n1ccc(=O)[nH]c1=O)NC[C@H]1O[C@@H]([C@@H]([C@@H]1O)O)n1ccc(=O)[nH]c1=O

[Term]
id: BpForms:rna:US5
name: 1-(5-o-phosphono-beta-d-ribofuranosyl)-4-selanylpyrimidin-2(1h)-one
synonym: "1-(5-O-phosphono-beta-D-ribofuranosyl)-4-selanylpyrimidin-2(1H)-one" BROAD []
synonym: "U" BROAD []
synonym: "[(2R,3S,4R,5R)-3,4-dihydroxy-5-(2-oxo-4-selanyl-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: US5" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@H]1[C@@H](O)[C@H](O[C@H]1n1ccc(nc1=O)[SeH])CO[P@@](=O)(O)[O-]
r_bond_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:rna:XTS
name: 9-[(2r,3r,4s,5r)-3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]-3h-purine-2,6-dione
synonym: "9-[(2S,3R,4S,5R)-3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]-3H-purine-2,6-dione" BROAD []
synonym: "G" BROAD []
synonym: "pdb-ccd: XTS" EXACT []
synonym: "xanthosine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: OC[C@@H]1O[C@@H]([C@@H]([C@@H]1O)O)n1cnc2c1[nH]c(=O)[nH]c2=O
r_bond_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:rna:Y5P
name: 1-(5-o-phosphono-beta-d-ribofuranosyl)-1,4-dihydropyrimidine
synonym: "1-(5-O-phosphono-beta-D-ribofuranosyl)-1,4-dihydropyrimidine" BROAD []
synonym: "[(2R,3S,4R,5R)-3,4-bis(oxidanyl)-5-(4H-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: Y5P" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@@H]1[C@H](O)[C@H](O[C@@H]1N1C=CCN=C1)COP(=O)(O)O

[Term]
id: BpForms:rna:ZAD
name: (s)-1'-(2',3'-dihydroxypropyl)-adenine
synonym: "(2S)-3-(6-amino-9H-purin-9-yl)-2-hydroxypropyl dihydrogen phosphate" BROAD []
synonym: "A" BROAD []
synonym: "[(2S)-3-(6-aminopurin-9-yl)-2-hydroxy-propyl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: ZAD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:A ! adenosine
structure: O[C@@H](Cn1cnc2c1ncnc2N)COP(=O)(O)O

[Term]
id: BpForms:rna:ZBC
name: (2s)-3-(4-amino-5-bromo-2-oxopyrimidin-1(2h)-yl)-2-hydroxypropyl dihydrogen phosphate
synonym: "(2S)-3-(4-amino-5-bromo-2-oxopyrimidin-1(2H)-yl)-2-hydroxypropyl dihydrogen phosphate" BROAD []
synonym: "C" BROAD []
synonym: "[(2S)-3-(4-amino-5-bromo-2-oxo-pyrimidin-1-yl)-2-hydroxy-propyl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: ZBC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: O[C@H](Cn1cc(Br)c(nc1=O)N)COP(=O)(O)O

[Term]
id: BpForms:rna:ZBU
name: (s)-1'-(2',3'-dihydroxypropyl)-5-bromo-uracil
synonym: "(2S)-3-(5-bromo-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-2-hydroxypropyl dihydrogen phosphate" BROAD []
synonym: "U" BROAD []
synonym: "[(2S)-3-(5-bromo-2,4-dioxo-pyrimidin-1-yl)-2-hydroxy-propyl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: ZBU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:U ! uridine
structure: O[C@@H](Cn1cc(Br)c(=O)[nH]c1=O)COP(=O)(O)O

[Term]
id: BpForms:rna:ZCY
name: (s)-1'-(2',3'-dihydroxypropyl)-cytosine
synonym: "(2S)-3-(4-amino-2-oxopyrimidin-1(2H)-yl)-2-hydroxypropyl dihydrogen phosphate" BROAD []
synonym: "C" BROAD []
synonym: "[(2S)-3-(4-amino-2-oxo-pyrimidin-1-yl)-2-hydroxy-propyl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: ZCY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: O[C@H](Cn1ccc(nc1=O)N)COP(=O)(O)O

[Term]
id: BpForms:rna:ZGU
name: (s)-1'-(2',3'-dihydroxypropyl)-guanine
synonym: "(2S)-3-(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)-2-hydroxypropyl dihydrogen phosphate" BROAD []
synonym: "G" BROAD []
synonym: "[(2S)-3-(2-amino-6-oxo-1H-purin-9-yl)-2-hydroxy-propyl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: ZGU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: O[C@@H](Cn1cnc2c1nc(N)[nH]c2=O)COP(=O)(O)O

[Term]
id: BpForms:rna:ZHP
name: (s)-1'-(2',3'-dihydroxypropyl)-hydroxypyridone
synonym: "(2S)-2-hydroxy-3-(3-hydroxy-2-methyl-4-oxopyridin-1(4H)-yl)propyl dihydrogen phosphate" BROAD []
synonym: "N" BROAD []
synonym: "[(2S)-2-hydroxy-3-(3-hydroxy-2-methyl-4-oxo-pyridin-1-yl)propyl] dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: ZHP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@@H](Cn1ccc(=O)c(c1C)O)COP(=O)(O)O

[Term]
id: BpForms:rna:9V9
name: 1-{2,5-anhydro-4-[(phosphonooxy)methyl]-alpha-l-lyxofuranosyl}-5-methyl-2-sulfanylidene-2,3-dihydropyrimidin-4(1h)-one
synonym: "1-{2,5-anhydro-4-[(phosphonooxy)methyl]-alpha-L-lyxofuranosyl}-5-methyl-2-sulfanylidene-2,3-dihydropyrimidin-4(1H)-one" BROAD []
synonym: "[(1~{R},3~{R},4~{R},7~{S})-3-(5-methyl-4-oxidanylidene-2-sulfanylidene-pyrimidin-1-yl)-7-oxidanyl-2,5-dioxabicyclo[2.2.1]heptan-1-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: 9V9" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
structure: O[C@@H]1[C@@H]2OC[C@@]1(COP(=O)(O)O)O[C@H]2n1cc(C)c(=O)[nH]c1=S

[Term]
id: BpForms:rna:JMH
name: 3-methylcytidine- 5'-monophosphate
synonym: "C" BROAD []
synonym: "[(2~{R},3~{S},4~{R},5~{R})-5-(4-azanylidene-3-methyl-2-oxidanylidene-pyrimidin-1-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" BROAD []
synonym: "pdb-ccd: JMH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: O[C@@H]1[C@@H](O)[C@@H](O[C@H]1n1ccc(=N)n(c1=O)C)COP(=O)(O)O

[Term]
id: BpForms:rna:TC
name: 4-azanyl-1-[(2~{r},3~{r},4~{s})-3-oxidanyl-4-[oxidanyl-bis(oxidanylidene)-$l^{6}-phosphanyl]oxy-oxolan-2-yl]pyrimidin-2-one
synonym: "4-azanyl-1-[(2~{R},3~{R},4~{S})-3-oxidanyl-4-[oxidanyl-bis(oxidanylidene)-$l^{6}-phosphanyl]oxy-oxolan-2-yl]pyrimidin-2-one" BROAD []
synonym: "pdb-ccd: TC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:C ! cytidine
structure: O[C@@H]1[C@H](CO[C@@H]1n1ccc(nc1=O)N)OP(=O)(=O)O

[Term]
id: BpForms:rna:TG
name: 2-azanyl-9-[(2~{r},3~{r},4~{s})-3-oxidanyl-4-[oxidanyl-bis(oxidanylidene)-$l^{6}-phosphanyl]oxy-oxolan-2-yl]-1~{h}-purin-6-one
synonym: "2-azanyl-9-[(2~{R},3~{R},4~{S})-3-oxidanyl-4-[oxidanyl-bis(oxidanylidene)-$l^{6}-phosphanyl]oxy-oxolan-2-yl]-1~{H}-purin-6-one" BROAD []
synonym: "pdb-ccd: TG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:rna ! RNA nucleotide monophosphates
relationship: derives_from BpForms:rna:G ! guanosine
structure: O[C@H]1[C@@H](CO[C@@H]1n1cnc2c1nc(N)[nH]c2=O)OP(=O)(=O)O

[Term]
id: BpForms:protein
name: Protein amino acids
def: "The canonical protein amino acids, plus non-canonical amino acids based on <a href="http://www.wwpdb.org/data/ccd">PDB Chemical Component Dictionary</a> and <a href="https://pir.georgetown.edu/resid">RESID</a>" []
is_a: BpForms:alphabet ! alphabet

[Term]
id: BpForms:protein:A
name: L-alanine
synonym: "(2S)-2-aminopropanoic acid" BROAD []
synonym: "(S)-2-Amino-3-phenylpropionic acid" BROAD []
synonym: "(S)-alpha-Amino-beta-phenylpropionic acid" BROAD []
synonym: "3-phenyl-L-alanine" BROAD []
synonym: "A" BROAD []
synonym: "L-alanine" BROAD []
synonym: "alanine" BROAD []
synonym: "chebi: CHEBI:16977" EXACT []
synonym: "chebi: CHEBI:46217" EXACT []
synonym: "metacyc.compound: L-ALPHA-ALANINE" EXACT []
synonym: "pdb-ccd: ALA" EXACT []
synonym: "pubchem.compound: 5950" EXACT []
synonym: "resid: AA0001" EXACT []
synonym: "β-phenyl-L-alanine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: C[C@H]([NH3+])C(=O)O
l_bond_atoms: N4-1
l_displaced_atoms: H4
l_displaced_atoms: H4+1
r_bond_atoms: C8
r_displaced_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:protein:R
name: L-arginine
synonym: "(S)-2-Amino-3-phenylpropionic acid" BROAD []
synonym: "(S)-alpha-Amino-beta-phenylpropionic acid" BROAD []
synonym: "3-phenyl-L-alanine" BROAD []
synonym: "R" BROAD []
synonym: "[amino-[[(4S)-4-amino-5-hydroxy-5-oxo-pentyl]amino]methylidene]azanium" BROAD []
synonym: "amino{[(4S)-4-amino-4-carboxybutyl]amino}methaniminium" BROAD []
synonym: "arginine" BROAD []
synonym: "chebi: CHEBI:16467" EXACT []
synonym: "chebi: CHEBI:29952" EXACT []
synonym: "metacyc.compound: ARG" EXACT []
synonym: "pdb-ccd: ARG" EXACT []
synonym: "pubchem.compound: 6322" EXACT []
synonym: "resid: AA0002" EXACT []
synonym: "β-phenyl-L-alanine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: OC(=O)[C@H](CCCNC(=[NH2+])N)[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15+1
l_displaced_atoms: H15
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:N
name: L-asparagine
synonym: "(2S)-2,4-bis(azanyl)-4-oxidanylidene-butanoic acid" BROAD []
synonym: "(2S)-2,4-diamino-4-oxobutanoic acid" BROAD []
synonym: "(2S)-2-amino-3-carbamoylpropanoic acid" BROAD []
synonym: "(S)-2-amino-3-carbamoylpropanoic acid" BROAD []
synonym: "(S)-Asparagine" BROAD []
synonym: "2-Aminosuccinamic acid" BROAD []
synonym: "Aspartamic acid" BROAD []
synonym: "L-2-aminosuccinamic acid" BROAD []
synonym: "L-Asparagin" BROAD []
synonym: "L-Asparagine" BROAD []
synonym: "L-asparagine" BROAD []
synonym: "L-aspartic acid beta-amide" BROAD []
synonym: "N" BROAD []
synonym: "alpha-aminosuccinamic acid" BROAD []
synonym: "asparagine" BROAD []
synonym: "chebi: CHEBI:17196" EXACT []
synonym: "chebi: CHEBI:50347" EXACT []
synonym: "metacyc.compound: ASN" EXACT []
synonym: "pdb-ccd: ASN" EXACT []
synonym: "pubchem.compound: 6267" EXACT []
synonym: "resid: AA0003" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: NC(=O)C[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N10-1
l_displaced_atoms: H10+1
l_displaced_atoms: H10
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:D
name: L-aspartic acid
synonym: "(2S)-2-azanylbutanedioic acid" BROAD []
synonym: "(S)-2-aminobutanedioic acid" BROAD []
synonym: "(S)-2-aminosuccinic acid" BROAD []
synonym: "2-Aminosuccinic acid" BROAD []
synonym: "D" BROAD []
synonym: "L-Asparaginsaeure" BROAD []
synonym: "L-aspartic acid" BROAD []
synonym: "aspartic acid" BROAD []
synonym: "chebi: CHEBI:17053" EXACT []
synonym: "chebi: CHEBI:29958" EXACT []
synonym: "metacyc.compound: ASP" EXACT []
synonym: "pdb-ccd: ASP" EXACT []
synonym: "pubchem.compound: 5960" EXACT []
synonym: "resid: AA0004" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: O=C[C@H](CC(=O)[O-])[NH3+]
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:C
name: L-cysteine
synonym: "(2R)-2-amino-3-mercaptopropanoic acid" BROAD []
synonym: "(2R)-2-amino-3-sulfanylpropanoic acid" BROAD []
synonym: "(R)-2-amino-3-mercaptopropanoic acid" BROAD []
synonym: "E 920" BROAD []
synonym: "E-920" BROAD []
synonym: "E920" BROAD []
synonym: "L-2-Amino-3-mercaptopropionic acid" BROAD []
synonym: "L-Zystein" BROAD []
synonym: "chebi: CHEBI:17561" EXACT []
synonym: "chebi: CHEBI:29950" EXACT []
synonym: "metacyc.compound: CYS" EXACT []
synonym: "pubchem.compound: 5862" EXACT []
synonym: "resid: AA0005" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: OC(=O)[C@@H]([NH3+])CS
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:Q
name: L-glutamine
synonym: "(2S)-2,5-diamino-5-oxo-pentanoic acid" BROAD []
synonym: "(2S)-2,5-diamino-5-oxopentanoic acid" BROAD []
synonym: "(2S)-2-amino-4-carbamoylbutanoic acid" BROAD []
synonym: "(S)-2,5-diamino-5-oxopentanoic acid" BROAD []
synonym: "Glutamic acid 5-amide" BROAD []
synonym: "Glutamic acid amide" BROAD []
synonym: "L-(+)-glutamine" BROAD []
synonym: "L-2-Aminoglutaramic acid" BROAD []
synonym: "L-2-aminoglutaramic acid" BROAD []
synonym: "L-Glutaminsaeure-5-amid" BROAD []
synonym: "L-glutamic acid gamma-amide" BROAD []
synonym: "L-glutamine" BROAD []
synonym: "Levoglutamide" BROAD []
synonym: "Q" BROAD []
synonym: "chebi: CHEBI:18050" EXACT []
synonym: "chebi: CHEBI:30011" EXACT []
synonym: "glutamine" BROAD []
synonym: "metacyc.compound: GLN" EXACT []
synonym: "pdb-ccd: GLN" EXACT []
synonym: "pubchem.compound: 5961" EXACT []
synonym: "resid: AA0007" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: NC(=O)CC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:protein:E
name: L-glutamic acid
synonym: "(2S)-2-azanylpentanedioic acid" BROAD []
synonym: "(S)-2-aminopentanedioic acid" BROAD []
synonym: "(S)-glutamic acid" BROAD []
synonym: "E" BROAD []
synonym: "Glutamate" BROAD []
synonym: "L-Glutaminic acid" BROAD []
synonym: "L-Glutaminsaeure" BROAD []
synonym: "L-glutamic acid" BROAD []
synonym: "chebi: CHEBI:16015" EXACT []
synonym: "chebi: CHEBI:29972" EXACT []
synonym: "glutamic acid" BROAD []
synonym: "metacyc.compound: GLU" EXACT []
synonym: "pdb-ccd: GLU" EXACT []
synonym: "pubchem.compound: 33032" EXACT []
synonym: "resid: AA0006" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: O=C[C@H](CCC(=O)[O-])[NH3+]
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:G
name: glycine
synonym: "Aminoacetic acid" BROAD []
synonym: "aminoethanoic acid" BROAD []
synonym: "chebi: CHEBI:15428" EXACT []
synonym: "chebi: CHEBI:29947" EXACT []
synonym: "metacyc.compound: GLY" EXACT []
synonym: "pubchem.compound: 750" EXACT []
synonym: "resid: AA0008" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: OC(=O)C[NH3+]
l_bond_atoms: N5-1
l_displaced_atoms: H5
l_displaced_atoms: H5+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:H
name: L-histidine
synonym: "(2S)-2-amino-3-(1H-imidazol-3-ium-4-yl)propanoic acid" BROAD []
synonym: "(S)-4-(2-Amino-2-carboxyethyl)imidazole" BROAD []
synonym: "(S)-alpha-Amino-1H-imidazole-4-propionic acid" BROAD []
synonym: "(S)-alpha-amino-1H-Imidazole-4-propanoic acid" BROAD []
synonym: "3-(1H-imidazol-3-ium-4-yl)-L-alanine" BROAD []
synonym: "H" BROAD []
synonym: "L-(-)-histidine" BROAD []
synonym: "chebi: CHEBI:15971" EXACT []
synonym: "chebi: CHEBI:29979" EXACT []
synonym: "histidine" BROAD []
synonym: "metacyc.compound: HIS" EXACT []
synonym: "pdb-ccd: HIS" EXACT []
synonym: "pubchem.compound: 33032" EXACT []
synonym: "resid: AA0009" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: OC(=O)[C@@H]([NH3+])Cc1cnc[nH]1
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:I
name: L-isoleucine
synonym: "(2S,3S)-2-amino-3-methyl-pentanoic acid" BROAD []
synonym: "(2S,3S)-2-amino-3-methylpentanoic acid" BROAD []
synonym: "2-Amino-3-methylvaleric acid" BROAD []
synonym: "I" BROAD []
synonym: "L-isoleucine" BROAD []
synonym: "alpha-amino-beta-methylvaleric acid" BROAD []
synonym: "chebi: CHEBI:17191" EXACT []
synonym: "chebi: CHEBI:30009" EXACT []
synonym: "isoleucine" BROAD []
synonym: "metacyc.compound: ILE" EXACT []
synonym: "pdb-ccd: ILE" EXACT []
synonym: "pubchem.compound: 6306" EXACT []
synonym: "resid: AA0010" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CC[C@@H]([C@@H](C(=O)O)[NH3+])C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:L
name: L-leucine
synonym: "(2S)-2-amino-4-methyl-pentanoic acid" BROAD []
synonym: "(2S)-2-amino-4-methylpentanoic acid" BROAD []
synonym: "(2S)-alpha-2-Amino-4-methylvaleric acid" BROAD []
synonym: "(2S)-alpha-Leucine" BROAD []
synonym: "(S)-(+)-leucine" BROAD []
synonym: "(S)-leucine" BROAD []
synonym: "2-Amino-4-methylvaleric acid" BROAD []
synonym: "L" BROAD []
synonym: "L-leucine" BROAD []
synonym: "chebi: CHEBI:15603" EXACT []
synonym: "chebi: CHEBI:30006" EXACT []
synonym: "leucine" BROAD []
synonym: "metacyc.compound: LEU" EXACT []
synonym: "pdb-ccd: LEU" EXACT []
synonym: "pubchem.compound: 6106" EXACT []
synonym: "resid: AA0011" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@H](C(=O)O)CC(C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:K
name: L-lysine
synonym: "6-ammonio-L-norleucine" BROAD []
synonym: "K" BROAD []
synonym: "[(5S)-5-amino-6-hydroxy-6-oxo-hexyl]azanium" BROAD []
synonym: "chebi: CHEBI:18019" EXACT []
synonym: "chebi: CHEBI:29967" EXACT []
synonym: "lysine" BROAD []
synonym: "metacyc.compound: LYS" EXACT []
synonym: "pdb-ccd: LYS" EXACT []
synonym: "pubchem.compound: 5962" EXACT []
synonym: "resid: AA0012" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]CCCC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:protein:M
name: L-methionine
synonym: "(2S)-2-amino-4-(methylsulfanyl)butanoic acid" BROAD []
synonym: "(2S)-2-amino-4-methylsulfanyl-butanoic acid" BROAD []
synonym: "(S)-2-amino-4-(methylthio)butanoic acid" BROAD []
synonym: "(S)-2-amino-4-(methylthio)butyric acid" BROAD []
synonym: "(S)-methionine" BROAD []
synonym: "L-(-)-methionine" BROAD []
synonym: "L-alpha-amino-gamma-methylmercaptobutyric acid" BROAD []
synonym: "L-methionine" BROAD []
synonym: "M" BROAD []
synonym: "chebi: CHEBI:16044" EXACT []
synonym: "chebi: CHEBI:16643" EXACT []
synonym: "metacyc.compound: MET" EXACT []
synonym: "methionine" BROAD []
synonym: "pdb-ccd: MET" EXACT []
synonym: "pubchem.compound: 6137" EXACT []
synonym: "resid: AA0013" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CSCC[C@H]([NH3+])C(=O)O
l_bond_atoms: N7-1
l_displaced_atoms: H7
l_displaced_atoms: H7+1
r_bond_atoms: C11
r_displaced_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:protein:F
name: L-phenylalanine
synonym: "(2S)-2-amino-3-phenyl-propanoic acid" BROAD []
synonym: "(S)-2-Amino-3-phenylpropionic acid" BROAD []
synonym: "(S)-alpha-Amino-beta-phenylpropionic acid" BROAD []
synonym: "3-phenyl-L-alanine" BROAD []
synonym: "F" BROAD []
synonym: "L-phenylalanine" BROAD []
synonym: "chebi: CHEBI:17295" EXACT []
synonym: "chebi: CHEBI:29997" EXACT []
synonym: "metacyc.compound: PHE" EXACT []
synonym: "pdb-ccd: PHE" EXACT []
synonym: "phenylalanine" BROAD []
synonym: "pubchem.compound: 22848660" EXACT []
synonym: "resid: AA0014" EXACT []
synonym: "β-phenyl-L-alanine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@H](C(=O)O)Cc1ccccc1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:P
name: L-proline
synonym: "(-)-(S)-proline" BROAD []
synonym: "(-)-2-pyrrolidinecarboxylic acid" BROAD []
synonym: "(-)-proline" BROAD []
synonym: "(2S)-pyrrolidine-2-carboxylic acid" BROAD []
synonym: "(S)-2-carboxypyrrolidine" BROAD []
synonym: "(S)-2-pyrrolidinecarboxylic acid" BROAD []
synonym: "(S)-pyrrolidine-2-carboxylic acid" BROAD []
synonym: "2-Pyrrolidinecarboxylic acid" BROAD []
synonym: "L-(-)-proline" BROAD []
synonym: "L-alpha-pyrrolidinecarboxylic acid" BROAD []
synonym: "L-proline" BROAD []
synonym: "L-pyrrolidine-2-carboxylic acid" BROAD []
synonym: "P" BROAD []
synonym: "chebi: CHEBI:17203" EXACT []
synonym: "chebi: CHEBI:50342" EXACT []
synonym: "metacyc.compound: PRO" EXACT []
synonym: "pdb-ccd: PRO" EXACT []
synonym: "proline" BROAD []
synonym: "pubchem.compound: 145742" EXACT []
synonym: "resid: AA0015" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: OC(=O)[C@@H]1CCC[NH2+]1
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:S
name: L-serine
synonym: "(2S)-2-amino-3-hydroxy-propanoic acid" BROAD []
synonym: "(2S)-2-amino-3-hydroxypropanoic acid" BROAD []
synonym: "(S)-(-)-serine" BROAD []
synonym: "(S)-2-amino-3-hydroxypropanoic acid" BROAD []
synonym: "(S)-alpha-Amino-beta-hydroxypropionic acid" BROAD []
synonym: "(S)-serine" BROAD []
synonym: "L-(-)-serine; beta-Hydroxyalanine" BROAD []
synonym: "L-2-Amino-3-hydroxypropionic acid" BROAD []
synonym: "L-3-Hydroxy-2-aminopropionic acid" BROAD []
synonym: "L-3-Hydroxy-alanine" BROAD []
synonym: "L-serine" BROAD []
synonym: "S" BROAD []
synonym: "beta-Hydroxy-L-alanine" BROAD []
synonym: "chebi: CHEBI:17115" EXACT []
synonym: "chebi: CHEBI:29999" EXACT []
synonym: "metacyc.compound: SER" EXACT []
synonym: "pdb-ccd: SER" EXACT []
synonym: "pubchem.compound: 5951" EXACT []
synonym: "resid: AA0016" EXACT []
synonym: "serine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: OC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N8-1
l_displaced_atoms: H8
l_displaced_atoms: H8+1
r_bond_atoms: C5
r_displaced_atoms: O7
r_displaced_atoms: H7

[Term]
id: BpForms:protein:T
name: L-threonine
synonym: "(2S)-threonine" BROAD []
synonym: "(2S,3R)-(-)-Threonine" BROAD []
synonym: "(2S,3R)-2-amino-3-hydroxy-butanoic acid" BROAD []
synonym: "(2S,3R)-2-amino-3-hydroxybutanoic acid" BROAD []
synonym: "2-Amino-3-hydroxybutyric acid" BROAD []
synonym: "L-(-)-Threonine" BROAD []
synonym: "L-2-Amino-3-hydroxybutyric acid" BROAD []
synonym: "L-alpha-amino-beta-hydroxybutyric acid" BROAD []
synonym: "L-threonine" BROAD []
synonym: "T" BROAD []
synonym: "chebi: CHEBI:16857" EXACT []
synonym: "chebi: CHEBI:30013" EXACT []
synonym: "metacyc.compound: THR" EXACT []
synonym: "pdb-ccd: THR" EXACT []
synonym: "pubchem.compound: 6288" EXACT []
synonym: "resid: AA0017" EXACT []
synonym: "threonine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: C[C@H]([C@@H](C(=O)O)[NH3+])O
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8
r_displaced_atoms: H8

[Term]
id: BpForms:protein:W
name: L-tryptophan
synonym: "(2S)-2-amino-3-(1H-indol-3-yl)propanoic acid" BROAD []
synonym: "(S)-alpha-Amino-beta-(3-indolyl)-propionic acid" BROAD []
synonym: "(S)-tryptophan" BROAD []
synonym: "(S)-α-amino-1H-indole-3-propanoic acid" BROAD []
synonym: "L-(−)-tryptophan" BROAD []
synonym: "L-tryptophan" BROAD []
synonym: "L-β-3-indolylalanine" BROAD []
synonym: "W" BROAD []
synonym: "chebi: CHEBI:16828" EXACT []
synonym: "chebi: CHEBI:29954" EXACT []
synonym: "metacyc.compound: TRP" EXACT []
synonym: "pdb-ccd: TRP" EXACT []
synonym: "pubchem.compound: 6305" EXACT []
synonym: "resid: AA0018" EXACT []
synonym: "tryptophan" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: OC(=O)[C@H](Cc1c[nH]c2c1cccc2)[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:Y
name: L-tyrosine
synonym: "(-)-alpha-amino-p-hydroxyhydrocinnamic acid" BROAD []
synonym: "(2S)-2-amino-3-(4-hydroxyphenyl)propanoic acid" BROAD []
synonym: "(S)-(-)-Tyrosine" BROAD []
synonym: "(S)-2-Amino-3-(p-hydroxyphenyl)propionic acid" BROAD []
synonym: "(S)-3-(p-Hydroxyphenyl)alanine" BROAD []
synonym: "(S)-Tyrosine" BROAD []
synonym: "(S)-alpha-amino-4-hydroxybenzenepropanoic acid" BROAD []
synonym: "4-hydroxy-L-phenylalanine" BROAD []
synonym: "L-tyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "chebi: CHEBI:17895" EXACT []
synonym: "chebi: CHEBI:46858" EXACT []
synonym: "metacyc.compound: TYR" EXACT []
synonym: "pdb-ccd: TYR" EXACT []
synonym: "pubchem.compound: 6057" EXACT []
synonym: "resid: AA0019" EXACT []
synonym: "tyrosine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: OC(=O)[C@H](Cc1ccc(cc1)O)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:V
name: L-valine
synonym: "(2S)-2-amino-3-methyl-butanoic acid" BROAD []
synonym: "(2S)-2-amino-3-methylbutanoic acid" BROAD []
synonym: "(S)-valine" BROAD []
synonym: "2-Amino-3-methylbutyric acid" BROAD []
synonym: "L-(+)-alpha-Aminoisovaleric acid" BROAD []
synonym: "L-alpha-Amino-beta-methylbutyric acid" BROAD []
synonym: "L-valine" BROAD []
synonym: "V" BROAD []
synonym: "chebi: CHEBI:16414" EXACT []
synonym: "chebi: CHEBI:30015" EXACT []
synonym: "metacyc.compound: VAL" EXACT []
synonym: "pdb-ccd: VAL" EXACT []
synonym: "pubchem.compound: 6287" EXACT []
synonym: "resid: AA0020" EXACT []
synonym: "valine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]C(C(=O)O)C(C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1+1
l_displaced_atoms: H1
r_bond_atoms: C6
r_displaced_atoms: O8
r_displaced_atoms: H8

[Term]
id: BpForms:protein:AA0318
name: L-lysine methyl ester
def: "Generating Enzyme: protein-lysine O-methyltransferase (EC 2.1.1.-)." []
synonym: "2,6-diaminohexanoic methyl ester" BROAD []
synonym: "alpha,epsilon-diaminocaproic methyl ester" BROAD []
synonym: "cas: 687-64-9" EXACT []
synonym: "chebi: CHEBI:21354" EXACT []
synonym: "go: GO:0042034" EXACT []
synonym: "methyl (S)-2,6-diaminohexanoate" BROAD []
synonym: "methyl L-lysinate" BROAD []
synonym: "mod: MOD:00323" EXACT []
synonym: "resid: AA0318" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: COC(=O)[C@@H]([NH3+])CCCC[NH3+]
l_bond_atoms: N7-1
l_displaced_atoms: H7
l_displaced_atoms: H7+1

[Term]
id: BpForms:protein:AA0567
name: N6-(2-butenonyl)-L-lysine
def: "A metabolic source for crotonic acid or crotonyl-CoA in the nucleus is not evident, and a responsible enzyme activity is not identified." []
synonym: "(2S)-2-amino-6-[(2E)-but-2-enamido]hexanoic acid" BROAD []
synonym: "(2S)-2-amino-6-[(2E)-but-2-enoylamino]hexanoic acid" BROAD []
synonym: "(2S)-2-azanyl-6-[(2E)-but-2-enoylazanyl]hexanoic acid" BROAD []
synonym: "N(epsilon)-crotonyllysine" BROAD []
synonym: "N6-(E)-crotonyllysine" BROAD []
synonym: "N6-[(2E)-2-butenoyl]-L-lysine" BROAD []
synonym: "N6-crotonyllysine" BROAD []
synonym: "N6-trans-crotonyllysine" BROAD []
synonym: "mod: MOD:01892" EXACT []
synonym: "resid: AA0567" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: C/C=C/C(=O)NCCCC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15
r_displaced_atoms: H15

[Term]
id: BpForms:protein:AA0037
name: O-phospho-L-serine
def: "Generating Enzyme: protein-serine kinase (EC 2.7.1.37)." []
synonym: "(2S)-2-amino-3-(phosphonooxy)propanoic acid" BROAD []
synonym: "(2S)-2-amino-3-phosphonooxy-propanoic acid" BROAD []
synonym: "2-amino-3-hydroxypropanoic acid 3-phosphate" BROAD []
synonym: "2-azanyl-3-(phosphonooxy)propanoic acid" BROAD []
synonym: "O-phosphono-L-serine" BROAD []
synonym: "O-phosphonoserine" BROAD []
synonym: "O3-phosphoserine" BROAD []
synonym: "S" BROAD []
synonym: "cas: 407-41-0" EXACT []
synonym: "chebi: CHEBI:45522" EXACT []
synonym: "go: GO:0018105" EXACT []
synonym: "mod: MOD:00046" EXACT []
synonym: "pdb-ccd: SEP" EXACT []
synonym: "pdb.ligand: SEP" EXACT []
synonym: "phosphoserine" BROAD []
synonym: "resid: AA0037" EXACT []
synonym: "serine phosphate ester" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC(=O)[C@H](COP(=O)([O-])[O-])[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0048
name: N2-acetyl-L-lysine
def: "The occurrence of this modification has not been confirmed. The common peptide alpha-N-acetyltransferase does not acetylate basic residues." []
synonym: "(2S)-2-acetamido-6-aminohexanoic acid" BROAD []
synonym: "2-acetylamino-6-aminohexanoic acid" BROAD []
synonym: "2-acetylazanyl-6-azanylhexanoic acid" BROAD []
synonym: "N2-acetyllysine" BROAD []
synonym: "cas: 1946-82-3" EXACT []
synonym: "go: GO:0017195" EXACT []
synonym: "mod: MOD:00057" EXACT []
synonym: "resid: AA0048" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: CC(=O)N[C@H](C(=O)O)CCCC[NH3+]
l_bond_atoms: N4
l_displaced_atoms: H4
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:M, W, Y
name: S-[5'-(L-tryptoph-6'-yl)-L-tyrosin-3'-yl]-L-methionin-S-ium
def: "This modification is produced auto-catalytically." []
synonym: "5'-(6'-tryptophyl)-tyrosin-3'-yl-methionin-S-ium" BROAD []
synonym: "go: GO:0050739" EXACT []
synonym: "mod: MOD:00353" EXACT []
synonym: "resid: AA0348" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: O=C[C@H](CC[S@](c1cc(C[C@@H](C(=O)O)N)cc(c1O)c1ccc2c(c1)[nH]cc2C[C@@H](C=O)N)C)N
l_bond_atoms: N17
l_displaced_atoms: H17
r_bond_atoms: C14
r_displaced_atoms: O16
r_displaced_atoms: H16

[Term]
id: BpForms:protein:AA0421
name: N4-glucosyl-L-asparagine
def: "The alpha anomeric form is shown. See also RESID:AA0151 and RESID:AA0420 for other N4-glycosylated asparagines." []
synonym: "(2S)-2-amino-4-(D-glucopyranosyl)amino-4-oxobutanoic acid" BROAD []
synonym: "N4-(D-glucopyranosyl)-L-asparagine" BROAD []
synonym: "N4-asparagine-glucoside" BROAD []
synonym: "N4-glucosylasparagine" BROAD []
synonym: "N4-glycosyl-L-asparagine" BROAD []
synonym: "N4-glycosylasparagine" BROAD []
synonym: "mod: MOD:00833" EXACT []
synonym: "resid: AA0421" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: OC[C@H]1O[C@H](NC(=O)C[C@@H](C(=O)O)N)[C@@H]([C@H]([C@@H]1O)O)O
l_bond_atoms: N17
l_displaced_atoms: H17
r_bond_atoms: C14
r_displaced_atoms: O16
r_displaced_atoms: H16

[Term]
id: BpForms:protein:AA0560
name: S-(N-acetylamino)glucosyl-L-cysteine
def: "See also RESID:AA0152 and RESID:AA0392 for other S-glycosylated cysteines." []
synonym: "(2R)-2-amino-3-(2-acetamido-2-deoxy-beta-D-glucopyranosylsulfanyl)propanoic acid" BROAD []
synonym: "S-[(N-acetylamino)glycosyl]cysteine" BROAD []
synonym: "S-[beta-D-(N-acetylamino)glucopyranosyl]cysteine" BROAD []
synonym: "cas: 10036-64-3" EXACT []
synonym: "chebi: CHEBI:61631" EXACT []
synonym: "mod: MOD:01858" EXACT []
synonym: "resid: AA0560" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC[C@H]1O[C@@H](SC[C@@H](C(=O)O)[NH3+])[C@@H]([C@H]([C@@H]1O)O)NC(=O)C
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:AA0172
name: O4'-sulfo-L-tyrosine
def: "Generating Enzyme: protein-tyrosine sulfotransferase (EC 2.8.2.20)." []
synonym: "(2S)-2-azanyl-3-(4-sulfooxyphenyl)propanoic acid" BROAD []
synonym: "(S)-2-amino-3-(4-sulfooxyphenyl)propanoic acid" BROAD []
synonym: "2-amino-3-(4-hydroxyphenyl)propanoic acid 4'-sulfate" BROAD []
synonym: "O-sulfo-L-tyrosine" BROAD []
synonym: "O4-sulfotyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "cas: 956-46-7" EXACT []
synonym: "go: GO:0006478" EXACT []
synonym: "mod: MOD:00181" EXACT []
synonym: "o-sulfo-l-tyrosine" BROAD []
synonym: "pdb-ccd: TYS" EXACT []
synonym: "pdb.ligand: TYS" EXACT []
synonym: "resid: AA0172" EXACT []
synonym: "tyrosine sulfate" BROAD []
synonym: "tyrosine-O-sulfonic acid" BROAD []
synonym: "tyrosine-O-sulphonic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: OC(=O)[C@H](Cc1ccc(cc1)OS(=O)(=O)[O-])[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0231
name: N4-(ADP-ribosyl)-L-asparagine
def: "It is not known whether botulinum exoenzyme C3 catalyzes formation of the alpha or beta isomer. The alpha form is presented. The keyword "phosphoprotein" is not used with toxin modification. Generating Enzyme: NAD(P)+--asparagine ADP-ribosyltransferase (EC 2.4.2.-)." []
synonym: "(S)-2-amino-4-([adenosine 5'-(trihydrogen diphosphate) 5'->5'-ester with alpha-D-ribofuranosyl]amino)-4-oxobutanoic acid" BROAD []
synonym: "N4-[alpha-D-ribofuranoside 5'->5'-ester with adenosine 5'-(trihydrogen diphosphate)]-L-asparagine" BROAD []
synonym: "N4-alpha-D-ribofuranosyl-L-asparagine 5'->5'-ester with adenosine 5'-(trihydrogen diphosphate)" BROAD []
synonym: "go: GO:0006471" EXACT []
synonym: "mod: MOD:00236" EXACT []
synonym: "resid: AA0231" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: O=C(N[C@H]1O[C@@H]([C@H]([C@H]1O)O)COP(=O)(OP(=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1ncnc2N)[O-])[O-])C[C@@H](C(=O)O)N
l_bond_atoms: N53
l_displaced_atoms: H53
r_bond_atoms: C50
r_displaced_atoms: O52
r_displaced_atoms: H52

[Term]
id: BpForms:protein:AA0150
name: O3-phosphopantetheine-L-serine
def: "Generating Enzyme: holo-[acyl-carrier-protein] synthase (EC 2.7.8.7)." []
synonym: "(2R)-2-hydroxy-3,3-dimethyl-4-[(2S)-2-amino-2-carboxyethyl]phosphonato-N-(3-oxo-3-[(2-sulfanylethyl)amino]propyl)butanamide" BROAD []
synonym: "go: GO:0018070" EXACT []
synonym: "mod: MOD:00159" EXACT []
synonym: "pdb.ligand: PNS" EXACT []
synonym: "resid: AA0150" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: SCCNC(=O)CCNC(=O)[C@H](C(COP(=O)(OC[C@@H](C(=O)O)[NH3+])[O-])(C)C)O
l_bond_atoms: N26-1
l_displaced_atoms: H26
l_displaced_atoms: H26+1
r_bond_atoms: C23
r_displaced_atoms: O25
r_displaced_atoms: H25

[Term]
id: BpForms:protein:AA0238
name: L-cysteine oxazole-4-carboxylic acid
def: "Formed by the condensation of a serine hydroxyl with the carbonyl of the preceding residue and alpha-beta dehydrogenation. Generating Enzyme: peptidyl-serine cyclase (EC 4.2.1.-); peptidyl-oxazoline dehydrogenase (EC 1.3.-.-)." []
synonym: "2-(1-azanyl-2-sulfanylethyl)-4-oxazolecarboxylic acid" BROAD []
synonym: "2-[(1R)-1-amino-2-sulfanylethyl]-1,3-oxazole-4-carboxylic acid" BROAD []
synonym: "go: GO:0018132" EXACT []
synonym: "mod: MOD:00243" EXACT []
synonym: "resid: AA0238" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: N[C@H](c1nc(co1)C(=O)O)CS
l_bond_atoms: N5
r_bond_atoms: C9
r_displaced_atoms: O11
r_displaced_atoms: H11

[Term]
id: BpForms:protein:AA0062
name: N,N,N-trimethyl-L-alanine
def: "Consult FAQ at http://pir.georgetown.edu/resid/faq.shtml#q12 concerning calculation of the difference formula. Generating Enzyme: ribosomal protein L11 methyltransferase prmA (EC 2.1.1.-); N-terminal RCC1 methyltransferase (EC 2.1.1.-)." []
synonym: "(1S)-1-carboxy-N,N,N-trimethylethanaminium" BROAD []
synonym: "(1S)-1-carboxy-N,N,N-trimethylethanazanium" BROAD []
synonym: "(2S)-2-(trimethylammonio)propanoic acid" BROAD []
synonym: "N,N,N-trimethylalanine cation" BROAD []
synonym: "N,N,N-trimethylalaninium" BROAD []
synonym: "cas: 44802-94-0" EXACT []
synonym: "go: GO:0018011" EXACT []
synonym: "mod: MOD:00071" EXACT []
synonym: "resid: AA0062" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: C[C@H]([N](C)(C)C)C(=O)O
r_bond_atoms: C8
r_displaced_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:protein:AA0177
name: 3',3'',5'-triiodo-L-thyronine
synonym: "(S)-2-amino-3-[4-(4-hydroxy-3-iodophenoxy)-3,5-diiodophenyl]propanoic acid" BROAD []
synonym: "3,3',5-triiodo-L-thyronine" BROAD []
synonym: "3,5,3'-triiodo-L-thyronine" BROAD []
synonym: "4-(4-hydroxy-3-iodophenoxy)-3,5-diiodo-L-phenylalanine" BROAD []
synonym: "O-(4-hydroxy-3-iodophenyl)-3,5-diiodo-L-tyrosine" BROAD []
synonym: "T3" BROAD []
synonym: "cas: 6893-02-3" EXACT []
synonym: "chebi: CHEBI:18258" EXACT []
synonym: "go: GO:0018078" EXACT []
synonym: "liothyronine" BROAD []
synonym: "mod: MOD:00186" EXACT []
synonym: "pdb.ligand: T3" EXACT []
synonym: "resid: AA0177" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: OC(=O)[C@H](Cc1cc(I)c(c(c1)I)Oc1ccc(c(c1)I)O)[NH3+]
l_bond_atoms: N24-1
l_displaced_atoms: H24
l_displaced_atoms: H24+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0530
name: N6-(lysyl)-L-Lysine
def: "This modification occurs transiently in prokaryotic elogation factor P during production of the mature protein. For the mature form of the EF-P modification, see RESID:AA0531. The modified lysine residue is homologous to the lysine modified to hypusine (see RESID:AA0116) in eukaryotic and archaeal translation initiation factor 5A. Generating Enzyme: translation elongation factor P-lysine N6-lysyltransferase YjeA (EC 2.3.2.-)." []
synonym: "(2S)-2-amino-6-([(2S)-2,6-diaminohexanoyl]amino)hexanoic acid" BROAD []
synonym: "N6-(alpha-lysyl)-lysine" BROAD []
synonym: "go: GO:0071915" EXACT []
synonym: "mod: MOD:01779" EXACT []
synonym: "resid: AA0530" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+]CCCC[C@@H](C(=O)NCCCC[C@@H](C(=O)O)[NH3+])[NH3+]
l_bond_atoms: N23-1
l_displaced_atoms: H23
l_displaced_atoms: H23+1
r_bond_atoms: C20
r_displaced_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:protein:AA0577
name: O4'-(N-acetylamino)galactosyl-L-tyrosine
def: "The alpha anomeric form is shown. See also RESID:AA0157 for other O-glycosylated tyrosines. Generating Enzyme: polypeptide N-acetylgalactosaminyltransferase (EC 2.4.1.-)." []
synonym: "(2S)-2-amino-3-(D-2-acetamido-2-deoxygalactopyranosyloxy)phenylpropanoic acid" BROAD []
synonym: "O4'-(N-acetylgalactosaminyl)tyrosine" BROAD []
synonym: "O4'-glycosyl-L-tyrosine" BROAD []
synonym: "mod: MOD:01916" EXACT []
synonym: "mucin type O-glycosyltyrosine" BROAD []
synonym: "resid: AA0577" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: OC[C@@H]1O[C@H](Oc2ccc(cc2)C[C@@H](C(=O)O)[NH3+])[C@H]([C@H]([C@H]1O)O)NC(=O)C
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C18
r_displaced_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:protein:AA0611
name: S-(gamma-glutamyl-cysteinyl-glycyl)-L-cysteine
def: "Generating Enzyme: autocatalytic." []
synonym: "(2S)-2-amino-5-([(2R)-1-([2-([(2R)-2-amino-2-carboxyethyl]sulfanyl)-2-oxoethyl]amino)-1-oxo-3-sulfanylpropan-2-yl]amino)-5-oxopentanoic acid" BROAD []
synonym: "S-(glutathion-1-yl)-L-cysteine" BROAD []
synonym: "mod: MOD:01969" EXACT []
synonym: "resid: AA0611" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CSC(=O)CNC(=O)[C@H](NC(=O)CC[C@@H](C(=O)[O-])[NH3+])CS)N
l_bond_atoms: N25-1
l_displaced_atoms: H25
l_displaced_atoms: H25+1
r_bond_atoms: C22
r_displaced_atoms: O24-1

[Term]
id: BpForms:protein:AA0133
name: S-phytochromobilin-L-cysteine
def: "The phytochromobilins and phycoerythrobilins transmit red." []
synonym: "(2R,3R)-3-[(1R)-1-(((2R)-2-amino-2-carboxy)ethylsulfanyl)ethyl]-8,12-bis(2-carboxyethyl)-18-ethyl-2,7,13,17-tetramethyl-1,2,3,19,21,22,24-heptahydrobilin-1,19(21H,22H,24H)-dione" BROAD []
synonym: "18-ethenyl-3-[1-((2-amino-2-carboxy)ethylsulfanyl)ethyl]-1,2,3,19,22,24-hexahydro-2,7,13,17-tetramethyl-1,19-dioxo-21H-biline-8,12-dipropanoic acid" BROAD []
synonym: "cas: 143392-71-6" EXACT []
synonym: "chebi: CHEBI:15619" EXACT []
synonym: "go: GO:0017012" EXACT []
synonym: "mod: MOD:00142" EXACT []
synonym: "phytochrome chromophore" BROAD []
synonym: "phytochromobilin cysteine adduct" BROAD []
synonym: "resid: AA0133" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CS[C@@H]([C@H]1/C(=C/[C@H]2[NH2+]/C(=C\c3[nH]c(c(c3CCC(=O)[O-])C)/C=C/3\NC(=O)C(=C3C)C=C)/C(=C2C)CCC(=O)[O-])/NC(=O)[C@H]1C)C)[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C28
r_displaced_atoms: O30-1

[Term]
id: BpForms:protein:AA0084
name: L-aspartic acid 1-amide
def: "Generating Enzyme: peptidylglycine monooxygenase (EC 1.14.17.3)." []
synonym: "(2S)-2-amino-1-butanediamic acid" BROAD []
synonym: "(3S)-3,4-bis(azanyl)-4-oxidanylidene-butanoic acid" BROAD []
synonym: "3,4-diamino-4-oxobutanoic acid" BROAD []
synonym: "3-amino-succinamic acid" BROAD []
synonym: "L-alpha-asparagine" BROAD []
synonym: "N" BROAD []
synonym: "alpha-asparagine" BROAD []
synonym: "cas: 498-25-9" EXACT []
synonym: "chebi: CHEBI:49010" EXACT []
synonym: "go: GO:0018037" EXACT []
synonym: "isoasparagine" BROAD []
synonym: "l-alpha-asparagine" BROAD []
synonym: "mod: MOD:00093" EXACT []
synonym: "pdb-ccd: XSN" EXACT []
synonym: "pdb.ligand: NH2" EXACT []
synonym: "resid: AA0084" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: [O-]C(=O)C[C@@H](C(=O)N)[NH3+]
l_bond_atoms: N9
l_displaced_atoms: H9
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:AA0333
name: S-cyano-L-cysteine
def: "This modification is produced naturally when the HypE protein undergoes an auto-catalyzed dehydration, using ATP, of its carboxy-terminal S-carbamoyl cysteine. See RESID:AA0332." []
synonym: "(2R)-2-amino-3-thiocyanatopropanoic acid" BROAD []
synonym: "(2R)-2-azanyl-3-thiocyanato-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-cyano-L-cysteine" BROAD []
synonym: "S-cyanocysteine" BROAD []
synonym: "alpha-amino-beta-thiocyanatopropionic acid" BROAD []
synonym: "beta-thiocyanatoalanine" BROAD []
synonym: "cas: 5652-31-3" EXACT []
synonym: "go: GO:0046892" EXACT []
synonym: "mod: MOD:00338" EXACT []
synonym: "pdb-ccd: XCN" EXACT []
synonym: "resid: AA0333" EXACT []
synonym: "s-cyano-l-cysteine" BROAD []
synonym: "serine thiocyanic acid ester" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: N[C@H](C(=O)O)CSC#N
l_bond_atoms: N1
l_displaced_atoms: H1
r_bond_atoms: C4
r_displaced_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:protein:AA0344
name: 4-amino-3-isothiazolidinone-L-serine
def: "This cross-link is formed by the condensation of a cysteine sulfenic acid with the alpha-amido of the following residue. It can apparently be reversed by simple disulfhydryl reduction under physiological conditions. Generating Enzyme: autocatalytic." []
synonym: "(2S)-2-[(4R)-4-amino-3-oxo-1,2-thiazolidin-2-yl]-3-hydroxypropanoic acid" BROAD []
synonym: "2-(4-amino-3-oxo-isothiazolidin-2-yl)-3-hydroxy-propanoic acid" BROAD []
synonym: "4-amino-3-isothiazolidinone-L-serine" BROAD []
synonym: "go: GO:0048109" EXACT []
synonym: "mod: MOD:00349" EXACT []
synonym: "resid: AA0344" EXACT []
synonym: "serine-cysteine sulfenyl amide cross-link" BROAD []
synonym: "serine-cysteine sulphenyl amide cross-link" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC[C@H](N1SC[C@@H](C1=O)[NH3+])C(=O)O
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C16
r_displaced_atoms: O18
r_displaced_atoms: H18

[Term]
id: BpForms:protein:AA0088
name: glycine amide
def: "Generating Enzyme: peptidylglycine monooxygenase (EC 1.14.17.3)." []
synonym: "2-aminoacetamide" BROAD []
synonym: "2-aminoethanamide" BROAD []
synonym: "2-azanylethanamide" BROAD []
synonym: "cas: 598-41-4" EXACT []
synonym: "chebi: CHEBI:42843" EXACT []
synonym: "glycinamide" BROAD []
synonym: "go: GO:0018041" EXACT []
synonym: "mod: MOD:00097" EXACT []
synonym: "pdb.ligand: NH2" EXACT []
synonym: "resid: AA0088" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:G ! glycine
structure: NC(=O)C[NH3+]
l_bond_atoms: N1
l_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0290
name: O-octanoyl-L-serine
def: "Generating Enzyme: ghrelin O-acyltransferase, GOAT (EC 2.3.1.-)." []
synonym: "(2S)-2-amino-3-(octanoyloxy)propanoic acid" BROAD []
synonym: "L-serine octanoate ester" BROAD []
synonym: "O3-octanoyl-L-serine" BROAD []
synonym: "go: GO:0018191" EXACT []
synonym: "mod: MOD:00295" EXACT []
synonym: "resid: AA0290" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: CCCCCCCC(=O)OC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C14
r_displaced_atoms: O16
r_displaced_atoms: H16

[Term]
id: BpForms:protein:AA0526
name: S-(coelenterazin-3a-yl)-L-cysteine
def: "Coelenterazine is one of the four major marine luciferins, being used by various bioluminescent species in at least eight phyla. Coelenterazine may result from modification of a phenylalanyl-tyrosyl-tyrosine peptide produced by an unidentified endosymbiotic organism.  See RESID:AA0595. The chirality of the cysteine adduct has not been determined. This entry presents coelenterazine as a heterogen cross-linked to a cysteine. For coelenterazine as a modification produced by the cross-linking of a tripeptide precursor see RESID:AA0595. Generating Enzyme: autocatalytic." []
synonym: "(2R)-2-amino-3-([(4-hydroxyphenyl)(8-benzyl-3-oxo-6-[4-hydroxyphenyl]-3,7-dihydroimidazo[1,2-a]pyrazin-2-yl)methyl]sulfanyl)propanoic acid" BROAD []
synonym: "cas: 55779-48-1" EXACT []
synonym: "chebi: CHEBI:2311" EXACT []
synonym: "dehydrocoelenterazine cysteine adduct" BROAD []
synonym: "mod: MOD:01694" EXACT []
synonym: "resid: AA0526" EXACT []
synonym: "symplectin chromophore" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: Oc1ccc(cc1)[C@H](c1nc2n(c1=O)cc([nH]c2Cc1ccccc1)c1ccc(cc1)O)SC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N42-1
l_displaced_atoms: H42
l_displaced_atoms: H42+1
r_bond_atoms: C39
r_displaced_atoms: O41
r_displaced_atoms: H41

[Term]
id: BpForms:protein:AA0059
name: N-myristoyl-glycine
def: "The myristyl group represents a mixture of saturated and unsaturated fatty acids. Depending on the membrane composition, fatty acids including C12:0, C14:0, C14:1, and C14:2 may be incorporated. This modification is usually co-translational, occurring as the protein N-terminal emerges from the ribosome and immediately after the initial methionine is cleaved. However, glycine myristoylation can in some cases be performed on an N-terminal glycine produced by a post-translational proteolytic cleavage. The ExPASy Prosite pattern PS00008 should only be used with extreme caution. Because that pattern is not anchored to an N-terminal glycine, it extravagantly overpredicts "myristoylation" sites throughout the entire length of many protein sequences. Glycine myristoylation can only occur once in any protein sequence - at the N-terminal. Generating Enzyme: glycylpeptide N-tetradecanoyltransferase (EC 2.3.1.97)." []
synonym: "(tetradecanoylamino)ethanoic acid" BROAD []
synonym: "N-(1-oxotetradecyl)glycine" BROAD []
synonym: "N-myristylglycine" BROAD []
synonym: "N-tetradecanoylglycine" BROAD []
synonym: "cas: 14246-55-0" EXACT []
synonym: "go: GO:0018008" EXACT []
synonym: "mod: MOD:00068" EXACT []
synonym: "pdb.ligand: MYR" EXACT []
synonym: "resid: AA0059" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:G ! glycine
structure: CCCCCCCCCCCCCC(=O)NCC(=O)O
l_bond_atoms: N16
l_displaced_atoms: H16
r_bond_atoms: C18
r_displaced_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:protein:AA0119
name: N6-pyridoxal phosphate-L-lysine
synonym: "(2S)-2-amino-6-[([3-hydroxy-2-methyl-5-phosphonooxymethylpyridin-4-yl]methylidene)amino]hexanoic acid" BROAD []
synonym: "(2s)-2-amino-6-[[3-hydroxy-2-methyl-5-(phosphonooxymethyl)pyridin-4-yl]methylideneamino]hexanoic acid" BROAD []
synonym: "(E)-N~6~-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methylidene)-L-lysine" BROAD []
synonym: "2-azanyl-6-[(E)-[2-methyl-3-oxidanyl-5-(phosphonooxymethyl)pyridin-4-yl]methylideneamino]hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "cas: 2440-59-7" EXACT []
synonym: "go: GO:0018272" EXACT []
synonym: "mod: MOD:00128" EXACT []
synonym: "pdb-ccd: LLP" EXACT []
synonym: "pdb.ligand: LLP" EXACT []
synonym: "resid: AA0119" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: OC(=O)[C@H](CCCC[NH2+]Cc1c(cnc(c1O)C)COP(=O)([O-])[O-])[NH3+]
l_bond_atoms: N28-1
l_displaced_atoms: H28
l_displaced_atoms: H28+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0494
name: N-(DNA-1',2'-dideoxyribos-1'-ylidene)-L-prolinium
def: "The modification is frequently referred to as a "Schiff base". As an iminium bonded to three carbons, this is not a Schiff base, defined in the IUPAC Compendium of Chemical Terminology, 2nd ed. ("the Gold Book", http://goldbook.iupac.org/index.html) as an imine (uncharged, double bonded nitrogen) bonded to two carbons. Chemically it is not a "base" because it cannot act as either a proton acceptor (a "Brønsted-Lowry base") or as an electron pair donor (a "Lewis base"). The model has three open valences, one on the proline carboxyl group and two in the DNA nucleotide segment on the 5'-phosphate and the 3'-hydroxyl. The keyword "phosphoprotein" is not used with polynucleotide-linked intermediate modifications. Generating Enzyme: formamidopyrimidine-DNA glycosylase (EC 3.2.2.23)." []
synonym: "(1Z,2S)-2-carboxy-1-[(3R,4R)-3,4-dihydroxy-5-(phosphonooxy)pentylidene]pyrrolidinium" BROAD []
synonym: "DNA glycosylase proline Schiff base intermediate [misnomer]" BROAD []
synonym: "mod: MOD:01454" EXACT []
synonym: "pdb.ligand: PED" EXACT []
synonym: "resid: AA0494" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: OP(OC[C@H]([C@H](CC[NH+]1CCC[C@H]1C(=O)O)O)O)O
r_bond_atoms: C18
r_displaced_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:protein:AA0067
name: omega-N,omega-N'-dimethyl-L-arginine
def: "This modification should not be confused with omega-N,omega-N-dimethyl-L-arginine (see RESID:AA0068) or N2,N2-dimethyl-L-arginine (see RESID:AA0569). Generating Enzyme: [myelin basic protein]-arginine N-methyltransferase (EC 2.1.1.126)." []
synonym: "(2S)-2-amino-5-[((methylamino)(methylimino)methyl)amino]pentanoic acid" BROAD []
synonym: "(2S)-2-amino-5-[(N,N'-dimethylcarbamimidoyl)amino]pentanoic acid" BROAD []
synonym: "N3,N4-dimethylarginine" BROAD []
synonym: "N5-[(methylamino)(methylimino)methyl]ornithine" BROAD []
synonym: "NG,N'G-dimethylarginine" BROAD []
synonym: "N~5~-(N,N'-dimethylcarbamimidoyl)-L-ornithine" BROAD []
synonym: "R" BROAD []
synonym: "cas: 30344-00-4" EXACT []
synonym: "chebi: CHEBI:61916" EXACT []
synonym: "go: GO:0018216" EXACT []
synonym: "mod: MOD:00076" EXACT []
synonym: "n3, n4-dimethylarginine" BROAD []
synonym: "pdb-ccd: 2MR" EXACT []
synonym: "pdb.ligand: 2MR" EXACT []
synonym: "resid: AA0067" EXACT []
synonym: "symmetric dimethylarginine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: CNC(NCCC[C@@H](C(=O)O)[NH3+])NC
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C10
r_displaced_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:protein:AA0120
name: N6-retinylidene-L-lysine
def: "The all-trans form is shown. Light-induced interconversion with the 11-cis (4Z) form in rhodopsin is the basis for light sensing in animals. Light-induced interconversion with the 13-cis (2Z) form in bacteriorhodopsin is utilized for proton pumping in some archaea." []
synonym: "(2S)-2-amino-6-[(2E,4E,6E,8E)-3,7-dimethyl-9-(2,6,6-trimethylcyclohex-1-en-1-yl)-2,4,6,8-nonatetraenylidene]aminohexanoic acid" BROAD []
synonym: "(2S)-2-amino-6-[[(2E,4Z,6E)-3,7-dimethyl-9-(2,6,6-trimethyl-1-cyclohexenyl)nona-2,4,6,8-tetraenyl]amino]hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "N6-retinal-L-lysine" BROAD []
synonym: "N6-retinyl-lysine" BROAD []
synonym: "N~6~-[(2E,4Z,6E,8E)-3,7-dimethyl-9-(2,6,6-trimethylcyclohex-1-en-1-yl)nona-2,4,6,8-tetraen-1-yl]-L-lysine" BROAD []
synonym: "cas: 116-31-4" EXACT []
synonym: "go: GO:0018273" EXACT []
synonym: "mod: MOD:00129" EXACT []
synonym: "n~6~-[(2z,4e,6e,8e)-3,7-dimethyl-9-(2,6,6-trimethylcyclohex-1-en-1-yl)nona-2,4,6,8-tetraenyl]lysine" BROAD []
synonym: "pdb-ccd: LYR" EXACT []
synonym: "pdb.ligand: LYR" EXACT []
synonym: "resid: AA0120" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: C[C@@H](/C=C/C=C(/C=C/C1=C(C)CCCC1(C)C)\C)/C=C/[NH2+]CCCC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N34-1
l_displaced_atoms: H34
l_displaced_atoms: H34+1
r_bond_atoms: C31
r_displaced_atoms: O33
r_displaced_atoms: H33

[Term]
id: BpForms:protein:AA0274
name: N-pyruvic acid 2-iminyl-L-cysteine
def: "The cysteine sulfhydryl may cyclize with the imine to form 2-methyl-thiazolidine-2,4-dicarboxylic acid [CAS:152574-58-8]." []
synonym: "(R)-2-(1-carboxy-2-sulfanylethanimino)propanoic acid" BROAD []
synonym: "go: GO:0018386" EXACT []
synonym: "mod: MOD:00279" EXACT []
synonym: "resid: AA0274" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: SC[C@H]([NH2+][C@H](C(=O)[O-])C)C=O
l_bond_atoms: N5-1
l_displaced_atoms: H5
l_displaced_atoms: H5+1
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:AA0058
name: N-D-glucuronyl-glycine
def: "The glucuronic acid is linked as an amide, rather than as a glycoside (see RESID:AA0291). The alpha glucuronoyl form is shown." []
synonym: "2-(glucuronoylamino)ethanoic acid" BROAD []
synonym: "N-D-glucuronyl-glycine" BROAD []
synonym: "cas: 62532-50-7" EXACT []
synonym: "go: GO:0018007" EXACT []
synonym: "mod: MOD:00067" EXACT []
synonym: "resid: AA0058" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:G ! glycine
structure: OC(=O)CNC(=O)[C@H]1O[C@@H](O)[C@@H]([C@H]([C@@H]1O)O)O
l_bond_atoms: N5
l_displaced_atoms: H5
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:C, H
name: 6-(S-L-cysteinyl)-8alpha-(-3'-L-histidino)-FAD
def: "The keyword "phosphoprotein" is not used with flavin modifications linked through the flavin. Generating Enzyme: autocatalytic." []
synonym: "6-((R)-2-amino-2-carboxyethyl)sulfanyl-8alpha-[4-((S)-2-amino-2-carboxyethyl)imidazol-3-yl]-riboflavin 5'-(trihydrogen diphosphate) 5'->5'-ester with adenosine" BROAD []
synonym: "6-(S-cysteinyl)-8alpha-(N(delta1)-histidyl)-FAD" BROAD []
synonym: "6-(S-cysteinyl)-8alpha-(N(pi)-histidyl)-FAD" BROAD []
synonym: "6-(S-cysteinyl)-8alpha-(N3'-histidyl)-FAD" BROAD []
synonym: "6-(S-cysteinyl)-8alpha-(pros-histidyl)-FAD" BROAD []
synonym: "mod: MOD:01182" EXACT []
synonym: "pdb.ligand: FAD" EXACT []
synonym: "resid: AA0436" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CSC1=C(C)[C@@H](C=C2C1=N[C@H]1C(=O)NC(=O)N=C1N2C[C@@H]([C@@H]([C@@H](CO[P@](=O)(O[P@@](=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1NC=N[C@@H]2N)[O-])[O-])O)O)O)Cn1cncc1C[C@@H](C(=O)O)[NH3+])[NH3+]
l_bond_atoms: N81-1
l_displaced_atoms: H81
l_displaced_atoms: H81+1
r_bond_atoms: C78
r_displaced_atoms: O80
r_displaced_atoms: H80

[Term]
id: BpForms:protein:AA0075
name: N6,N6-dimethyl-L-lysine
def: "This modification is readily formed artifactually by reductive methylation using formaldehyde. Generating Enzyme: histone-lysine N-methyltransferase (EC 2.1.1.43); cytochrome-c-lysine N-methyltransferase (EC 2.1.1.59); calmodulin-lysine N-methyltransferase (EC 2.1.1.60)." []
synonym: "(2S)-2-amino-6-(dimethylamino)hexanoic acid" BROAD []
synonym: "(2S)-2-amino-6-dimethylamino-hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "N(zeta)-dimethyllysine" BROAD []
synonym: "N~6~,N~6~-dimethyl-L-lysine" BROAD []
synonym: "cas: 2259-86-1" EXACT []
synonym: "chebi: CHEBI:61969" EXACT []
synonym: "epsilon-dimethyllysine" BROAD []
synonym: "go: GO:0018024" EXACT []
synonym: "lysine derivative Lys(y)" BROAD []
synonym: "mod: MOD:00084" EXACT []
synonym: "n-dimethyl-lysine" BROAD []
synonym: "pdb-ccd: MLY" EXACT []
synonym: "pdb.ligand: MLY" EXACT []
synonym: "resid: AA0075" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: C[NH+](CCCC[C@@H](C(=O)O)[NH3+])C
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C10
r_displaced_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:protein:M, Y
name: 3-(2-methylthio)ethyl-6-(4-hydroxybenzylidene)-5-iminopiperazin-2-one
def: "The correct structure for the asFP595 chromophore is now thought to be a para-hydroxybenzylidene-5-imidazolidinone. See RESID:AA0379. The diagram presents structures for two tautomeric forms with the glycine, which is linked by either an imino or amino group, shown in gray. In the correct structure, the glycine amino group forms part of a 5-member ring." []
synonym: "3-(2-methylsulfanyl)ethyl-6-(4-hydroxybenzylidene)-5-iminopiperazin-2-one" BROAD []
synonym: "3-(2-methylthio)ethyl-6-(4-hydroxybenzylidene)-5-amino-3,6-didehydropyrazin-2-ol" BROAD []
synonym: "GFP-like chromoprotein asFP595 chromophore" BROAD []
synonym: "L-methionyl-L-tyrosyl-2-keto-5-iminopiperazine" BROAD []
synonym: "go: GO:0051357" EXACT []
synonym: "mod: MOD:00382" EXACT []
synonym: "resid: AA0377" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: CSCC[C@@H]1N[C@@H](NCC(=O)O)/C(=C\c2ccc(cc2)O)/NC1=O
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:AA0307
name: S-myristoyl-L-cysteine
def: "The predominant palmitoyl transferase in mammalian systems appears to utilize a mixture of saturated and unsaturated fatty acids including myristoic acid. Some systems may be more specific in their incorporation of other fatty acids. See RESID:AA0106 and RESID:AA0308. Generating Enzyme: protein-cysteine S-myristoyltransferase (EC 2.3.1.-)." []
synonym: "(R)-2-amino-3-(tetradecanoylsulfanyl)propanoic acid" BROAD []
synonym: "chebi: CHEBI:22061" EXACT []
synonym: "go: GO:0019704" EXACT []
synonym: "mod: MOD:00312" EXACT []
synonym: "pdb.ligand: MYR" EXACT []
synonym: "resid: AA0307" EXACT []
synonym: "tetradecanoate cysteine thioester" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: CCCCCCCCCCCCCC(=O)SC[C@@H](C(=O)O)N
l_bond_atoms: N23
l_displaced_atoms: H23
r_bond_atoms: C20
r_displaced_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:protein:AA0591
name: N-palmitoyl-L-methionine
def: "Generating Enzyme: methionylpeptide N-palmitoyltransferase (EC 2.3.1.-)." []
synonym: "(2S)-2-(hexadecanoylamino)-4-(methylsulfanyl)butanoic acid" BROAD []
synonym: "2-(hexadecanamido)-4-(methylsulfanyl)butanoic acid" BROAD []
synonym: "N-(1-oxohexadecyl)methionine" BROAD []
synonym: "cas: 36416-81-6" EXACT []
synonym: "mod: MOD:01937" EXACT []
synonym: "resid: AA0591" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: CCCCCCCCCCCCCCCC(=O)N[C@H](C(=O)O)CCSC
l_bond_atoms: N18
l_displaced_atoms: H18
r_bond_atoms: C21
r_displaced_atoms: O23
r_displaced_atoms: H23

[Term]
id: BpForms:protein:AA0098
name: L-tryptophan amide
def: "Generating Enzyme: peptidylglycine monooxygenase (EC 1.14.17.3)." []
synonym: "(2S)-2-amino-3-(1H-indol-3-yl)propanamide" BROAD []
synonym: "cas: 20696-57-5" EXACT []
synonym: "chebi: CHEBI:16533" EXACT []
synonym: "go: GO:0018051" EXACT []
synonym: "mod: MOD:00107" EXACT []
synonym: "pdb.ligand: NH2" EXACT []
synonym: "resid: AA0098" EXACT []
synonym: "tryptophanamide" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: NC(=O)[C@H](Cc1c[nH]c2c1cccc2)[NH3+]
l_bond_atoms: N1
l_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0190
name: D-aspartic acid
def: "The stereoisomeric conversion of L-aspartic acid or L-asparagine to D-aspartic acid is probably mediated by the spontaneous cyclization and deamidation to a 2-aminosuccinimidyl group (see RESID:AA0441)." []
synonym: "(2R)-2-aminobutanedioic acid" BROAD []
synonym: "2-azanylbutanedioic acid" BROAD []
synonym: "aminosuccinic acid" BROAD []
synonym: "cas: 1783-96-6" EXACT []
synonym: "chebi: CHEBI:48094" EXACT []
synonym: "mod: MOD:01921" EXACT []
synonym: "mod: MOD:01930" EXACT []
synonym: "pdb.ligand: DAS" EXACT []
synonym: "resid: AA0190" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: O=C[C@@H](CC(=O)[O-])[NH3+]
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:AA0193
name: D-methionine
def: "Generating Enzyme: protein-methionine epimerase (EC 5.1.1.-)." []
synonym: "(2R)-2-amino-4-(methylsulfanyl)butanoic acid" BROAD []
synonym: "2-amino-4-(methylthio)butanoic acid" BROAD []
synonym: "2-amino-4-(methylthio)butyric acid" BROAD []
synonym: "cas: 348-67-4" EXACT []
synonym: "chebi: CHEBI:29984" EXACT []
synonym: "go: GO:0019123" EXACT []
synonym: "mod: MOD:00200" EXACT []
synonym: "pdb.ligand: MED" EXACT []
synonym: "resid: AA0193" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: CSCC[C@@H]([NH3+])C(=O)O
l_bond_atoms: N7-1
l_displaced_atoms: H7
l_displaced_atoms: H7+1
r_bond_atoms: C11
r_displaced_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:protein:AA0354
name: N2-acetyl-L-arginine
def: "The common peptide alpha-N-acetyltransferase does not acetylate basic residues, so another alpha-acetyltransferase activity must be producing this modification in a thylakoid protein. Generating Enzyme: arginylpeptide alpha-N-acetyltransferase (EC 2.3.1.-)." []
synonym: "(S)-2-acetamido-5-carbamimidamidopentanoic acid" BROAD []
synonym: "2-acetamido-5-guanidinopentanoic acid" BROAD []
synonym: "2-acetylamino-5-guanidinopentanoic acid" BROAD []
synonym: "N(alpha)-acetylarginine" BROAD []
synonym: "acetylarginine" BROAD []
synonym: "alpha-acetylamino-delta-guanidinovaleric acid" BROAD []
synonym: "cas: 155-84-0" EXACT []
synonym: "go: GO:0048275" EXACT []
synonym: "mod: MOD:00359" EXACT []
synonym: "resid: AA0354" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: CC(=O)N[C@H](C(=O)O)CCC[NH+]=C(N)N
l_bond_atoms: N4
l_displaced_atoms: H4
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:C, C
name: 15,16-dihydrobiliverdin-bis-L-cysteine
def: "This bilin transmits violet. The stereochemistry for the 18' chiral center has not been resolved." []
synonym: "(16R)-8,12-bis(2-carboxyethyl)-3-[2-(((2R)-2-amino-2-carboxy)ethylsulfanyl)ethyl]-18-[(1Xi)-1-(((2R)-2-amino-2-carboxy)ethylsulfanyl)ethyl]-2,7,13,17-tetramethyl-15,16-dihydrobilin-1,19(21H,24H)-dione" BROAD []
synonym: "15,16-Dhbv" BROAD []
synonym: "15,16-dihydrobiliverdin IXalpha" BROAD []
synonym: "15,16-dihydrobiliverdin cysteine adduct" BROAD []
synonym: "3'',18'-biscysteinyl-15,16-dihydrobiliverdin" BROAD []
synonym: "3beta,18alpha-biscysteinyl-15,16-dihydrobiliverdin" BROAD []
synonym: "8,12-bis(2-carboxyethyl)-3-(2-(cysteinyl-S)-ethyl)-18-(1-(cysteinyl-S)-ethyl)-2,7,13,17-tetramethylbiladiene-ab-1,19(16H,21H)-dione" BROAD []
synonym: "DBV" BROAD []
synonym: "cas: 137429-14-2" EXACT []
synonym: "mod: MOD:01143" EXACT []
synonym: "pdb.ligand: DBV" EXACT []
synonym: "resid: AA0429" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CSCCC1=C(C)C(=O)N/C/1=C\c1[nH]c(c(c1C)CCC(=O)[O-])Cc1[nH]c(c(c1CCC(=O)[O-])C)C[C@H]1NC(=O)C(=C1C)[C@@H](SC[C@@H](C=O)[NH3+])C)[NH3+]
l_bond_atoms: N14
l_displaced_atoms: H14
r_bond_atoms: C26
r_displaced_atoms: O28-1

[Term]
id: BpForms:protein:T, T
name: L-threonine 5-methyloxazole-4-carboxylic acid
def: "Formed by the condensation of a cysteine thiol with the carbonyl of the preceding residue and alpha-beta dehydrogenation. Generating Enzyme: peptidyl-threonine cyclase (EC 4.2.1.-); peptidyl-oxazoline dehydrogenase (EC 1.3.-.-)." []
synonym: "2-[(1S,2R)-1-amino-2-hydroxypropyl]-5-methyl-1,3-oxazole-4-carboxylic acid" BROAD []
synonym: "2-[(1S,2R)-1-azanyl-2-hydroxypropyl]-5-methyl-1,3-oxazole-4-carboxylic acid" BROAD []
synonym: "mod: MOD:01901" EXACT []
synonym: "resid: AA0572" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: C[C@H]([C@@H](c1oc(c(n1)C(=O)O)C)N)O
l_bond_atoms: N10
r_bond_atoms: C11
r_displaced_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:protein:AA0388
name: 4-hydroxy-D-valine
synonym: "(2R,3Xi)-2-amino-4-hydroxy-3-methylbutanoic acid" BROAD []
synonym: "D-gamma-hydroxyvaline" BROAD []
synonym: "mod: MOD:00756" EXACT []
synonym: "resid: AA0388" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:V ! L-valine
structure: OC[C@H]([C@H](C(=O)O)[NH3+])C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0278
name: N6-propylamino-poly(propylmethylamino)-propyldimethylamine-L-lysine
def: "In silaffin from the diatom Cylindrotheca fusiformis there are five to eleven N-methyl-propylamine monomeric units on each lysine. Six are shown." []
synonym: "(alpha)- ([([(5S)-5-amino-5-carboxypentyl]amino)propyl][(methyl)amino])-(omega)-methyl poly[propane-1,3-diyl(methylimino)]" BROAD []
synonym: "N6-[3-([(omega)-(dimethyl)aminopropyl-poly(3-[methylamino]propyl)]amino)propyl]lysine" BROAD []
synonym: "go: GO:0018185" EXACT []
synonym: "lysine derivative Lys(x)" BROAD []
synonym: "mod: MOD:00283" EXACT []
synonym: "resid: AA0278" EXACT []
synonym: "silaffin polycationic lysine derivative" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: C[NH+](CCCNCCC[NH2+]CCCC[C@@H](C(=O)O)[NH3+])CCCN(CCC[NH+](CCCN(CCC[NH+](C)C)C)C)C
l_bond_atoms: N23-1
l_displaced_atoms: H23
l_displaced_atoms: H23+1
r_bond_atoms: C20
r_displaced_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:protein:AA0117
name: N6-biotinyl-L-lysine
def: "Generating Enzyme: biotin--protein ligase (EC 6.3.4.-); biotin--[methylmalonyl-CoA-carboxyltransferase] ligase (EC 6.3.4.9); biotin--[propionyl-CoA-carboxylase (ATP-hydrolysing)] ligase (EC 6.3.4.10); biotin--[methylcrotonoyl-CoA-carboxylase] ligase (EC 6.3.4.11); biotin--[acetyl-CoA-carboxylase] ligase (EC 6.3.4.15)." []
synonym: "(2S)-2-amino-6-(5-[(3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]pentanoylamino)hexanoic acid" BROAD []
synonym: "(3aS-(3aalpha,4beta,6aalpha))-N6-(5-(hexahydro-2-oxo-1H-thieno(3,4-d)imidazol-4-yl)-1-oxopentyl)-L-lysine" BROAD []
synonym: "N6-[5-((3aS,4S,6aR)-hexahydro-2-oxo-1H-thieno[3,4-d]imidazol-4-yl)-1-oxopentyl]-L-lysine" BROAD []
synonym: "N6-biotinyllysine" BROAD []
synonym: "biocytin" BROAD []
synonym: "cas: 576-19-2" EXACT []
synonym: "epsilon-N-biotinyllysine" BROAD []
synonym: "go: GO:0018054" EXACT []
synonym: "mod: MOD:00126" EXACT []
synonym: "pdb.ligand: BTN" EXACT []
synonym: "resid: AA0117" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O=C(NCCCC[C@@H](C(=O)O)[NH3+])CCCC[C@@H]1SC[C@H]2[C@@H]1NC(=O)N2
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C10
r_displaced_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:protein:AA0576
name: N-formyl-L-alanine
synonym: "(2S)-2-(formylamino)propanoic acid" BROAD []
synonym: "2-formamidopropanoic acid" BROAD []
synonym: "2-formamidopropionic acid" BROAD []
synonym: "cas: 10512-86-4" EXACT []
synonym: "mod: MOD:01915" EXACT []
synonym: "pdb.ligand: FOR" EXACT []
synonym: "resid: AA0576" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: O=CN[C@H](C(=O)O)C
l_bond_atoms: N3
l_displaced_atoms: H3
r_bond_atoms: C6
r_displaced_atoms: O8
r_displaced_atoms: H8

[Term]
id: BpForms:protein:AA0602
name: (2R)-2-hydroxyproline
def: "The chemical stability of this modification has been questioned. However, a similar modification in an homologous enzyme has apparently been observed by another group in work that has not yet been published. Generating Enzyme: autocatalytic." []
synonym: "(2R)-2-hydroxypyrrolidine-2-carboxylic acid" BROAD []
synonym: "(2R)-2-oxidanylpyrrolidine-2-carboxylic acid" BROAD []
synonym: "2-hydroxy-L-proline" BROAD []
synonym: "2-hydroxy-l-proline" BROAD []
synonym: "2-oxidanylpyrrolidine-2-carboxylic acid" BROAD []
synonym: "alpha-hydroxyproline" BROAD []
synonym: "mod: MOD:01957" EXACT []
synonym: "pdb-ccd: PXU" EXACT []
synonym: "pdb.ligand: PXU" EXACT []
synonym: "resid: AA0602" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: OC(=O)[C@]1(O)CCC[NH2+]1
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:C, N
name: L-asparagine 5-methylthiazole-4-carboxylic acid
def: "Formed by the condensation of a cysteine thiol with the carbonyl of the preceding residue and alpha-beta dehydrogenation. Generating Enzyme: peptidyl-cysteine cyclase (EC 4.2.1.-); peptidyl-thiazoline dehydrogenase (EC 1.3.-.-)." []
synonym: "2-[(1S)-1,3-bisazanyl-3-oxopropyl]-5-methyl-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "2-[(1S)-1,3-diamino-3-oxopropyl]-5-methyl-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "mod: MOD:01392" EXACT []
synonym: "resid: AA0469" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: NC(=O)C[C@@H](c1nc(c(s1)C)C(=O)O)N
l_bond_atoms: N8
r_bond_atoms: C13
r_displaced_atoms: O15
r_displaced_atoms: H15

[Term]
id: BpForms:protein:AA0308
name: S-palmitoleyl-L-cysteine
def: "This specific modification has been detected but not located by sequencing in proteins. This modification may also arise from non-specific activity of the enzymes that produce S-palmitoyl-L-cysteine; see RESID:AA0106. Generating Enzyme: protein-cysteine S-palmitoleyltransferase (EC 2.3.1.-)." []
synonym: "(R)-2-amino-3-((Z)-9-hexadecenoylsulfanyl)propanoic acid" BROAD []
synonym: "cis-9-hexadecenoate cysteine thioester" BROAD []
synonym: "go: GO:0019939" EXACT []
synonym: "mod: MOD:00313" EXACT []
synonym: "resid: AA0308" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: CCCCCC/C=C\CCCCCCCC(=O)SC[C@@H](C(=O)O)N
l_bond_atoms: N25
l_displaced_atoms: H25
r_bond_atoms: C22
r_displaced_atoms: O24
r_displaced_atoms: H24

[Term]
id: BpForms:protein:AA0176
name: L-4'-bromophenylalanine
synonym: "(2S)-2-amino-3-(4-bromophenyl)propanoic acid" BROAD []
synonym: "4-bromo-L-phenylalanine" BROAD []
synonym: "4-bromo-l-phenylalanine" BROAD []
synonym: "Y" BROAD []
synonym: "cas: 24250-84-8" EXACT []
synonym: "go: GO:0018075" EXACT []
synonym: "mod: MOD:00185" EXACT []
synonym: "p-bromophenylalanine" BROAD []
synonym: "para-bromophenylalanine" BROAD []
synonym: "pdb-ccd: 4BF" EXACT []
synonym: "pdb.ligand: 4BF" EXACT []
synonym: "resid: AA0176" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [NH3+][C@H](C(=O)O)Cc1ccc(cc1)Br
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:A, G
name: L-alanine 5-imidazolinone glycine
def: "This entry represents the cross-link of the peptide backbone from the alpha-carboxyl carbon of residue N, an alanine, to the alpha-amino nitrogen of residue N+2, a glycine, coupled with the formation of a double bond to the alpha-amino nitrogen of residue N+1 which loses one hydrogen, and the loss of a molecule of water. This cross-link is accompanied by modification of residue N+1. The modified residue N+1 is presented in a separate entry and is not included in the mass accounting of this entry. The backbone atoms of residue N+1 are shown in gray in the diagram." []
synonym: "(2-[(1S)-1-aminoethyl]-5-oxo-4,5-dihydro-1H-imidazol-1-yl)acetic acid" BROAD []
synonym: "2-[1-aminoethyl]-1-carboxymethyl-1-imidazolin-5-one" BROAD []
synonym: "4-methylidene-imidazole-5-one active site" BROAD []
synonym: "alanyl-5-imidazolinone glycine" BROAD []
synonym: "go: GO:0018253" EXACT []
synonym: "mod: MOD:00195" EXACT []
synonym: "para-hydroxybenzylidene-imidazolidinone chromophore" BROAD []
synonym: "pdb.ligand: AYG" EXACT []
synonym: "resid: AA0187" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: OC(=O)CN1C(=O)CN=C1[C@@H]([NH3+])C
l_bond_atoms: N9
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0479
name: (2S,3R,4R)-3,4-dihydroxyproline
synonym: "(2S,3R,4R)-3,4-dihydroxypyrrolidine-2-carboxylic acid" BROAD []
synonym: "2,3-trans-3,4-trans-3,4-dihydroxy-L-proline" BROAD []
synonym: "2-alpha-3-beta-4-alpha-3,4-dihydroxyproline" BROAD []
synonym: "cas: 74644-88-5" EXACT []
synonym: "mod: MOD:01402" EXACT []
synonym: "resid: AA0479" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: O[C@@H]1C[NH2+][C@@H]([C@H]1O)C(=O)O
l_bond_atoms: N5-1
l_displaced_atoms: H5
l_displaced_atoms: H5+1
r_bond_atoms: C13
r_displaced_atoms: O15
r_displaced_atoms: H15

[Term]
id: BpForms:protein:AA0129
name: 2-oxobutanoic acid
synonym: "2-ketobutyric acid" BROAD []
synonym: "2-oxobutanoic acid" BROAD []
synonym: "2-oxobutyric acid" BROAD []
synonym: "cas: 600-18-0" EXACT []
synonym: "chebi: CHEBI:30831" EXACT []
synonym: "go: GO:0018058" EXACT []
synonym: "mod: MOD:00138" EXACT []
synonym: "pdb.ligand: 2KT" EXACT []
synonym: "resid: AA0129" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: CCC(=O)C(=O)O
r_bond_atoms: C5
r_displaced_atoms: O7
r_displaced_atoms: H7

[Term]
id: BpForms:protein:AA0487
name: 4-hydroxy-L-glutamic acid
def: "This modification is currently represented in the PDB as part of the HET group for the entire molecule of nosiheptide. The chirality of C-4 is not settled. The (2S,4S) diastereomer is shown." []
synonym: "(2S,4S)-2-amino-4-hydroxy-pentanedioic acid" BROAD []
synonym: "(2S,4S)-2-amino-4-hydroxypentanedioic acid (non-preferred name)" BROAD []
synonym: "(2S,4Xi)-2-amino-4-hydroxypentanedioic acid" BROAD []
synonym: "(2s,4s)-2-amino-4-hydroxy-pentanedioic acid" BROAD []
synonym: "cas: 3913-68-6" EXACT []
synonym: "gamma-hydroxy glutaminic acid" BROAD []
synonym: "mod: MOD:01434" EXACT []
synonym: "pdb-ccd: 3GL" EXACT []
synonym: "pdb.ligand: 3GL" EXACT []
synonym: "resid: AA0487" EXACT []
synonym: "threo-4-hydroxy-L-glutamic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: O=C[C@H](C[C@@H](C(=O)[O-])O)[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:AA0104
name: S-geranylgeranyl-L-cysteine
def: "For the type I geranylgeranyltransferase the residue may be found at the first position in the sequence motif CXX[LF]* where the second and third positions are usually aliphatic. For the type II geranylgeranyltransferase the residue may be found at the first and final positions in the sequence motif CXC* or at the final two positions in the sequence motif CC*. These motifs are necessary but not sufficient for modification. Formation of S-geranylgeranylcysteine may be coupled with subsequent cleavage of a carboxy-terminal tripeptide for the CAAX motif and methyl esterification of the geranylgeranylated cysteine. Methyl esterification without cleavage occurs for the CXC motif. Generating Enzyme: protein-cysteine geranylgeranyltransferase (EC 2.5.1.-)." []
synonym: "(2R)-2-amino-3-([(2E,6E,10Z)-12-hydroxy-3,7,11-trimethyldodeca-2,6,10-trien-1-yl]sulfanyl)propanoic acid" BROAD []
synonym: "2-amino-3-(3,7,11,15-tetramethyl-2,6,10,14-hexadecatetraenylthio)propanoic acid" BROAD []
synonym: "cas: 131404-69-8" EXACT []
synonym: "go: GO:0018228" EXACT []
synonym: "mod: MOD:00113" EXACT []
synonym: "pdb.ligand: GER" EXACT []
synonym: "resid: AA0104" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: C/C(=C\CC/C(=C/CSC[C@@H](C(=O)O)[NH3+])/C)/CC/C=C(/CCC=C(C)C)\C
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15
r_displaced_atoms: H15

[Term]
id: BpForms:protein:AA0258
name: S-phycobiliviolin-L-cysteine
def: "The phycoviolobilins transmit violet. It has not been established whether the chromophores that have been referred to as cryptoviolins have the same structure as phycoviolobilin." []
synonym: "(4S)-3-[(1R)-1-(((2R)-2-amino-2-carboxy)ethylsulfanyl)ethyl]-8,12-bis(2-carboxyethyl)-18-ethyl-4,5-dihydro-2,7,13,17-tetramethyl-(21H,22H,24H)-biladiene-bc-1,19-dione" BROAD []
synonym: "PBV" BROAD []
synonym: "PVB" BROAD []
synonym: "PXB" BROAD []
synonym: "S-phycobiliviolin-L-cysteine" BROAD []
synonym: "cas: 124861-40-1" EXACT []
synonym: "cryptobiliviolin" BROAD []
synonym: "cryptoviolin" BROAD []
synonym: "cryptoviolobilin" BROAD []
synonym: "go: GO:0017008" EXACT []
synonym: "mod: MOD:00263" EXACT []
synonym: "pdb.ligand: PVN" EXACT []
synonym: "resid: AA0258" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CS[C@@H](C1=C(C)C(=O)N[C@H]1Cc1[nH]c(c(c1C)CCC(=O)[O-])Cc1[nH]c(c(c1CCC(=O)[O-])C)/C=C\1/NC(=O)C(=C1C)CC)C)[NH3+]
l_bond_atoms: N14
l_displaced_atoms: H14
r_bond_atoms: C27
r_displaced_atoms: O29-1

[Term]
id: BpForms:protein:O
name: N6-(4-methyl-delta-1-pyrroline-5-carboxyl)-L-lysine
def: "Pyrrolysine is encoded by the UAG codon in some genetic systems. Although the single letter symbol O is recommended by IUBMB, most software applications fail to recognize it, and many sequence databases use the single letter symbol K. Proposed enzyme names are presented. There is evidence for the third reaction with an ornithine substrate, but not yet for the 3-methylornithine substrate, and the redox cofactor has not been identified. Generating Enzyme: lysine--tRNA(Pyl) ligase (EC 6.1.1.25); pyrrolysine--tRNA(Pyl) ligase (EC 6.1.1.26); (3R)-3methyl-D-ornithine carboxy-aminomethylmutase, PylB (EC 5.4.99.-); (3R)-3-methyl-D-ornithine--L-lysine ligase, PylC (EC 6.3.2.-); N6-[(3R)-3-methyl-D-ornithinyl]-L-lysine N5-ornithine dehydrogenase, PylD (EC 1.4.1.-)." []
synonym: "(2S)-2-amino-6-[(2R,3R)-3-methyl-3,4-dihydro-2H-pyrrol-2-ylcarbonyl]aminohexanoic acid" BROAD []
synonym: "2-azanyl-6-[(2R,3R)-3-methyl-3,4-dihydro-2H-pyrrol-2-ylcarbonyl]azanylhexanoic acid" BROAD []
synonym: "N6-(4-methyl-1,2-didehydropyrrolidine-5-carboxyl)-L-lysine" BROAD []
synonym: "N6-(4-methyl-delta-1-pyrroline-5-carboxyl)-L-lysine" BROAD []
synonym: "N6-([(2R,3R)-3-methyl-3,4-dihydro-2H-pyrrol-2-yl]carbonyl)-L-lysine" BROAD []
synonym: "cas: 448235-52-7" EXACT []
synonym: "chebi: CHEBI:21860" EXACT []
synonym: "go: GO:0030631" EXACT []
synonym: "mod: MOD:00326" EXACT []
synonym: "mod: MOD:01187" EXACT []
synonym: "monomethylamine methyltransferase cofactor lysine adduct" BROAD []
synonym: "pdb.ligand: BGX" EXACT []
synonym: "resid: AA0321" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: OC(=O)[C@H](CCCCNC(=O)[C@@H]1[NH2+]CC[C@H]1C)[NH3+]
l_bond_atoms: N23-1
l_displaced_atoms: H23
l_displaced_atoms: H23+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:I, S
name: L-isoleucine oxazole-4-carboxylic acid
def: "Formed by the condensation of a cysteine thiol with the carbonyl of the preceding residue and alpha-beta dehydrogenation. Generating Enzyme: peptidyl-serine cyclase (EC 4.2.1.-); peptidyl-oxazoline dehydrogenase (EC 1.3.-.-)." []
synonym: "2-[(1S,2S)-1-amino-2-methylbutyl]-1,3-oxazole-4-carboxylic acid" BROAD []
synonym: "2-[(1S,2S)-1-azanyl-2-methylbutyl]-1,3-oxazole-4-carboxylic acid" BROAD []
synonym: "mod: MOD:01902" EXACT []
synonym: "resid: AA0573" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: C[C@H]([C@H]([NH3+])c1nc(co1)C(=O)O)CC
l_bond_atoms: N11
r_bond_atoms: C15
r_displaced_atoms: O17
r_displaced_atoms: H17

[Term]
id: BpForms:protein:C, T
name: L-threonine thiazoline-4-carboxylic acid
def: "Formed by the condensation of a cysteine thiol with the carbonyl of the preceding residue. The ring may be oxidized to thiazole and then reduced from the opposite side effectively inverting the cysteine alpha-carbon chirality. Generating Enzyme: peptidyl-cysteine cyclase (EC 4.2.1.-)." []
synonym: "(4S)-2-[(1S,2R)-1-amino-2-hydroxypropyl]-4,5-dihydro-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "2-[1-azanyl-2-hydroxypropyl]-4,5-dihydro-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "mod: MOD:01408" EXACT []
synonym: "pdb.ligand: BB9" EXACT []
synonym: "resid: AA0485" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: C[C@H]([C@@H]([C@H]1SC[C@H](N1)C(=O)O)[NH3+])O
l_bond_atoms: N12
l_displaced_atoms: H12
r_bond_atoms: C13
r_displaced_atoms: O15
r_displaced_atoms: H15

[Term]
id: BpForms:protein:AA0497
name: O-(2-aminoethylphosphoryl)-L-serine
synonym: "(2S)-2-amino-3-([(2-aminoethoxy)(hydroxy)phosphoryl]oxy)propanoic acid" BROAD []
synonym: "O3-(2-aminoethylphosphoryl)-L-serine" BROAD []
synonym: "O3-(phosphoethanolamine)-L-serine" BROAD []
synonym: "cas: 1186-34-1" EXACT []
synonym: "mod: MOD:01587" EXACT []
synonym: "pdb.ligand: OPE" EXACT []
synonym: "resid: AA0497" EXACT []
synonym: "serine ethanolamine phosphate" BROAD []
synonym: "serine ethanolamine phosphodiester" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [O-]P(=O)(OCC[NH3+])OC[C@H]([NH3+])C(=O)O
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C19
r_displaced_atoms: O21
r_displaced_atoms: H21

[Term]
id: BpForms:protein:AA0099
name: L-tyrosine amide
def: "Generating Enzyme: peptidylglycine monooxygenase (EC 1.14.17.3)." []
synonym: "(2S)-2-amino-3-(4-hydoxyphenyl)propanamide" BROAD []
synonym: "cas: 4985-46-0" EXACT []
synonym: "chebi: CHEBI:21412" EXACT []
synonym: "go: GO:0018052" EXACT []
synonym: "mod: MOD:00108" EXACT []
synonym: "pdb.ligand: NH2" EXACT []
synonym: "resid: AA0099" EXACT []
synonym: "tyrosinamide" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [NH3+][C@H](C(=O)N)Cc1ccc(cc1)O
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1

[Term]
id: BpForms:protein:G, S
name: L-serine 5-imidazolinone glycine
def: "This entry represents the cross-link of the peptide backbone from the alpha-carboxyl carbon of residue N, a serine, to the alpha-amino nitrogen of residue N+2, a glycine, coupled with the formation of a double bond to the alpha-amino nitrogen of residue N+1 which loses one hydrogen, and the loss of a molecule of water. This cross-link is accompanied by modification of residue N+1. The modified residue N+1 is presented in a separate entry and is not included in the mass accounting of this entry. The backbone atoms of residue N+1 are shown in gray in the diagram. The chirality of residue N is (R) rather then (S) because of the reversed order of precedence with respect to the beta-carbon methoxy group of the 5-imidazolinone group replacing the carboxyl group. The modification of serine to dehydroalanine coupled with the formation of 5-imidazolinone by the two neighboring residues produces the 4-methylidene-imidazole-5-one (MIO) active site of some amino acid ammonia-lyases that differs by UV and mass spectrometric evidence from other known dehydroalanine containing peptides not containing the second modification. Generating Enzyme: autocatalytic." []
synonym: "(2-[(1R)-1-amino-2-hydroxyethyl]-5-oxo-4,5-dihydro-1H-imidazol-1-yl)acetic acid" BROAD []
synonym: "2-[(4Z)-2-[(1R)-1-azanyl-2-oxidanyl-ethyl]-4-[(4-hydroxyphenyl)methylidene]-5-oxidanylidene-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "2-[1-amino-2-hydroxyethyl]-1-carboxymethyl-1-imidazolin-5-one" BROAD []
synonym: "4-methylidene-imidazole-5-one (MIO) active site" BROAD []
synonym: "SYG" BROAD []
synonym: "[(4Z)-2-[(1R)-1-amino-2-hydroxyethyl]-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1H-imidazol-1-yl]acetic acid" BROAD []
synonym: "[(4z)-2-(1-amino-2-hydroxyethyl)-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1h-imidazol-1-yl]acetic acid" BROAD []
synonym: "go: GO:0018252" EXACT []
synonym: "green fluorescent protein chromophore" BROAD []
synonym: "mod: MOD:00192" EXACT []
synonym: "para-hydroxybenzylidene-imidazolidinone chromophore" BROAD []
synonym: "pdb-ccd: GYS" EXACT []
synonym: "pdb.ligand: GYS" EXACT []
synonym: "resid: AA0184" EXACT []
synonym: "seryl-5-imidazolinone glycine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC[C@@H](C1=NCC(=O)N1CC(=O)O)[NH3+]
l_bond_atoms: N6
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:C, E
name: 2-(cystein-S-ylcarbonyl)-3-methyl-4-(glutam-5-yloxy)methylindole
def: "This modification is currently represented in the PDB as part of the HET group for the entire molecule of nosiheptide." []
synonym: "2-([(1R)-1-amino-1-carboxyeth-2-yl]sulfanyl)carbonyl-3-methyl-4-([(1S)-1-amino-1-carboxy-4-oxobutan-4-yl]oxy)methyl-1H-indole" BROAD []
synonym: "2-(cystein-S-ylcarbonyl)-4-[(glutam-5-yloxy)methyl]-3-methyl-1H-indole" BROAD []
synonym: "mod: MOD:01435" EXACT []
synonym: "pdb.ligand: NO1" EXACT []
synonym: "resid: AA0488" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CCC(=O)OCc1cccc2c1c(C)c([nH]2)C(=O)SC[C@@H](C(=O)O)N)[NH3+]
l_bond_atoms: N31
l_displaced_atoms: H31
r_bond_atoms: C28
r_displaced_atoms: O30
r_displaced_atoms: H30

[Term]
id: BpForms:protein:AA0409
name: L-2-aminobutanoic acid
def: "Exposure of green fluorescent protein to 254 nm UV light or to 390 nm visible light causes gamma decarboxylation of glutamic acid 222. Unlike the threonine in 3-methylanthionine, the L configuration (S chirality) of the 2-aminobutanoate skeleton is maintained. Generating Enzyme: autocatalytic." []
synonym: "(S)-2-aminobutanoic acid" BROAD []
synonym: "L-2-amino-n-butyric acid" BROAD []
synonym: "L-2-aminobutyric acid" BROAD []
synonym: "L-alpha-amino-n-butyric acid" BROAD []
synonym: "L-alpha-aminobutyric acid" BROAD []
synonym: "L-butyrine" BROAD []
synonym: "cas: 1492-24-6" EXACT []
synonym: "chebi: CHEBI:35619" EXACT []
synonym: "mod: MOD:00819" EXACT []
synonym: "pdb.ligand: ABA" EXACT []
synonym: "resid: AA0409" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: CC[C@H]([NH3+])C(=O)O
l_bond_atoms: N5-1
l_displaced_atoms: H5
l_displaced_atoms: H5+1
r_bond_atoms: C9
r_displaced_atoms: O11
r_displaced_atoms: H11

[Term]
id: BpForms:protein:AA0180
name: 6'-chloro-L-tryptophan
synonym: "(2S)-2-amino-3-(6-chloro-1H-indol-3-yl)propanoic acid" BROAD []
synonym: "6-chloro-L-tryptophan" BROAD []
synonym: "6-chloro-l-tryptophan" BROAD []
synonym: "W" BROAD []
synonym: "cas: 17808-35-4" EXACT []
synonym: "mod: MOD:00886" EXACT []
synonym: "pdb-ccd: 6CW" EXACT []
synonym: "pdb.ligand: 6CW" EXACT []
synonym: "resid: AA0180" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: OC(=O)[C@H](Cc1c[nH]c2c1ccc(c2)Cl)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0045
name: N-acetyl-L-glutamine
def: "The occurrence of this modification has not been confirmed. Formerly, its annotation in sequence databases was due to either the misidentification of 2-pyrrolidone-5-carboxylic acid, or inappropriate homolog comparisons when proteolytic modification was more probable." []
synonym: "(2S)-2-acetamido-5-pentanediamic acid" BROAD []
synonym: "2-acetylamino-5-amino-5-oxopentanoic acid" BROAD []
synonym: "2-acetylamino-5-pentanediamic acid" BROAD []
synonym: "2-acetylazanyl-5-azanyl-5-oxopentanoic acid" BROAD []
synonym: "acetylglutamine" BROAD []
synonym: "cas: 2490-97-3" EXACT []
synonym: "chebi: CHEBI:21553" EXACT []
synonym: "go: GO:0017192" EXACT []
synonym: "mod: MOD:00054" EXACT []
synonym: "resid: AA0045" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Q ! L-glutamine
structure: NC(=O)CC[C@@H](C(=O)O)NC(=O)C
l_bond_atoms: N11
l_displaced_atoms: H11
r_bond_atoms: C8
r_displaced_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:protein:AA0448
name: (3R,4S)-4-hydroxyisoleucine
def: "In peptide sequencing work prior to 1968, this modification was reported as a beta-methylleucine derivative that could arise by either beta-methylation of leucine or gamma-methylation of isoleucine. The correct structure has been determined to be derived from isoleucine without methylation." []
synonym: "(2S,3R,4S)-2-amino-3-methyl-4-hydroxyvaleric acid" BROAD []
synonym: "(2S,3R,4S)-2-amino-4-hydroxy-3-methylpentanoic acid" BROAD []
synonym: "(3R,4S)-4-hydroxyisoleucine" BROAD []
synonym: "gamma-hydroxyisoleucine" BROAD []
synonym: "mod: MOD:01377" EXACT []
synonym: "resid: AA0448" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:I ! L-isoleucine
structure: C[C@@H]([C@@H]([C@@H](C(=O)O)[NH3+])C)O
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:protein:AA0174
name: L-2'-bromophenylalanine
synonym: "(S)-2-amino-3-(2-bromophenyl)propanoic acid" BROAD []
synonym: "cas: 42538-40-9" EXACT []
synonym: "go: GO:0018075" EXACT []
synonym: "mod: MOD:00183" EXACT []
synonym: "o-bromophenylalanine" BROAD []
synonym: "ortho-bromophenylalanine" BROAD []
synonym: "resid: AA0174" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: OC(=O)[C@H](Cc1ccccc1Br)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0147
name: L-2',4',5'-topaquinone
synonym: "(2S)-2-amino-3-(4-hydroxy-3,6-dioxo-1-cyclohexa-1,4-dienyl)propanoic acid" BROAD []
synonym: "(2S)-2-amino-3-(5-hydroxy-2,5-cyclohexadien-1,4-dion-2-yl)propanoic acid" BROAD []
synonym: "2,4,5-trihydroxyphenylalanine quinone" BROAD []
synonym: "3-(4-hydroxy-3,6-dioxocyclohexa-1,4-dien-1-yl)-L-alanine" BROAD []
synonym: "5-(2-carboxy-2-aminoethyl)-2-hydroxy-1,4-benzoquinone" BROAD []
synonym: "L-2,4,5-TOPAquinone" BROAD []
synonym: "TPQ" BROAD []
synonym: "Y" BROAD []
synonym: "chebi: CHEBI:21187" EXACT []
synonym: "go: GO:0018068" EXACT []
synonym: "mod: MOD:00156" EXACT []
synonym: "pdb-ccd: TPQ" EXACT []
synonym: "pdb.ligand: TPQ" EXACT []
synonym: "resid: AA0147" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C1=CC(=O)C(=CC1=O)C[C@H]([NH3+])C(=O)O
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C17
r_displaced_atoms: O19
r_displaced_atoms: H19

[Term]
id: BpForms:protein:AA0534
name: N,N-dimethyl-L-serine
def: "For alpha-aino acids, both N-alpha-monomethylation, and N-alpha protonation and complete trimethylation have been observed, but incomplete dimethylation has not been reported as the end result of a natural process. Generating Enzyme: N-terminal RCC1 methyltransferase (EC 2.1.1.-)." []
synonym: "(2S)-2-(dimethylamino)propanoic acid" BROAD []
synonym: "N,N-dimethylserine" BROAD []
synonym: "go: GO:0035570" EXACT []
synonym: "mod: MOD:01783" EXACT []
synonym: "resid: AA0534" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC[C@@H](C(=O)O)N(C)C
r_bond_atoms: C5
r_displaced_atoms: O7
r_displaced_atoms: H7

[Term]
id: BpForms:protein:AA0384
name: N-formyl-L-proline
synonym: "(2S)-1-formylpyrrolidine-2-carboxylic acid" BROAD []
synonym: "1-formyl-2-pyrrolidinecarboxylic acid" BROAD []
synonym: "1-formylproline" BROAD []
synonym: "cas: 13200-83-4" EXACT []
synonym: "go: GO:0051364" EXACT []
synonym: "mod: MOD:00389" EXACT []
synonym: "resid: AA0384" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: O=CN1CCC[C@H]1C(=O)O
r_bond_atoms: C9
r_displaced_atoms: O11
r_displaced_atoms: H11

[Term]
id: BpForms:protein:C, P
name: L-proline 5-hydroxy-oxazole-4-carbothionic acid
def: "The amino group of the following amino acid forms a thiopeptide bond. The amino(sulfanyl)methylidene tautomeric form is shown in the diagram and model. The biosynthesis of this modification from the encoded cysteine peptide has not been elaborated." []
synonym: "(4Z)-4-[hydroxy(sulfanyl)methylidene]-2-[(2S)-pyrrolidin-2-yl]-1,3-oxazol-5(4H)-one [tautomer]" BROAD []
synonym: "5-hydroxy-2-[(2S)-pyrrolidin-2-yl]-1,3-oxazole-4-carbothioic O-acid" BROAD []
synonym: "mod: MOD:01845" EXACT []
synonym: "pdb.ligand: 66G" EXACT []
synonym: "resid: AA0551" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [S-]/C=C/1\N=C(OC1=O)[C@@H]1CCC[NH2+]1
l_bond_atoms: N4

[Term]
id: BpForms:protein:AA0327
name: omega-N-glucosyl-L-arginine
def: "Although proposed as the origin for plant starch, the anomeric isomer was beta, rather than alpha, and only a monosaccharide was observed. Generating Enzyme: amylogenin glucosyltransferase (EC 2.4.1.-)." []
synonym: "(2S)-2-amino-5-(beta-D-glucopyranosyl[imino(methylamino)methyl]amino)pentanoic acid" BROAD []
synonym: "NG-beta-D-glucosylarginine" BROAD []
synonym: "go: GO:0042543" EXACT []
synonym: "mod: MOD:00332" EXACT []
synonym: "omega-N-(beta-D-glucosyl)-L-arginine" BROAD []
synonym: "omega-N-glycosyl-L-arginine" BROAD []
synonym: "resid: AA0327" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: OC[C@H]1O[C@@H](N/C(=[NH+]\CCC[C@@H](C(=O)O)[NH3+])/N)[C@@H]([C@H]([C@@H]1O)O)O
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C17
r_displaced_atoms: O19
r_displaced_atoms: H19

[Term]
id: BpForms:protein:AA0201
name: L-isoglutamyl-polyglycine
def: "Generating Enzyme: glycine:protein-glutamate gamma-ligase (ADP-forming) (EC 6.3.2.-); glycine:protein-glutamyl(gamma-polyglycine) N-ligase (ADP-forming) (EC 6.3.2.-)." []
synonym: "21343" BROAD []
synonym: "ChEBI" BROAD []
synonym: "chebi: CHEBI:21343" EXACT []
synonym: "gamma-glutamylpolyglycineCross-references" BROAD []
synonym: "go: GO:0018094" EXACT []
synonym: "mod: MOD:00206" EXACT []
synonym: "resid: AA0201" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: O=C[C@H](CCC(=O)NCC(=O)[O-])[NH3+]
l_bond_atoms: N9
l_displaced_atoms: H9
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:AA0105
name: L-cysteine methyl ester
def: "The term "carboxyl methylation" applies to this modification. The terms "carboxy methylation" and "carboxymethylation" are sometimes used incorrectly for this modification. Since those terms mean "replacement by a methylcarboxylic acid", they actually refer to a different, artifactual modification. Generating Enzyme: protein-S-isoprenylcysteine O-methyltransferase (EC 2.1.1.100)." []
synonym: "2-amino-3-mercaptopropanoic methyl ester" BROAD []
synonym: "2-amino-3-sulfanylpropanoic methyl ester" BROAD []
synonym: "C" BROAD []
synonym: "cas: 2485-63-3" EXACT []
synonym: "chebi: CHEBI:61989" EXACT []
synonym: "go: GO:0018229" EXACT []
synonym: "mecysteine" BROAD []
synonym: "methyl (2R)-2-amino-3-sulfanyl-propanoate" BROAD []
synonym: "methyl (2R)-2-amino-3-sulfanylpropanoate" BROAD []
synonym: "methyl L-cysteinate" BROAD []
synonym: "mod: MOD:00114" EXACT []
synonym: "o-methylcysteine" BROAD []
synonym: "pdb-ccd: CMT" EXACT []
synonym: "pdb.ligand: CMT" EXACT []
synonym: "resid: AA0105" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: COC(=O)[C@H](CS)N
l_bond_atoms: N9
l_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0349
name: O3-(riboflavin phosphoryl)-L-threonine
synonym: "(2S,3R)-2-amino-3-(riboflavin 5'-hydrogen phosphonoxy)butanoic acid" BROAD []
synonym: "O3-threonyl FMN" BROAD []
synonym: "O3-threonyl flavin mononucleotide" BROAD []
synonym: "go: GO:0050740" EXACT []
synonym: "mod: MOD:00354" EXACT []
synonym: "resid: AA0349" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: O=c1[nH]c(=O)c2c([nH]1)n(C[C@@H]([C@@H]([C@@H](CO[P@@](=O)(O[C@@H]([C@@H](C(=O)O)[NH3+])C)[O-])O)O)O)c1=C[C@H](C(=Cc1n2)C)C
l_bond_atoms: N31-1
l_displaced_atoms: H31
l_displaced_atoms: H31+1
r_bond_atoms: C28
r_displaced_atoms: O30
r_displaced_atoms: H30

[Term]
id: BpForms:protein:AA0511
name: glycyl phospho-5'-adenosine
synonym: "(2-aminoacetyl)oxy-([(2R,3R,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy)phosphinic acid" BROAD []
synonym: "([(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl)-2-aminoethanoate" BROAD []
synonym: "5'-adenylic-glyinate" BROAD []
synonym: "aminoacetyl [5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl hydrogen phosphate" BROAD []
synonym: "cas: 35985-26-3" EXACT []
synonym: "glycine monoanhydride with 5'-adenylic acid" BROAD []
synonym: "glycyl 5'-adenylate" BROAD []
synonym: "glycyl adenosine-5'-phosphate" BROAD []
synonym: "glycyladenylate" BROAD []
synonym: "mod: MOD:01614" EXACT []
synonym: "pdb.ligand: AMP" EXACT []
synonym: "resid: AA0511" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:G ! glycine
structure: NCC(=O)O[P@](=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1NC=N[C@H]2N)[O-]
l_bond_atoms: N1
l_displaced_atoms: H1

[Term]
id: BpForms:protein:D, G
name: 2-imino-alanine 5-imidazolinone glycine
def: "This entry represents the cross-link of the peptide backbone from the alpha-carboxyl carbon of residue N, an aspartic acid, to the alpha-amino nitrogen of residue N+2, a glycine, coupled with the formation of a double bond to the alpha-amino nitrogen of residue N, the loss of a molecule of water, and the beta-decarboxylation of the aspartic acid. This cross-link is accompanied by modification of residue N+1. The modified residue N+1 is presented in a separate entry and is not included in the mass accounting of this entry. The backbone atoms of residue N+1 are shown in gray in the diagram. Generating Enzyme: autocatalytic." []
synonym: "(2-ethanimidoyl-5-oxo-4,5-dihydro-1H-imidazol-1-yl)acetic acid" BROAD []
synonym: "2,N-didehydroalanyl-5-imidazolinone glycine" BROAD []
synonym: "2-(1-iminoethyl)-1-carboxymethyl-1-imidazolin-5-one" BROAD []
synonym: "2-[(4Z)-2-ethanimidoyl-4-[(4-hydroxyphenyl)methylidene]-5-oxo-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "2-imino-alanyl-5-imidazolinone glycine" BROAD []
synonym: "DYG" BROAD []
synonym: "[(4z)-2-[(1z)-ethanimidoyl]-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1h-imidazol-1-yl]acetic acid" BROAD []
synonym: "[2-(1-iminoethyl)-5-oxo-4,5-dihydro-imidazol-1-yl]-acetic acid" BROAD []
synonym: "alanyl-5-imidazolinone glycine" BROAD []
synonym: "mod: MOD:00820" EXACT []
synonym: "para-hydroxybenzylidene-imidazolidinone chromophore" BROAD []
synonym: "pdb-ccd: XYG" EXACT []
synonym: "pdb.ligand: XYG" EXACT []
synonym: "red fluorescent protein zRFP574 chromophore" BROAD []
synonym: "resid: AA0410" EXACT []
synonym: "{(4Z)-2-[(1E)-ethanimidoyl]-4-[(4-hydroxyphenyl)methylidene]-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:G ! glycine
structure: OC(=O)CN1C(=O)CN=C1C(=N)C
l_bond_atoms: N9
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0517
name: N-(12-oxomyristoyl)-L-cysteine
synonym: "2-(12-oxotetradecanoyl)amino-3-sulfanylpropanoic acid" BROAD []
synonym: "N-(12-oxotetradecanoyl)cysteine" BROAD []
synonym: "mod: MOD:01691" EXACT []
synonym: "resid: AA0517" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: CCC(=O)CCCCCCCCCCC(=O)N[C@H](C(=O)O)CS
l_bond_atoms: N17
l_displaced_atoms: H17
r_bond_atoms: C20
r_displaced_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:protein:AA0157
name: O4'-glycosyl-L-tyrosine
def: "The carbohydrate is glucose, the origin for glycogen. One to eleven alpha-1,4-linked glucose units may be auto-catalytically attached. See also RESID:AA0577 for other O-glycosylated tyrosines. Generating Enzyme: glycogenin glucosyltransferase (EC 2.4.1.186)." []
synonym: "(2S)-2-amino-3-(4-alpha-D-glucopyranosyloxy)phenylpropanoic acid" BROAD []
synonym: "O4'-glycosyl-L-tyrosine" BROAD []
synonym: "go: GO:0006493" EXACT []
synonym: "mod: MOD:00166" EXACT []
synonym: "resid: AA0157" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: OC[C@H]1O[C@H](Oc2ccc(cc2)C[C@@H](C(=O)O)[NH3+])[C@@H]([C@H]([C@@H]1O)O)O
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C18
r_displaced_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:protein:AA0302
name: L-aspartimide
def: "This modification is autocatalytically produced from the carboxyl-terminal asparagine of spliced inteins. This modification is produced by the MccB enzyme as an intermediate in the process of biosynthesizing (3-aminopropyl)(L-aspartyl-1-amino)phosphoryl-5'-adenosine. See RESID:AA0328." []
synonym: "(3S)-3-amino-2,5-pyrrolidinedione" BROAD []
synonym: "(3S)-3-aminopyrrolidine-2,5-dione" BROAD []
synonym: "2-amino-butanimide" BROAD []
synonym: "ASI" BROAD []
synonym: "L-2-aminosuccinimide" BROAD []
synonym: "L-3-aminosuccinimide [misnomer]" BROAD []
synonym: "L-asparaginimide" BROAD []
synonym: "N" BROAD []
synonym: "alpha-aminosuccinimide" BROAD []
synonym: "cas: 5615-80-5" EXACT []
synonym: "go: GO:0019801" EXACT []
synonym: "l-3-aminosuccinimide" BROAD []
synonym: "mod: MOD:00307" EXACT []
synonym: "pdb-ccd: SNN" EXACT []
synonym: "pdb.ligand: SNN" EXACT []
synonym: "resid: AA0302" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: O=C1C[C@@H](C(=O)N1)N
l_bond_atoms: N8
l_displaced_atoms: H8

[Term]
id: BpForms:protein:AA0580
name: 3-hydroxy-L-histidine
def: "This modified histidine has been found in an ankyrin repeat domain in a position occupied by asparagine in homologous sequences. The diastereomeric form has not been determined. Generating Enzyme: peptide-histidine beta-dioxygenase (EC 1.14.11.-)." []
synonym: "(2S)-2-amino-3-hydroxy-3-(1H-imidazol-4-yl)propanoic acid" BROAD []
synonym: "mod: MOD:01920" EXACT []
synonym: "resid: AA0580" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: N[C@H](C(=O)O)[C@H](c1c[nH]cn1)O
l_bond_atoms: N1
l_displaced_atoms: H1
r_bond_atoms: C4
r_displaced_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:protein:AA0481
name: L-asparagine thiazole-4-carboxylic acid
def: "Formed by the condensation of a cysteine thiol with the carbonyl of the preceding residue and alpha-beta dehydrogenation. Generating Enzyme: peptidyl-cysteine cyclase (EC 4.2.1.-); peptidyl-thiazoline dehydrogenase (EC 1.3.-.-)." []
synonym: "2-[(1S)-1,3-diamino-3-oxopropyl]-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "2-[1,3-bisazanyl-3-oxopropyl]-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "mod: MOD:01404" EXACT []
synonym: "resid: AA0481" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: NC(=O)C[C@@H](c1scc(n1)C(=O)O)N
l_bond_atoms: N11
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:AA0060
name: N-palmitoyl-L-cysteine
def: "In bacteria, the enzyme producing this modification may use a mixture of saturated and unsaturated fatty acids and act in close association with the enzyme producing S-diacylglycerol-L-cysteine (see RESID:AA0107). The signal peptide that is cleaved immediately before the modified cysteine typically ends in the motif [ILMV]X[AGS]C. In eukaryotes, the enzyme acts in the absence of modification of the cysteine thiol and may proceed after initial S-acylation (see RESID:AA0106) through a cyclic intermediate to the final N-acyl form. The eukaryotic enzyme appears to act more efficiently following formation of a carboxyl-terminal cholesterol ester (see RESID:AA0309). This modification should not be confused with S-palmitoyl-cysteine (see RESID:AA0106). Generating Enzyme: protein-cysteine N-palmitoyltransferase (EC 2.3.1.-)." []
synonym: "(2R)-2-hexadecanoylamino-3-sulfanylpropanoic acid" BROAD []
synonym: "2-hexadecanamido-3-sulfanylpropanoic acid" BROAD []
synonym: "2-hexadecanoylamino-3-mercaptopropanoic acid" BROAD []
synonym: "N-(1-oxahexadecyl)-L-cysteine" BROAD []
synonym: "cas: 67603-49-0" EXACT []
synonym: "go: GO:0018009" EXACT []
synonym: "mod: MOD:00069" EXACT []
synonym: "resid: AA0060" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: CCCCCCCCCCCCCCCC(=O)N[C@H](C(=O)O)CS
l_bond_atoms: N18
l_displaced_atoms: H18
r_bond_atoms: C21
r_displaced_atoms: O23
r_displaced_atoms: H23

[Term]
id: BpForms:protein:AA0212
name: O4-arabinosyl-L-hydroxyproline
def: "See also RESID:AA0389 and RESID:AA0390 for other O4-glycosylated 4-hydroxyprolines. Generating Enzyme: [protein]-hydroxyproline O-arabinosyltransferase (EC 2.4.1.-)." []
synonym: "(2S,4R)-4-(beta-L-arabinofuranosyloxy)pyrrolidine-2-carboxylic acid" BROAD []
synonym: "4-(beta-L-arabinofuranosyloxy)proline" BROAD []
synonym: "O4-glycosyl-hydroxyproline" BROAD []
synonym: "beta-arabinofuranosyl-4-hydroxyproline" BROAD []
synonym: "go: GO:0006493" EXACT []
synonym: "mod: MOD:00217" EXACT []
synonym: "resid: AA0212" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: OC[C@@H]1O[C@H]([C@@H]([C@H]1O)O)O[C@H]1C[NH2+][C@@H](C1)C(=O)O
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C24
r_displaced_atoms: O26
r_displaced_atoms: H26

[Term]
id: BpForms:protein:AA0482
name: L-proline thiazole-4-carboxylic acid
def: "Formed by the condensation of a cysteine thiol with the carbonyl of the preceding residue and alpha-beta dehydrogenation. Generating Enzyme: peptidyl-cysteine cyclase (EC 4.2.1.-); peptidyl-thiazoline dehydrogenase (EC 1.3.-.-)." []
synonym: "2-[(2S)-pyrrolidin-2-yl]-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "mod: MOD:01405" EXACT []
synonym: "resid: AA0482" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: OC(=O)c1csc(n1)[C@@H]1CCC[NH2+]1
l_bond_atoms: N8
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0306
name: L-cysteine coenzyme A disulfide
synonym: "(2R)-2-amino-3-(2-((3-(((2R)-2,4-dihydroxy-3,3-dimethyl-1-oxobutyl)amino)-1-oxopropyl)amino)ethyl)dithio-propanoic acid 4'-ester with adenosine 5'-(trihydrogen diphosphate) 3'-(dihydrogen phosphate)" BROAD []
synonym: "coenzyme A L-cysteine mixed disulfide" BROAD []
synonym: "go: GO:0019703" EXACT []
synonym: "mod: MOD:00311" EXACT []
synonym: "resid: AA0306" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C(NCCSSC[C@@H](C(=O)O)[NH3+])CCNC(=O)[C@@H](C(COP(=O)(OP(=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1OP(=O)([O-])[O-])O)n1cnc2c1ncnc2N)[O-])[O-])(C)C)O
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:protein:AA0309
name: glycine cholesterol ester
def: "This modification occurs at the carboxyl end released during autolytic cleavage." []
synonym: "cas: 57-88-5" EXACT []
synonym: "cholesteryl glycinate" BROAD []
synonym: "glycine cholest-5-en-3beta-ol ester" BROAD []
synonym: "go: GO:0019708" EXACT []
synonym: "hedgehog lipophilic adduct" BROAD []
synonym: "mod: MOD:00314" EXACT []
synonym: "resid: AA0309" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:G ! glycine
structure: NCC(=O)O[C@H]1CC[C@]2(C(=CC[C@@H]3[C@@H]2CC[C@]2([C@H]3CC[C@@H]2[C@@H](CCCC(C)C)C)C)C1)C
l_bond_atoms: N1
l_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0079
name: O-palmitoyl-L-threonine
def: "The palmitate represents a mixture of saturated and unsaturated fatty acids." []
synonym: "(2S,3R)-2-amino-3-(hexadecanoyloxy)butanoic acid" BROAD []
synonym: "L-threonine hexadecanoate ester" BROAD []
synonym: "O3-palmitoyl-threonine" BROAD []
synonym: "cas: 88467-30-5" EXACT []
synonym: "go: GO:0018220" EXACT []
synonym: "mod: MOD:00088" EXACT []
synonym: "resid: AA0079" EXACT []
synonym: "threonine palmitate ester" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: CCCCCCCCCCCCCCCC(=O)O[C@@H]([C@@H](C(=O)O)[NH3+])C
l_bond_atoms: N26-1
l_displaced_atoms: H26
l_displaced_atoms: H26+1
r_bond_atoms: C23
r_displaced_atoms: O25
r_displaced_atoms: H25

[Term]
id: BpForms:protein:AA0155
name: O-(N-acetylaminogalactosyl)-L-threonine
def: "See also RESID:AA0247, RESID:AA0399, RESID:AA0401, RESID:AA0403, RESID:AA0405, and RESID:AA0515 for other O-glycosylated threonines. Generating Enzyme: polypeptide N-acetylgalactosaminyltransferase (EC 2.4.1.41)." []
synonym: "(2S,3R)-2-amino-3-(2-acetamido-2-deoxy-alpha-D-galactopyranosyloxy)butanoic acid" BROAD []
synonym: "O3-(N-acetylgalactosaminyl)threonine" BROAD []
synonym: "chebi: CHEBI:53605" EXACT []
synonym: "go: GO:0006493" EXACT []
synonym: "mod: MOD:00164" EXACT []
synonym: "mucin type O-glycosylthreonine" BROAD []
synonym: "pdb.ligand: GTH" EXACT []
synonym: "resid: AA0155" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: OC[C@H]1O[C@@H](O[C@@H]([C@@H](C(=O)O)[NH3+])C)[C@@H]([C@H]([C@H]1O)O)NC(=O)C
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15
r_displaced_atoms: H15

[Term]
id: BpForms:protein:AA0554
name: L-threonine 5-hydroxy-oxazole-4-carbonthionic acid
def: "The amino group of the following amino acid forms a thiopeptide bond. This is an amino(sulfanyl)methylidene in the tautomeric form, which is shown in the diagram and model." []
synonym: "(4Z)-2-[(1S,2R)-1-amino-2-hydroxypropyl]-4-(sulfanylmethylidene)-1,3-oxazol-5(4H)-one [tautomer]" BROAD []
synonym: "2-[(1S,2R)-1-amino-2-hydroxypropyl]-5-hydroxy-1,3-oxazole-4-carbothioic O-acid" BROAD []
synonym: "mod: MOD:01878" EXACT []
synonym: "resid: AA0554" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [S-]/C=C/1\N=C(OC1=O)[C@H]([C@H](O)C)[NH3+]
l_bond_atoms: N4

[Term]
id: BpForms:protein:AA0239
name: L-cysteine oxazoline-4-carboxylic acid
def: "Formed by the condensation of a serine hydroxyl with the carbonyl of the preceding residue. Generating Enzyme: peptidyl-serine cyclase (EC 4.2.1.-)." []
synonym: "(4S)-2-[(1R)-1-amino-2-sulfanylethyl]-4,5-dihydro-1,3-oxazole-4-carboxylic acid" BROAD []
synonym: "2-[1-azanyl-2-sulfanylethyl]-4,5-dihydro-1,3-oxazole-4-carboxylic acid" BROAD []
synonym: "go: GO:0018133" EXACT []
synonym: "mod: MOD:00244" EXACT []
synonym: "resid: AA0239" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC(=O)[C@@H]1COC(=N1)[C@@H]([NH3+])CS
l_bond_atoms: N9
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0347
name: L-glutamyl 5-omega-hydroxyceramide ester
def: "This lipid modification is thought to span the lipid bilayer. A representative structure is shown." []
synonym: "(S)-2-amino-5-[30-((2S,3R,4E)-1,3-dihydroxyicos-4-en-2-ylamino)-30-oxotriacontan-1-yloxy]-5-oxopentanoic acid" BROAD []
synonym: "2-[30-(isoglutamyloxy)triacontanoyl]icosasphingosine" BROAD []
synonym: "go: GO:0050496" EXACT []
synonym: "mod: MOD:00352" EXACT []
synonym: "resid: AA0347" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Q ! L-glutamine
structure: CCCCCCCCCCCCCCC/C=C/[C@H]([C@@H](NC(=O)CCCCCCCCCCCCCCCCCCCCCCCCCCCCCOC(=O)CC[C@@H](C(=O)O)[NH3+])CO)O
l_bond_atoms: N64-1
l_displaced_atoms: H64
l_displaced_atoms: H64+1
r_bond_atoms: C61
r_displaced_atoms: O63
r_displaced_atoms: H63

[Term]
id: BpForms:protein:AA0228
name: N6-(phospho-5'-guanosine)-L-lysine
synonym: "(2S)-2-amino-6-(5'-guanosine phosphonamino)hexanoic acid" BROAD []
synonym: "(2S)-2-amino-6-[[[(2R,3S,4R,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl]amino]hexanoic acid" BROAD []
synonym: "(2S)-2-amino-6-{[(S)-{[(2R,3S,4R,5R)-5-(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methoxy}(hydroxy)phosphoryl]amino}hexanoic acid (non-preferred name)" BROAD []
synonym: "5'-guanylic-N6-L-lysine" BROAD []
synonym: "K" BROAD []
synonym: "L-lysine monoanhydride with 5'-guanylic acid" BROAD []
synonym: "N(zeta)-5'-guanylic-lysine" BROAD []
synonym: "N6-(5'-guanylyl)-lysine" BROAD []
synonym: "N6-L-lysine 5'-guanosine phosphoramidester" BROAD []
synonym: "epsilon-5'-guanylic-L-lysine" BROAD []
synonym: "go: GO:0018261" EXACT []
synonym: "lysine guanosine-5'-monophosphate" BROAD []
synonym: "mod: MOD:00233" EXACT []
synonym: "pdb-ccd: GPL" EXACT []
synonym: "pdb.ligand: GPL" EXACT []
synonym: "resid: AA0228" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: OC(=O)[C@H](CCCCN[P@](=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1nc(N)[nH]c2=O)[O-])[NH3+]
l_bond_atoms: N39-1
l_displaced_atoms: H39
l_displaced_atoms: H39+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0408
name: 3'-geranyl-2',3'-dihydro-2',N2-cyclo-L-tryptophan
synonym: "(2S,3R)-3-geranyl-2,3-dihydro-2,N(alpha)-cyclo-L-tryptophan" BROAD []
synonym: "(2S,3aR,8aS)-3a-[(2E)-3,7-dimethylocta-2,6-dien-1-yl]-1,2,3,3a,8,8a-hexahydropyrrolo[2,3-b]indole-2-carboxylic acid" BROAD []
synonym: "chebi: CHEBI:35304" EXACT []
synonym: "mod: MOD:00817" EXACT []
synonym: "resid: AA0408" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: C/C(=C\C[C@]12C[C@H](N[C@H]1Nc1c2cccc1)C(=O)O)/CCC=C(C)C
l_bond_atoms: N9
l_displaced_atoms: H9
r_bond_atoms: C19
r_displaced_atoms: O21
r_displaced_atoms: H21

[Term]
id: BpForms:protein:AA0613
name: 5-glutamyl N2-ornithine
def: "This modification is probably produced on the C-terminal glutamic acid of a carrier protein as one of a series of intermediates." []
synonym: "(2S)-5-amino-2-([(4S)-4-amino-4-carboxybutanoyl]amino)pentanoic acid" BROAD []
synonym: "(2S)-5-amino-2-[(4S)-4-amino-4-carboxybutanamido]pentanoic acid" BROAD []
synonym: "4-amino-5-[(4-amino-1-carboxy-butyl)amino]-5-ketovaleric acid" BROAD []
synonym: "4-amino-5-[(4-amino-1-carboxy-butyl)amino]-5-oxopentanoic acid" BROAD []
synonym: "N2-(L-isoglutamyl)-L-ornithine" BROAD []
synonym: "N2-(gamma-glutamyl)ornithine" BROAD []
synonym: "cas: 56523-61-6" EXACT []
synonym: "gamma-glutamylornithine" BROAD []
synonym: "mod: MOD:01971" EXACT []
synonym: "resid: AA0613" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: O=C[C@H](CCC(=O)N[C@H](C(=O)[O-])CCC[NH3+])[NH3+]
l_bond_atoms: N9
l_displaced_atoms: H9
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:S, T
name: L-serine 5-methyloxazoline-4-carboxylic acid
def: "Formed by the condensation of a cysteine thiol with the carbonyl of the preceding residue and alpha-beta dehydrogenation. Generating Enzyme: peptidyl-threonine cyclase (EC 4.2.1.-)." []
synonym: "2-[(1S)-1-amino-2-hydroxyethyl]-5-methyl-1,3-oxazoline-4-carboxylic acid" BROAD []
synonym: "2-[(1S)-1-amino-2-hydroxyethyl]-5-methyl-4,5-dihydro-1,3-oxazole-4-carboxylic acid" BROAD []
synonym: "2-[(1S)-1-azanyl-2-hydroxyethyl]-5-methyl-4,5-dihydro-1,3-oxazole-4-carboxylic acid" BROAD []
synonym: "mod: MOD:01904" EXACT []
synonym: "resid: AA0575" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: OC[C@@H](C1=N[C@@H]([C@H](O1)C)C(=O)O)[NH3+]
l_bond_atoms: N6
r_bond_atoms: C13
r_displaced_atoms: O15
r_displaced_atoms: H15

[Term]
id: BpForms:protein:AA0050
name: N-acetyl-L-proline
synonym: "(2S)-1-acetyl-2-pyrrolidinecarboxylic acid" BROAD []
synonym: "1-acetylproline" BROAD []
synonym: "N-acetylproline" BROAD []
synonym: "acetylproline" BROAD []
synonym: "cas: 68-95-1" EXACT []
synonym: "chebi: CHEBI:21560" EXACT []
synonym: "go: GO:0017197" EXACT []
synonym: "mod: MOD:00059" EXACT []
synonym: "resid: AA0050" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: CC(=O)N1CCC[C@H]1C(=O)O
r_bond_atoms: C10
r_displaced_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:protein:AA0464
name: O3-methyl-L-threonine
synonym: "(2S,3R)-2-amino-3-methoxy-butanoic acid" BROAD []
synonym: "(2S,3R)-2-amino-3-methoxybutanoic acid" BROAD []
synonym: "O-methyl threonine" BROAD []
synonym: "O-methyl-L-threonine" BROAD []
synonym: "T" BROAD []
synonym: "cas: 4385-90-4" EXACT []
synonym: "mod: MOD:01387" EXACT []
synonym: "o-methyl-l-threonine" BROAD []
synonym: "pdb-ccd: OLT" EXACT []
synonym: "pdb.ligand: OLT" EXACT []
synonym: "resid: AA0464" EXACT []
synonym: "threonine methyl ether" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: CO[C@@H]([C@@H](C(=O)O)[NH3+])C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0227
name: N6-(phospho-5'-adenosine)-L-lysine
synonym: "(2S)-2-amino-6-(5'-adenosine phosphonamino)hexanoic acid" BROAD []
synonym: "5'-adenylic-N6-L-lysine" BROAD []
synonym: "L-lysine monoanhydride with 5'-adenylic acid" BROAD []
synonym: "N(zeta)-5'-adenylic-L-lysine" BROAD []
synonym: "N6-L-lysine 5'-adenosine phosphoramidester" BROAD []
synonym: "cas: 35985-27-4" EXACT []
synonym: "epsilon-5'-adenylic-L-lysine" BROAD []
synonym: "go: GO:0018116" EXACT []
synonym: "mod: MOD:00232" EXACT []
synonym: "pdb.ligand: AMP" EXACT []
synonym: "resid: AA0227" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: OC(=O)[C@H](CCCCNP(=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1ncnc2N)[O-])[NH3+]
l_bond_atoms: N37-1
l_displaced_atoms: H37
l_displaced_atoms: H37+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0114
name: N6-carboxy-L-lysine
def: "N6-carboxylysine can be produced by artifactual, catalytic or auto-catalytic processes. Generating Enzyme: ribulose-bisphosphate carboxylase activase (EC 6.3.4.-); urease activase (EC 6.3.4.-)." []
synonym: "(2S)-2-amino-6-(carboxyamino)hexanoic acid" BROAD []
synonym: "(2S)-2-azanyl-6-(carboxyamino)hexanoic acid" BROAD []
synonym: "2-amino-6-carbamic hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "N6-carbamyllysine [misnomer]" BROAD []
synonym: "N6-carboxylysine" BROAD []
synonym: "N~6~-carboxy-L-lysine" BROAD []
synonym: "cas: 45101-60-8" EXACT []
synonym: "chebi: CHEBI:49185" EXACT []
synonym: "go: GO:0018235" EXACT []
synonym: "lysine NZ-carboxylic acid" BROAD []
synonym: "lysine nz-carboxylic acid" BROAD []
synonym: "mod: MOD:00123" EXACT []
synonym: "pdb-ccd: KCX" EXACT []
synonym: "pdb.ligand: FMT" EXACT []
synonym: "resid: AA0114" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)NCCCC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:protein:AA0031
name: 2-pyrrolidone-5-carboxylic acid
def: "This modification can form artifactually from amino-terminal glutamine under mildly acid conditions, and from amino-terminal glutamic acid under very acid or anhydrous conditions. The presumed enzyme in Aplysia neurons has not been characterized. The reaction probably requires concomitant hydrolysis of a compound such as ATP. Generating Enzyme: glutaminyl-peptide cyclotransferase (EC 2.3.2.5) #link GLN." []
synonym: "(2S)-5-oxo-2-pyrrolidinecarboxylic acid" BROAD []
synonym: "(2S)-5-oxopyrrolidine-2-carboxylic acid" BROAD []
synonym: "2-oxopyrrolidine-5-carboxylic acid" BROAD []
synonym: "5-oxo-L-proline" BROAD []
synonym: "5-oxoproline" BROAD []
synonym: "5-oxopyrrolidine-2-carboxylic acid" BROAD []
synonym: "5-pyrrolidone-2-carboxylic acid" BROAD []
synonym: "E" BROAD []
synonym: "PCA" BROAD []
synonym: "cas: 98-79-3" EXACT []
synonym: "chebi: CHEBI:30652" EXACT []
synonym: "go: GO:0017186" EXACT []
synonym: "mod: MOD:00040" EXACT []
synonym: "mod: MOD:00420" EXACT []
synonym: "pdb-ccd: PCA" EXACT []
synonym: "pdb.ligand: PCA" EXACT []
synonym: "pyroglutamic acid" BROAD []
synonym: "resid: AA0031" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Q ! L-glutamine
structure: O=C1CC[C@H](N1)C(=O)O
l_bond_atoms: N7
l_displaced_atoms: H7
r_bond_atoms: C8
r_displaced_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:protein:AA0615
name: N6-(3-phosphoglyceryl)-L-lysine
def: "Generating Enzyme: autocatalytic." []
synonym: "(2S)-2-amino-6-([(2R)-2-hydroxy-3-(phosphonooxy)propanoyl]amino)hexanoic acid" BROAD []
synonym: "(2S)-2-amino-6-[(2R)-2-hydroxy-3-(phosphonooxy)propanamido]hexanoic acid" BROAD []
synonym: "3-phosphoglyceryl-lysine" BROAD []
synonym: "mod: MOD:01973" EXACT []
synonym: "resid: AA0615" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O=C([C@@H](COP(=O)([O-])[O-])O)NCCCC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N22-1
l_displaced_atoms: H22
l_displaced_atoms: H22+1
r_bond_atoms: C19
r_displaced_atoms: O21
r_displaced_atoms: H21

[Term]
id: BpForms:protein:AA0335
name: S-amidino-L-cysteine
def: "Generating Enzyme: glycine amidinotransferase (EC 2.1.4.1)." []
synonym: "(2R)-2-amino-3-(carbamimidoylsulfanyl)propanoic acid" BROAD []
synonym: "2-amino-3-amidinosulfanylpropanoic acid" BROAD []
synonym: "2-amino-3-amidinothiopropanoic acid" BROAD []
synonym: "S-amidinocysteine" BROAD []
synonym: "alpha-amino-beta-amidinothiopropionic acid" BROAD []
synonym: "beta-(S-isothiourea)alanine" BROAD []
synonym: "beta-amidinothioalanine" BROAD []
synonym: "go: GO:0046894" EXACT []
synonym: "mod: MOD:00340" EXACT []
synonym: "resid: AA0335" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: NC(=[NH2])SC[C@@H](C(=O)O)N
l_bond_atoms: N13
l_displaced_atoms: H13
r_bond_atoms: C10
r_displaced_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:protein:AA0236
name: N4-hydroxymethyl-L-asparagine
def: "N4-methyl-L-asparagine (see RESID:AA0070) was found at a homologous position in the closely related species Anabaena variabilis. Since the peptide containing this modification was obtained by enzymatic cleavage, not cyanogen bromide cleavage, it could have experienced oxidation of the following methionine residue, leading to the erroneous attribution of a mass of 29 for the modification rather than 14." []
synonym: "(2S)-2-amino-4-[(hydroxymethyl)amino]-4-oxobutanoic acid" BROAD []
synonym: "2-amino-N4-hydroxymethylbutanediamic acid" BROAD []
synonym: "N(gamma)-hydroxymethylasparagine" BROAD []
synonym: "N4-hydroxymethylasparagine" BROAD []
synonym: "beta-hydroxymethylasparagine" BROAD []
synonym: "go: GO:0018311" EXACT []
synonym: "mod: MOD:00241" EXACT []
synonym: "resid: AA0236" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: OCNC(=O)C[C@@H](C(=O)O)N
l_bond_atoms: N12
l_displaced_atoms: H12
r_bond_atoms: C9
r_displaced_atoms: O11
r_displaced_atoms: H11

[Term]
id: BpForms:protein:AA0078
name: N6-myristoyl-L-lysine
def: "Generating Enzyme: peptidyl-lysine N6-myristoyltransferase (EC 2.3.1.-)." []
synonym: "(2S)-2-amino-6-(tetradecanoylamino)hexanoic acid" BROAD []
synonym: "(2S)-2-azanyl-6-(tetradecanoylamino)hexanoic acid" BROAD []
synonym: "2-amino-6-(tetradecanamido)hexanoic acid" BROAD []
synonym: "N(zeta)-myristoyllysine" BROAD []
synonym: "N6-(1-oxotetradecyl)-L-lysine" BROAD []
synonym: "N~6~-tetradecanoyl-L-lysine" BROAD []
synonym: "cas: 62471-07-2" EXACT []
synonym: "chebi: CHEBI:21894" EXACT []
synonym: "epsilon-myristoyllysine" BROAD []
synonym: "go: GO:0018028" EXACT []
synonym: "mod: MOD:00087" EXACT []
synonym: "n~6~-tetradecanoyl-l-lysine" BROAD []
synonym: "pdb-ccd: MYK" EXACT []
synonym: "pdb.ligand: MYK" EXACT []
synonym: "resid: AA0078" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: CCCCCCCCCCCCCC(=O)NCCCC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N26-1
l_displaced_atoms: H26
l_displaced_atoms: H26+1
r_bond_atoms: C23
r_displaced_atoms: O25
r_displaced_atoms: H25

[Term]
id: BpForms:protein:AA0371
name: 1'-(phospho-5'-adenosine)-L-histidine
def: "The phosphoramide bond is probably formed with the tele-nitrogen of histidine in most cases." []
synonym: "(2S)-2-amino-3-[1-(5'-adenosine phosphono)imidazol-4-yl]propanoic acid" BROAD []
synonym: "L-histidine 5'-adenosine phosphoramidester" BROAD []
synonym: "L-histidine monoanhydride with 5'-adenylic acid" BROAD []
synonym: "N(tau)-5'-adenylic-L-histidine" BROAD []
synonym: "N1'-adenylylated histidine" BROAD []
synonym: "go: GO:0051111" EXACT []
synonym: "mod: MOD:00376" EXACT []
synonym: "pdb.ligand: AMP" EXACT []
synonym: "resid: AA0371" EXACT []
synonym: "tele-5'-adenylic-L-histidine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: OC(=O)[C@@H](Cc1ncn(c1)[P@@](=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1NC=N[C@H]2N)[O-])[NH3+]
l_bond_atoms: N39-1
l_displaced_atoms: H39
l_displaced_atoms: H39+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0312
name: N6-3,4-didehydroretinylidene-L-lysine
def: "The all-trans form is shown. Light-induced interconversion with the 11-cis (4Z) form in porphyropsin and cyanopsin is utilized for light sensing in some animals. This modification has been detected but not located by sequencing in proteins. It may be substituted for retinal (see RESID:AA0120) in opsin." []
synonym: "(S)-2-amino-6-[(2E,4E,6E,8E)-3,7-dimethyl-9-(2,6,6-trimethylcyclohexa-1,3-dien-1-yl)-2,4,6,8-nonatetraenylidene]aminohexanoic acid" BROAD []
synonym: "N6-3-dehydroretinal-L-lysine" BROAD []
synonym: "N6-3-dehydroretinyl-lysine" BROAD []
synonym: "cas: 472-87-7" EXACT []
synonym: "go: GO:0019931" EXACT []
synonym: "mod: MOD:00317" EXACT []
synonym: "resid: AA0312" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: C[C@@H](/C=C/C=C(/C=C/C1=C(C)C=CCC1(C)C)\C)/C=C/[NH2+]CCCC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N34-1
l_displaced_atoms: H34
l_displaced_atoms: H34+1
r_bond_atoms: C31
r_displaced_atoms: O33
r_displaced_atoms: H33

[Term]
id: BpForms:protein:AA0030
name: 4-hydroxy-L-proline
def: "Generating Enzyme: procollagen-proline dioxygenase (EC 1.14.11.2); hypoxia-inducible factor-proline dioxygenase (EC 1.14.11.29)." []
synonym: "(2S,4R)-4-hydroxypyrrolidine-2-carboxylic acid" BROAD []
synonym: "(4R)-4-hydroxy-L-proline" BROAD []
synonym: "4-hydroxyproline" BROAD []
synonym: "4-trans-hydroxy-L-proline" BROAD []
synonym: "L-threo-4-hydroxyproline" BROAD []
synonym: "P" BROAD []
synonym: "cas: 51-35-4" EXACT []
synonym: "chebi: CHEBI:61965" EXACT []
synonym: "gamma-hydroxypyrrolidine-alpha-carboxylic acid" BROAD []
synonym: "go: GO:0018401" EXACT []
synonym: "mod: MOD:00039" EXACT []
synonym: "pdb-ccd: HYP" EXACT []
synonym: "pdb.ligand: HYP" EXACT []
synonym: "resid: AA0030" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: O[C@H]1C[NH2+][C@@H](C1)C(=O)O
l_bond_atoms: N5-1
l_displaced_atoms: H5
l_displaced_atoms: H5+1
r_bond_atoms: C11
r_displaced_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:protein:E, G
name: 2-imino-glutamic acid 5-imidazolinone glycine
def: "This entry represents the cross-link of the peptide backbone from the alpha-carboxyl carbon of residue N, a glutamic acid, to the alpha-amino nitrogen of residue N+2, a glycine, coupled with the formation of a double bond to the alpha-amino nitrogen of residue N, and the loss of a molecule of water. This cross-link is accompanied by modification of residue N+1. The modified residue N+1 is presented in a separate entry and is not included in the mass accounting of this entry. The backbone atoms of residue N+1 are shown in gray in the diagram. Generating Enzyme: autocatalytic." []
synonym: "(4Z)-4-[(4E)-1-(carboxymethyl)-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1H-imidazol-2-yl]-4-iminobutanoic acid" BROAD []
synonym: "2,N-didehydroglutamyl-5-imidazolinone glycine" BROAD []
synonym: "2-(3-carboxy-1-iminopropyl)-1-carboxymethyl-1-imidazolin-5-one" BROAD []
synonym: "2-imino-glutamyl-5-imidazolinone glycine" BROAD []
synonym: "4-[(4z)-1-(carboxymethyl)-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1h-imidazol-2-yl]-4-iminobutanoic acid" BROAD []
synonym: "4-[1-(carboxymethyl)-5-oxo-4,5-dihydro-1H-imidazol-2-yl]-4-iminobutanoic acid" BROAD []
synonym: "4-azanylidene-4-[(4E)-1-(carboxymethyl)-4-[(4-hydroxyphenyl)methylidene]-5-oxidanylidene-imidazol-2-yl]butanoic acid" BROAD []
synonym: "EYG" BROAD []
synonym: "[2-(3-carboxy-1-iminopropyl)-5-oxo-4,5-dihydro-imidazol-1-yl]-acetic acid" BROAD []
synonym: "go: GO:0051358" EXACT []
synonym: "mod: MOD:00383" EXACT []
synonym: "para-hydroxybenzylidene-imidazolidinone chromophore" BROAD []
synonym: "pdb-ccd: CRU" EXACT []
synonym: "pdb.ligand: CRU" EXACT []
synonym: "resid: AA0378" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:G ! glycine
structure: O=CCN1C(=O)CN=C1C(=N)CCC(=O)[O-]
l_bond_atoms: N8
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:C, V
name: L-valine 5-(methoxymethyl)thiazole-4-carboxylic acid
def: "Formed by the condensation of a cysteine thiol with the carbonyl of the preceding residue and alpha-beta dehydrogenation. Generating Enzyme: peptidyl-cysteine cyclase (EC 4.2.1.-); peptidyl-thiazoline dehydrogenase (EC 1.3.-.-)." []
synonym: "2-[(1S)-1-amino-2-methylpropyl]-5-(methoxymethyl)-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "2-[1-azanyl-2-methylpropyl]-5-(methoxymethyl)-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "mod: MOD:01391" EXACT []
synonym: "resid: AA0468" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:V ! L-valine
structure: COCc1sc(nc1C(=O)O)[C@H](C(C)C)[NH3+]
l_bond_atoms: N7
r_bond_atoms: C9
r_displaced_atoms: O11
r_displaced_atoms: H11

[Term]
id: BpForms:protein:AA0406
name: O-xylosyl-L-serine
def: "One glycosylated serine with weak electron density was modeled as O3-alpha-xylosylserine, while O3-alpha-mannosyl serine and threonine were modeled at ten other positions. The authors do not discuss this exception or provide chemical evidence for it. Since an O3-xylosyl serine modification has not been reported in any other fungal proteins, the modification is probably also an O3-alpha-mannosyl serine (see RESID:AA0402). See also RESID:AA0154, RESID:AA0208, RESID:AA0209, RESID:AA0210, RESID:AA0291, RESID:AA0296, RESID:AA0297, RESID:AA0397, RESID:AA0398, RESID:AA0400, RESID:AA0402, RESID:AA0404, and RESID:AA0422 for other O-glycosylated serines." []
synonym: "(2S)-2-amino-3-(alpha-D-xylopyranosyloxy)propanoic acid" BROAD []
synonym: "O-(beta-D-xylopyranosyl)-L-serine" BROAD []
synonym: "O-glycosylserine" BROAD []
synonym: "O3-xylosylserine" BROAD []
synonym: "cas: 6050-71-1" EXACT []
synonym: "mod: MOD:00814" EXACT []
synonym: "pdb.ligand: XYS" EXACT []
synonym: "resid: AA0406" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC(=O)[C@H](CO[C@H]1OC[C@H]([C@@H]([C@H]1O)O)O)[NH3+]
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0234
name: S-methyl-L-cysteine
def: "For methylated--DNA--[protein]-cysteine S-methyltransferase (EC 2.2.1.63), the Enzyme Commission acknowledges that "This enzyme catalyses only one turnover and therefore is not strictly catalytic." Generating Enzyme: autocatalytic; methylated--DNA--[protein]-cysteine S-methyltransferase (EC 2.2.1.63); protein-cysteine methyltransferase, NleE (EC 2.2.1.-)." []
synonym: "(2R)-2-amino-3-methylsulfanyl-propanoic acid" BROAD []
synonym: "(R)-2-amino-3-(methylsulfanyl)propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "L-3-(methylthio)alanine" BROAD []
synonym: "S-methyl-L-cysteine" BROAD []
synonym: "cas: 1187-84-4" EXACT []
synonym: "go: GO:0018125" EXACT []
synonym: "mod: MOD:00239" EXACT []
synonym: "pdb-ccd: SMC" EXACT []
synonym: "pdb.ligand: SMC" EXACT []
synonym: "resid: AA0234" EXACT []
synonym: "s-methylcysteine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: CSC[C@H]([NH3+])C(=O)O
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C10
r_displaced_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:protein:AA0396
name: 3-(S-L-cysteinyl)-L-tyrosine
def: "This modification should not be confused with 3'-(S-L-cysteinyl)-L-tyrosine (see RESID:AA0113)." []
synonym: "(2S,3R)-2-amino-3-([(2R)-2-amino-2-carboxyethyl]sulfanyl)-3-(4-hydroxyphenyl)propanoic acid" BROAD []
synonym: "2-amino-3-(2-amino-2-carboxyethylthio)-3-(4-hydroxyphenyl)propanoic acid" BROAD []
synonym: "S-(tyros-3'-yl)cysteine" BROAD []
synonym: "mod: MOD:00803" EXACT []
synonym: "resid: AA0396" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: O=C[C@H]([C@@H](c1ccc(cc1)O)SC[C@@H](C(=O)O)[NH3+])[NH3+]
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C18
r_displaced_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:protein:AA0558
name: S-(spermidinoglutathion-S-yl)-L-cysteine
synonym: "(2R)-2-amino-3-([(2R)-2-([(4S)-4-amino-4-carboxybutanoyl]amino)-2-([2-([3-([4-aminobutyl]amino)propyl]carbamoyl)methyl]carbamoyl)ethyl]disulfanyl)propanoic acid" BROAD []
synonym: "L-gamma-glutamyl-[S-(L-cystein-S-yl)]-L-cysteinyl-N-{3-[(4-aminobutyl)amino]propyl}glycinamide" BROAD []
synonym: "cas: 33932-35-3" EXACT []
synonym: "chebi: CHEBI:16613" EXACT []
synonym: "cysteine glutathionylspermidine disulfide" BROAD []
synonym: "mod: MOD:01848" EXACT []
synonym: "pdb.ligand: TS5" EXACT []
synonym: "resid: AA0558" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [NH3+]CCCC[NH2+]CCCNC(=O)CNC(=O)[C@@H](NC(=O)CC[C@@H](C(=O)[O-])[NH3+])CSSC[C@@H](C=O)[NH3+]
l_bond_atoms: N34-1
l_displaced_atoms: H34
l_displaced_atoms: H34+1
r_bond_atoms: C31
r_displaced_atoms: O33-1

[Term]
id: BpForms:protein:AA0256
name: O4'-(phospho-5'-uridine)-L-tyrosine
def: "Generating Enzyme: uridylyltransferase (EC 2.7.7.59)." []
synonym: "(S)-2-amino-3-[4-(5'-uridine phosphonoxy)phenyl]propanoic acid" BROAD []
synonym: "5'-uridylic-O-tyrosine" BROAD []
synonym: "O4'-L-tyrosine 5'-uridine phosphodiester" BROAD []
synonym: "go: GO:0018165" EXACT []
synonym: "hydrogen 5'-uridylate tyrosine ester" BROAD []
synonym: "mod: MOD:00261" EXACT []
synonym: "resid: AA0256" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: OC(=O)[C@H](Cc1ccc(cc1)O[P@@](=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1ccc(=O)[nH]c1=O)[O-])[NH3+]
l_bond_atoms: N39-1
l_displaced_atoms: H39
l_displaced_atoms: H39+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0622
name: 2-(L-cystein-S-yl)-asparagine
synonym: "(2S)-2,4-diamino-2-([(2R)-2-amino-2-carboxyethyl]sulfanyl)-4-oxobutanoic acid" BROAD []
synonym: "alpha-(L-cystein-S-yl)-D-asparagine" BROAD []
synonym: "mod: MOD:01985" EXACT []
synonym: "pdb.ligand: DSG" EXACT []
synonym: "resid: AA0622" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: O=C[C@H](CS[C@](C(=O)O)(CC(=O)N)N)[NH3+]
l_bond_atoms: N15
l_displaced_atoms: H15
r_bond_atoms: C8
r_displaced_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:protein:K, K
name: L-dehydrolysinonorleucine
def: "Although it should not be possible to distinguish dehydrolysinonorleucine from lysinonorleucine in the X-ray structure, the cross-link was probably not reduced. After the oxidation of a lysine to allysine (see RESID:AA0121), this cross-link forms spontaneously with a Schiff-base reaction. In this aleatoric modification two peptide chains may be crosslinked with the peptides contributing a lysine in either biosynthetic position. The lysines forming the cross-link may also be hydroxylated and glycosylated (see RESID:AA0028 and RESID:AA0153). Generating Enzyme: lysyl oxidase (EC 1.4.3.13)." []
synonym: "(2S)-2-amino-6-([(5S)-5-amino-5-carboxypentylidene]amino)hexanoic acid" BROAD []
synonym: "6-(N6-L-didehydrolysino)-L-norleucine" BROAD []
synonym: "N6-[(5S)-5-amino-5-carboxypentylidene]-L-lysine" BROAD []
synonym: "cas: 31504-14-0" EXACT []
synonym: "chebi: CHEBI:64748" EXACT []
synonym: "dehydrolysinorleucine [misspelling]" BROAD []
synonym: "dehydrolysylnorleucine" BROAD []
synonym: "didehydrolysinonorleucine" BROAD []
synonym: "mod: MOD:01176" EXACT []
synonym: "resid: AA0430" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O=C[C@H](CCCC[NH2+]CCCC[C@@H](C(=O)O)[NH3+])[NH3+]
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C18
r_displaced_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:protein:AA0273
name: 2-methyl-L-glutamine
synonym: "(2S)-2,5-diamino-2-methyl-5-oxo-pentanoic acid" BROAD []
synonym: "(S)-2-amino-2-methylpentanediamic acid" BROAD []
synonym: "2-methyl-L-glutamine" BROAD []
synonym: "2-methyl-glutamine" BROAD []
synonym: "2-methylglutamine" BROAD []
synonym: "Q" BROAD []
synonym: "alpha-methylglutamine" BROAD []
synonym: "cas: 4247-16-9" EXACT []
synonym: "go: GO:0018361" EXACT []
synonym: "mod: MOD:00278" EXACT []
synonym: "pdb-ccd: MGN" EXACT []
synonym: "pdb.ligand: MGN" EXACT []
synonym: "resid: AA0273" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Q ! L-glutamine
structure: NC(=O)CC[C@@](C(=O)O)([NH3+])C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0272
name: 5-methyl-L-arginine
def: "This modification should not be confused with N5-methylarginine (see RESID:AA0305). In methyl-coenzyme M reductase the arginine 5-methyl group is derived from S-adenosyl-methionine and is not produced as a side reaction of the enzyme." []
synonym: "(2S,5S)-2-amino-5-carbamimidamidohexanoic acid" BROAD []
synonym: "2-amino-5-guanidinohexanoic acid" BROAD []
synonym: "4-methylarginine [misnomer]" BROAD []
synonym: "5-methyl-arginine" BROAD []
synonym: "R" BROAD []
synonym: "[amino-[[(2S,5S)-5-amino-6-hydroxy-6-oxo-hexan-2-yl]amino]methylidene]azanium" BROAD []
synonym: "amino{[(1S,4S)-4-amino-4-carboxy-1-methylbutyl]amino}methaniminium" BROAD []
synonym: "delta-methylarginine" BROAD []
synonym: "go: GO:0018181" EXACT []
synonym: "mod: MOD:00277" EXACT []
synonym: "pdb-ccd: AGM" EXACT []
synonym: "pdb.ligand: AGM" EXACT []
synonym: "resid: AA0272" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: OC(=O)[C@H](CC[C@@H]([NH+]=C(N)N)C)[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0128
name: L-3-phenyllactic acid
synonym: "(2S)-2-hydroxy-3-phenyl-propanoic acid" BROAD []
synonym: "(2S)-2-hydroxy-3-phenylpropanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "alpha-hydroxy-beta-phenyl-propionic acid" BROAD []
synonym: "cas: 20312-36-1" EXACT []
synonym: "go: GO:0018058" EXACT []
synonym: "mod: MOD:00137" EXACT []
synonym: "pdb-ccd: HFA" EXACT []
synonym: "resid: AA0128" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: O[C@H](C(=O)O)Cc1ccccc1
r_bond_atoms: C4
r_displaced_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:protein:AA0592
name: 2-(2-aminosuccinimidyl)-3-sulfanylpropanoic acid
def: "This cross-link is formed by the condensation of an aspartic acid or asparagine residue with the alpha-amido of the following residue. Generating Enzyme: autocatalytic." []
synonym: "(2R)-2-[(3S)-3-amino-2,5-dioxo-pyrrolidin-1-yl]-3-sulfanyl-propanoic acid" BROAD []
synonym: "(2R)-2-[(3S)-3-amino-2,5-dioxopyrrolidin-1-yl]-3-sulfanylpropanoic acid" BROAD []
synonym: "(2r)-2-[(3s)-3-amino-2,5-dioxopyrrolidin-1-yl]-3-sulfanylpropanoic acid" BROAD []
synonym: "DC" BROAD []
synonym: "aspartimide cysteine" BROAD []
synonym: "mod: MOD:01938" EXACT []
synonym: "mod: MOD:01939" EXACT []
synonym: "pdb-ccd: SIC" EXACT []
synonym: "pdb.ligand: SIC" EXACT []
synonym: "resid: AA0592" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: SC[C@H](N1C(=O)C[C@@H](C1=O)N)C(=O)O
l_bond_atoms: N13
l_displaced_atoms: H13
r_bond_atoms: C14
r_displaced_atoms: O16
r_displaced_atoms: H16

[Term]
id: BpForms:protein:AA0330
name: 3-methyl-L-lanthionine sulfoxide
def: "The S-oxide of 3-methyl-L-lanthionine is a chiral center, and the stereoisomer has not been determined." []
synonym: "(2S,3S,4Xi,6R)-2,6-diamino-3-methyl-4-oxo-4-thiaheptanedioic acid" BROAD []
synonym: "(2S,3S,SXi)-2-amino-3-([(R)-2-amino-2-carboxyethyl]sulfinyl)butanoic acid" BROAD []
synonym: "3-methyl-L-lanthionine S-oxide" BROAD []
synonym: "S-oxy-3-methyllanthionine" BROAD []
synonym: "go: GO:0046804" EXACT []
synonym: "mod: MOD:00335" EXACT []
synonym: "resid: AA0330" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](C[S@](=O)[C@H]([C@H](C(=O)O)N)C)N
l_bond_atoms: N15
l_displaced_atoms: H15
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:AA0516
name: N-[(12R)-12-hydroxymyristoyl]-L-cysteine
synonym: "2-[(12R)-12-hydroxytetradecanoyl]amino-3-sulfanylpropanoic acid" BROAD []
synonym: "N-[(12R)-12-hydroxytetradecanoyl]cysteine" BROAD []
synonym: "mod: MOD:01690" EXACT []
synonym: "resid: AA0516" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: CC[C@H](CCCCCCCCCCC(=O)N[C@H](C(=O)O)CS)O
l_bond_atoms: N17
l_displaced_atoms: H17
r_bond_atoms: C20
r_displaced_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:protein:AA0365
name: (E)-2,3-didehydrotyrosine
synonym: "(2E)-2-amino-3-(4-hydroxyphenyl)prop-2-enoic acid" BROAD []
synonym: "4-[(E)-[2-(3-methylsulfanylpropanoyl)-5-oxo-1-(2-oxoethyl)imidazol-4-ylidene]methyl]phenolate" BROAD []
synonym: "4-[(E)-{2-[3-(methylsulfanyl)propanoyl]-5-oxo-1-(2-oxoethyl)-1,5-dihydro-4H-imidazol-4-ylidene}methyl]phenolate" BROAD []
synonym: "4-{(z)-[2-[3-(methylsulfanyl)propanoyl]-5-oxo-1-(2-oxoethyl)-1,5-dihydro-4h-imidazol-4-ylidene]methyl}benzenolate" BROAD []
synonym: "MYG" BROAD []
synonym: "amino-(para-hydroxybenzylidenyl)acetic acid" BROAD []
synonym: "blue non-fluorescent pocilloporin chromophore" BROAD []
synonym: "go: GO:0018251" EXACT []
synonym: "mod: MOD:00370" EXACT []
synonym: "para-hydroxybenzylidene-imidazolidinone chromophore" BROAD []
synonym: "pdb-ccd: CRK" EXACT []
synonym: "pdb.ligand: CRK" EXACT []
synonym: "resid: AA0365" EXACT []
synonym: "trans-dehydrotyrosine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: Oc1ccc(cc1)/C=C(\C(=O)O)/N
l_bond_atoms: N13
l_displaced_atoms: H13
r_bond_atoms: C10
r_displaced_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:protein:AA0606
name: N4-(2,4-diacetamido-2,4,6-trideoxy-D-glucosyl)-L-asparagine
def: "Bacillosamine is a trivial name formed by modification of a non-standard monosaccharide parent name, and is not recommended by the IUPAC Nomenclature Committee. Some authors use bacillosamine to refer to the diacetylated form, rather than the unacetylated form." []
synonym: "(2S)-2-amino-4-[(2,4-diacetylamino-2,4,6-trideoxy-beta-D-glucopyranosyl)amino]-4-oxobutanoic acid" BROAD []
synonym: "DABA" BROAD []
synonym: "DATDH" BROAD []
synonym: "DiNAcBac" BROAD []
synonym: "N4-[2,4-bis(acetylamino)-2,4,6-trideoxy-beta-D-glucopyranosyl]-L-asparagine" BROAD []
synonym: "N4-[N,N-diacetylbacillosaminyl]asparagine" BROAD []
synonym: "N4-[N2,N4-diacetylbacillosaminyl]asparagine" BROAD []
synonym: "mod: MOD:01962" EXACT []
synonym: "pdb.ligand: B6D" EXACT []
synonym: "resid: AA0606" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: O=C(N[C@@H]1O[C@H](C)[C@H]([C@@H]([C@H]1NC(=O)C)O)NC(=O)C)C[C@@H](C(=O)O)N
l_bond_atoms: N31
l_displaced_atoms: H31
r_bond_atoms: C28
r_displaced_atoms: O30
r_displaced_atoms: H30

[Term]
id: BpForms:protein:AA0204
name: S-(2-aminovinyl)-D-cysteine
def: "This cross-link arises from the decarboxylation of the carboxyl-terminal portion of a lanthionine, either L-lanthionine (see RESID:AA0110) or meso-lanthionine (see RESID:AA0111). This residue is acid labile. It may be identified as (2-aminoethyl)-D-cysteine (D-4-thialysine) after hydrogenation with palladium/charcoal catalyst. For the L stereoisomer, see RESID:AA0548. The stereochemistry of the (2-aminovinyl)-cysteine derived from two L-cysteine residues in cypemycin has not been determined. Generating Enzyme: peptidyl-cysteine dethiolase (EC 4.4.1.-) #link CYS2; peptidyl-phosphoserine/phosphothreonine dehydratase (EC 4.2.1.-) #link SER; peptidyl-cysteine dehydroalanine/dehydrobutyrine ligase (EC 6.2.-.-)." []
synonym: "(2S)-2-amino-3-([(Z)-2-aminoethenyl]sulfanyl)propanoic acid" BROAD []
synonym: "(S,Z)-S-(2-aminovinyl)cysteine" BROAD []
synonym: "go: GO:0018096" EXACT []
synonym: "mod: MOD:00209" EXACT []
synonym: "mod: MOD:01849" EXACT []
synonym: "resid: AA0204" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: N/C=C\SC[C@H]([NH3+])C(=O)O
l_bond_atoms: N8-1
l_displaced_atoms: H8
l_displaced_atoms: H8+1
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:AA0130
name: N2-succinyl-L-tryptophan
synonym: "(2S)-2-(3-carboxypropanoyl)amino-3-(1H-indol-3-yl)propanoic acid" BROAD []
synonym: "(2S)-2-amino-(6,7-dihydro-6,7-dioxo-1H-indole)-3-propanoic acid" BROAD []
synonym: "cas: 514803-26-0" EXACT []
synonym: "go: GO:0018062" EXACT []
synonym: "mod: MOD:00139" EXACT []
synonym: "resid: AA0130" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: O=C[C@H](Cc1c[nH]c2c1cccc2)NC(=O)CCC(=O)[O-]
l_bond_atoms: N8
l_displaced_atoms: H8
r_bond_atoms: C21
r_displaced_atoms: O23-1

[Term]
id: BpForms:protein:AA0260
name: phycourobilin-bis-L-cysteine
def: "There are additional chiral centers at C-3alpha, C-4, C-16 and C-18alpha." []
synonym: "3,18-bis(1-[(R)-2-amino-2-carboxyethyl]sulfanylethyl)-2,7,13,17-tetramethyl-1,19-dioxo-4,5,15,16-tetrahydro-(21H,22H,24H)-bilene-b-8,12-dipropanoic acid" BROAD []
synonym: "3,18-bis(1-[(R)-2-amino-2-carboxyethyl]sulfanylethyl)-8,12-bis(2-carboxyethyl)-2,7,13,17-tetramethyl-4,5,15,16-tetrahydro-(21H,22H,24H)-bilene-b-1,19(4H,16H)-dione" BROAD []
synonym: "PUB" BROAD []
synonym: "cas: 61932-71-6" EXACT []
synonym: "go: GO:0017010" EXACT []
synonym: "mod: MOD:00265" EXACT []
synonym: "pdb.ligand: PUB" EXACT []
synonym: "phycourobilin biscysteine adduct" BROAD []
synonym: "resid: AA0260" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CS[C@H](C1=C(C)[C@H](NC1=O)Cc1[nH]c(c(c1C)CCC(=O)[O-])Cc1[nH]c(c(c1CCC(=O)[O-])C)C[C@@H]1NC(=O)C(=C1[C@H](SC[C@@H](C=O)[NH3+])C)C)C)[NH3+]
l_bond_atoms: N14
l_displaced_atoms: H14
r_bond_atoms: C27
r_displaced_atoms: O29-1

[Term]
id: BpForms:protein:AA0328
name: (3-aminopropyl)(L-aspartyl-1-amino)phosphoryl-5'-adenosine
def: "The structure shown has been independently confirmed. Asparagine is converted to an aspartyl-1-amide by a process requiring two ATP molecules and the formation of a peptidyl-succinimide intermediate. The phosphorus atom is a chiral center that has not been resolved." []
synonym: "5'-O-[(3-aminopropoxy)(L-aspart-1-ylamino)phosphoryl]adenosine" BROAD []
synonym: "9-(5'-O-[(3-aminopropoxy)(L-aspart-1-ylamino)phosphoryl]-beta-D-ribofuranosyl)adenine" BROAD []
synonym: "N-(aspart-1-yl)-O-(3-aminopropyl)-O-(5'-adenosyl)phosphoramide" BROAD []
synonym: "chebi: CHEBI:60869" EXACT []
synonym: "go: GO:0046550" EXACT []
synonym: "microcin C7 asparagine modification" BROAD []
synonym: "mod: MOD:00333" EXACT []
synonym: "resid: AA0328" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: [NH3+]CCCO[P@](=O)(NC(=O)[C@H](CC(=O)[O-])N)OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1NC=N[C@@H]2N
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C17
r_displaced_atoms: O19-1

[Term]
id: BpForms:protein:AA0069
name: omega-N-methyl-L-arginine
def: "Generating Enzyme: histone-arginine N-methyltransferase (EC 2.1.1.125); [myelin basic protein]-arginine N-methyltransferase (EC 2.1.1.126)." []
synonym: "(2S)-2-amino-5-[(imino(methylamino)methyl)amino]pentanoic acid" BROAD []
synonym: "NG-methylarginine" BROAD []
synonym: "cas: 17035-90-4" EXACT []
synonym: "chebi: CHEBI:28229" EXACT []
synonym: "go: GO:0018216" EXACT []
synonym: "mod: MOD:00078" EXACT []
synonym: "resid: AA0069" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: CNC(=[NH2])NCCC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15
r_displaced_atoms: H15

[Term]
id: BpForms:protein:AA0537
name: 3'-nitro-L-tyrosine
def: "This modification is produced artifactually by treatment with peroxynitrite." []
synonym: "(2S)-2-amino-3-(4-hydroxy-3-nitro-phenyl)propanoic acid" BROAD []
synonym: "(2S)-2-amino-3-(4-hydroxy-3-nitrophenyl)propanoic acid" BROAD []
synonym: "3-nitro-L-tyrosine" BROAD []
synonym: "3-nitrotyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "cas: 3604-79-3" EXACT []
synonym: "chebi: CHEBI:44454" EXACT []
synonym: "m-nitrotyrosine" BROAD []
synonym: "meta-nitro-tyrosine" BROAD []
synonym: "meta-nitrotyrosine" BROAD []
synonym: "mod: MOD:01786" EXACT []
synonym: "pdb-ccd: NIY" EXACT []
synonym: "pdb.ligand: NIY" EXACT []
synonym: "resid: AA0537" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: OC(=O)[C@H](Cc1ccc(c(c1)N(=O)=O)[O-])[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0106
name: S-palmitoyl-L-cysteine
def: "Although the predominant palmitoyl transferase in mammalian systems appears to utilize a mixture of saturated and unsaturated fatty acids, some systems may be more specific in their incorporation of other fatty acids.  See RESID:AA0307 and RESID:AA0308. This modification should not be confused with N-palmitoyl-cysteine (see RESID:AA0060). Generating Enzyme: protein-cysteine S-palmitoyltransferase (EC 2.3.1.-)." []
synonym: "(2R)-2-amino-3-(hexadecanoylsulfanyl)propanoic acid" BROAD []
synonym: "(2R)-2-amino-3-hexadecanoylsulfanyl-propanoic acid" BROAD []
synonym: "2-amino-3-(hexadecanoylthio)propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-hexadecanoyl-L-cysteine" BROAD []
synonym: "cas: 114507-35-6" EXACT []
synonym: "cysteine hexadecanoate thioester" BROAD []
synonym: "cysteine palmitate thioester" BROAD []
synonym: "go: GO:0018230" EXACT []
synonym: "mod: MOD:00115" EXACT []
synonym: "pdb-ccd: P1L" EXACT []
synonym: "pdb.ligand: PLM" EXACT []
synonym: "resid: AA0106" EXACT []
synonym: "s-palmitoyl-l-cysteine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: CCCCCCCCCCCCCCCC(=O)SC[C@@H](C(=O)O)N
l_bond_atoms: N25
l_displaced_atoms: H25
r_bond_atoms: C22
r_displaced_atoms: O24
r_displaced_atoms: H24

[Term]
id: BpForms:protein:AA0522
name: O4-(8alpha-FAD)-L-aspartate
def: "Generating Enzyme: autocatalytic." []
synonym: "(2S)-2-amino-4-oxo-4-[8alpha-riboflavin 5'-(trihydrogen diphosphate) 5'->5'-ester with adenosine]oxybutanoic acid" BROAD []
synonym: "8alpha-[(4-aspartyl)oxy]FAD" BROAD []
synonym: "mod: MOD:01668" EXACT []
synonym: "pdb.ligand: FAD" EXACT []
synonym: "resid: AA0522" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:D ! L-aspartic acid
structure: O=C(C[C@@H](C(=O)O)[NH3+])OC[C@@H]1C=c2c(C=C1C)nc1c(n2C[C@@H]([C@@H]([C@@H](CO[P@@](=O)(O[P@](=O)(OC[C@H]2O[C@H]([C@@H]([C@@H]2O)O)n2cnc3c2NC=N[C@H]3N)[O-])[O-])O)O)O)[nH]c(=O)[nH]c1=O
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8
r_displaced_atoms: H8

[Term]
id: BpForms:protein:G, N
name: (2-aminosuccinimidyl)acetic acid
def: "This cross-link is formed by the condensation of an aspartic acid or asparagine residue with the alpha-amido of the following residue. Generating Enzyme: autocatalytic." []
synonym: "(3-amino-2,5-dioxo-1-pyrrolidinyl)acetic acid" BROAD []
synonym: "N-(2-aminosuccinyl)glycine" BROAD []
synonym: "[(3S)-3-amino-2,5-dioxopyrrolidin-1-yl]acetic acid" BROAD []
synonym: "anhydroaspartyl glycine" BROAD []
synonym: "aspartimide glycine" BROAD []
synonym: "chebi: CHEBI:45890" EXACT []
synonym: "mod: MOD:00952" EXACT []
synonym: "mod: MOD:01624" EXACT []
synonym: "pdb.ligand: ACY" EXACT []
synonym: "resid: AA0441" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: OC(=O)CN1C(=O)C[C@@H](C1=O)N
l_bond_atoms: N13
l_displaced_atoms: H13
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0463
name: 3-hydroxy-L-valine
synonym: "(2S)-2-amino-3-hydroxy-3-methyl-butanoic acid" BROAD []
synonym: "(2S)-2-amino-3-hydroxy-3-methylbutanoic acid" BROAD []
synonym: "3-hydroxy-L-valine" BROAD []
synonym: "3-hydroxy-l-valine" BROAD []
synonym: "3-hydroxyvaline" BROAD []
synonym: "V" BROAD []
synonym: "mod: MOD:01386" EXACT []
synonym: "pdb-ccd: HVA" EXACT []
synonym: "resid: AA0463" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:V ! L-valine
structure: OC(=O)[C@H](C(O)(C)C)[NH3+]
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0262
name: L-cysteine sulfinic acid
synonym: "(2R)-2-amino-3-sulfinopropanoic acid" BROAD []
synonym: "(2R)-2-azanyl-3-[(S)-oxidanylsulfinyl]propanoic acid" BROAD []
synonym: "2-amino-2-carboxyethanesulfinic acid" BROAD []
synonym: "2-amino-3-(dioxido-lambda(6)-sulfanyl)propanoic acid [tautomer]" BROAD []
synonym: "2-amino-3-sulfonylpropanoic acid [tautomer]" BROAD []
synonym: "3-sulfino-L-alanine" BROAD []
synonym: "3-sulfinoalanine" BROAD []
synonym: "3-sulphinoalanine" BROAD []
synonym: "C" BROAD []
synonym: "S-cysteinesulfinic acid" BROAD []
synonym: "S-sulfinocysteine" BROAD []
synonym: "cas: 1115-65-7" EXACT []
synonym: "chebi: CHEBI:61964" EXACT []
synonym: "cysteine sulphinic acid" BROAD []
synonym: "cysteine-S,S-dioxide [tautomer]" BROAD []
synonym: "go: GO:0018171" EXACT []
synonym: "mod: MOD:00267" EXACT []
synonym: "pdb-ccd: CSD" EXACT []
synonym: "pdb.ligand: CSD" EXACT []
synonym: "resid: AA0262" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O[S](C[C@@H](C(=O)O)N)O
l_bond_atoms: N9
l_displaced_atoms: H9
r_bond_atoms: C6
r_displaced_atoms: O8
r_displaced_atoms: H8

[Term]
id: BpForms:protein:AA0387
name: O-decanoyl-L-threonine
def: "Generating Enzyme: ghrelin O-acyltransferase, GOAT (EC 2.3.1.-)." []
synonym: "(2S)-2-amino-3-(decanoyloxy)propanoic acid" BROAD []
synonym: "L-threonine decanoate ester" BROAD []
synonym: "O3-decanoyl-L-threonine" BROAD []
synonym: "go: GO:0042050" EXACT []
synonym: "mod: MOD:00392" EXACT []
synonym: "resid: AA0387" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: CCCCCCCCCC(=O)O[C@@H]([C@@H](C(=O)O)[NH3+])C
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C17
r_displaced_atoms: O19
r_displaced_atoms: H19

[Term]
id: BpForms:protein:C, W
name: 4'-(S-L-cysteinyl)-L-tryptophyl quinone
synonym: "(2R)-2-amino-3-[(3-[(2S)-2-amino-2-carboxyethyl]-6,7-dioxo-6,7-dihydro-1H-indol-4-yl)sulfanyl]propanoic acid" BROAD []
synonym: "3-(2-amino-2-carboxyethyl)-4-[2-amino-2-carboxyethyl]sulfanyl-6,7-indolinedione" BROAD []
synonym: "4-(S-cysteinyl)tryptophan-6,7-dione" BROAD []
synonym: "CTQ" BROAD []
synonym: "cysteine tryptophylquinone" BROAD []
synonym: "go: GO:0019927" EXACT []
synonym: "mod: MOD:00318" EXACT []
synonym: "resid: AA0313" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CSC1=CC(=O)C(=O)c2c1c(c[nH]2)C[C@@H](C(=O)O)[NH3+])[NH3+]
l_bond_atoms: N25-1
l_displaced_atoms: H25
l_displaced_atoms: H25+1
r_bond_atoms: C22
r_displaced_atoms: O24
r_displaced_atoms: H24

[Term]
id: BpForms:protein:C, F
name: L-phenylalanine thiazole-4-carboxylic acid
def: "Formed by the condensation of a cysteine thiol with the carbonyl of the preceding residue and alpha-beta dehydrogenation. Generating Enzyme: peptidyl-cysteine cyclase (EC 4.2.1.-); peptidyl-thiazoline dehydrogenase (EC 1.3.-.-)." []
synonym: "2-[(1S)-1-amino-2-phenylethyl]-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "2-[1-azanyl-2-phenylethyl]-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "go: GO:0018139" EXACT []
synonym: "mod: MOD:00248" EXACT []
synonym: "pdb.ligand: BB9" EXACT []
synonym: "resid: AA0243" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC(=O)c1csc(n1)[C@H](Cc1ccccc1)[NH3+]
l_bond_atoms: N8
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0146
name: L-3',4'-dihydroxyphenylalanine
synonym: "(2S)-2-amino-3-(3,4-dihydroxyphenyl)propanoic acid" BROAD []
synonym: "(2S)-2-azanyl-3-[3,4-bis(oxidanyl)phenyl]propanoic acid" BROAD []
synonym: "3,4-dihydroxyphenylalanine" BROAD []
synonym: "3-hydroxy-L-tyrosine" BROAD []
synonym: "F" BROAD []
synonym: "L-3'-hydroxytyrosine" BROAD []
synonym: "L-DOPA" BROAD []
synonym: "cas: 59-92-7" EXACT []
synonym: "go: GO:0018067" EXACT []
synonym: "levodopa" BROAD []
synonym: "mod: MOD:00155" EXACT []
synonym: "pdb-ccd: DAH" EXACT []
synonym: "pdb.ligand: DAH" EXACT []
synonym: "resid: AA0146" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: OC(=O)[C@H](Cc1ccc(c(c1)O)O)[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0244
name: L-cysteine thiazole-4-carboxylic acid
def: "Formed by the condensation of a cysteine thiol with the carbonyl of the preceding residue and alpha-beta dehydrogenation. The first cysteine may be condensed on the carbonyl of the residue preceding it, forming a 2,4'-bithiazole structure. Generating Enzyme: peptidyl-cysteine cyclase (EC 4.2.1.-); peptidyl-thiazoline dehydrogenase (EC 1.3.-.-)." []
synonym: "2-[(1S)-1-amino-2-sulfanylethyl]-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "2-[1-azanyl-2-sulfanylethyl]-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "go: GO:0018140" EXACT []
synonym: "mod: MOD:00249" EXACT []
synonym: "pdb.ligand: BB9" EXACT []
synonym: "resid: AA0244" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC(=O)c1csc(n1)[C@@H]([NH3+])CS
l_bond_atoms: N8
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0503
name: 5-glutamyl 2-aminoadipic 6-phosphoric anhydride
def: "Generating Enzyme: LysW-L-glutamate/LysW-L-2-aminoadipate kinase, LysZ (EC 2.7.2.-)." []
synonym: "(2S)-2-([(4S)-4-amino-4-carboxybutanoyl]amino)-6-oxo-6-(phosphonooxy)hexanoic acid" BROAD []
synonym: "mod: MOD:01606" EXACT []
synonym: "resid: AA0503" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: O=C[C@H](CCC(=O)N[C@H](C(=O)[O-])CCCC(=O)OP(=O)([O-])[O-])[NH3+]
l_bond_atoms: N9
l_displaced_atoms: H9
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:C, S, S
name: L-cysteine pyridine-2,5-dicarboxylic acid
def: "Formed by the metathesis of two didehydroalanines made from serines, condensation with a cysteine carbonyl and dehydrogenation. This modification is currently represented in the PDB as part of the HET group for the entire molecule of antibiotic GE2270 A." []
synonym: "6-[(1R)-1-amino-2-sulfanylethyl]pyridine-2,5-dicarboxylic acid" BROAD []
synonym: "mod: MOD:01393" EXACT []
synonym: "pdb.ligand: GEA" EXACT []
synonym: "resid: AA0470" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: SC[C@@H](c1nc(ccc1C=O)C(=O)O)[NH3+]
l_bond_atoms: N6
r_bond_atoms: C13
r_displaced_atoms: O15
r_displaced_atoms: H15

[Term]
id: BpForms:protein:AA0518
name: N5-(ADP-ribosyl)-L-glutamine
def: "It is not known whether Photorhabdus luminescens toxin catalyzes formation of the alpha or beta isomer. The alpha form is presented. The keyword "phosphoprotein" is not used with toxin modification. Generating Enzyme: NAD(P)+--glutamine ADP-ribosyltransferase TccC5 (EC 2.4.2.-)." []
synonym: "(S)-2-amino-4-([adenosine 5'-(trihydrogen diphosphate) 5'->5'-ester with alpha-D-ribofuranosyl]amino)-5-oxopentanoic acid" BROAD []
synonym: "N5-[alpha-D-ribofuranoside 5'->5'-ester with adenosine 5'-(trihydrogen diphosphate)]-L-glutamine" BROAD []
synonym: "N5-alpha-D-ribofuranosyl-L-glutamine 5'->5'-ester with adenosine 5'-(trihydrogen diphosphate)" BROAD []
synonym: "mod: MOD:01662" EXACT []
synonym: "resid: AA0518" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Q ! L-glutamine
structure: O=C(N[C@H]1O[C@H]([C@H]([C@H]1O)O)CO[P@@](=O)(O[P@](=O)(OC[C@@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1NC=N[C@H]2N)[O-])[O-])CC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N55-1
l_displaced_atoms: H55
l_displaced_atoms: H55+1
r_bond_atoms: C52
r_displaced_atoms: O54
r_displaced_atoms: H54

[Term]
id: BpForms:protein:AA0389
name: O4-galactosyl-L-hydroxyproline
def: "See also RESID:AA0212 and RESID:AA0390 for other O4-glycosylated 4-hydroxyprolines." []
synonym: "(2S,4R)-4-(beta-D-galactopyranosyloxy)pyrrolidine-2-carboxylic acid" BROAD []
synonym: "4-(beta-D-galactopyranosyloxy)proline" BROAD []
synonym: "4-(galactosyloxy)proline" BROAD []
synonym: "O4-glycosyl-hydroxyproline" BROAD []
synonym: "beta-galactopyranosyl-4-hydroxyproline" BROAD []
synonym: "mod: MOD:00757" EXACT []
synonym: "resid: AA0389" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: OC[C@H]1O[C@@H](O[C@H]2C[NH2+][C@@H](C2)C(=O)O)[C@@H]([C@H]([C@H]1O)O)O
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C18
r_displaced_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:protein:AA0154
name: O-(N-acetylaminogalactosyl)-L-serine
def: "See also RESID:AA0208, RESID:AA0209, RESID:AA0210, RESID:AA0291, RESID:AA0296, RESID:AA0297, RESID:AA0397, RESID:AA0398, RESID:AA0400, RESID:AA0402, RESID:AA0404, RESID:AA0406, and RESID:AA0422 for other O-glycosylated serines. Generating Enzyme: polypeptide N-acetylgalactosaminyltransferase (EC 2.4.1.41)." []
synonym: "(2S)-2-amino-3-(2-acetamido-2-deoxy-alpha-D-galactopyranosyloxy)propanoic acid" BROAD []
synonym: "O3-(N-acetylgalactosaminyl)serine" BROAD []
synonym: "chebi: CHEBI:53604" EXACT []
synonym: "go: GO:0006493" EXACT []
synonym: "mod: MOD:00163" EXACT []
synonym: "mucin type O-glycosylserine" BROAD []
synonym: "resid: AA0154" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC[C@H]1O[C@@H](OC[C@@H](C(=O)O)[NH3+])[C@@H]([C@H]([C@H]1O)O)NC(=O)C
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:AA0259
name: phycoerythrobilin-bis-L-cysteine
def: "There are additional chiral centers at C-2, C-3, and C-16. The phytochromobilins and phycoerythrobilins transmit red." []
synonym: "(2S,3R,16R)-3,18-bis-[(R)-1-(((2R)-2-amino-2-carboxy)ethylsulfanyl)ethyl]-8,12-bis(2-carboxyethyl)-2,7,13,17-tetramethyl-2,3,15,16-tetrahydrobilin-1,19(21H,22H,24H)-dione" BROAD []
synonym: "3,18-bis-[1-((2-amino-2-carboxy)ethylsulfanyl)ethyl]-2,3,15,16-tetrahydro-2,7,13,17-tetramethyl-1,19-dioxo-(21H,22H,24H)-biladiene-ab-8,12-dipropanoic acid" BROAD []
synonym: "PEB" BROAD []
synonym: "cas: 18097-67-1" EXACT []
synonym: "go: GO:0017011" EXACT []
synonym: "mod: MOD:00264" EXACT []
synonym: "phycoerythrobilin biscysteine adduct" BROAD []
synonym: "resid: AA0259" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CS[C@@H]([C@H]1/C(=C/[C@@H]2[NH2+]/C(=C\c3[nH]c(c(c3CCC(=O)[O-])C)C[C@H]3NC(=O)C(=C3C)[C@@H](SC[C@@H](C=O)[NH3+])C)/C(=C2C)CCC(=O)[O-])/NC(=O)[C@H]1C)C)[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C28
r_displaced_atoms: O30-1

[Term]
id: BpForms:protein:AA0081
name: L-alanine amide
def: "Generating Enzyme: peptidylglycine monooxygenase (EC 1.14.17.3)." []
synonym: "(2S)-2-aminopropanamide" BROAD []
synonym: "alaninamide" BROAD []
synonym: "cas: 7324-05-2" EXACT []
synonym: "chebi: CHEBI:21217" EXACT []
synonym: "go: GO:0018034" EXACT []
synonym: "mod: MOD:00090" EXACT []
synonym: "pdb.ligand: NH2" EXACT []
synonym: "resid: AA0081" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: C[C@H]([NH3+])C(=O)N
l_bond_atoms: N4-1
l_displaced_atoms: H4
l_displaced_atoms: H4+1

[Term]
id: BpForms:protein:AA0370
name: 4,5-dihydroxy-L-lysine
def: "Hydroxylations at C-4 and C-5 are assumed. Neither the positions of the hydroxylations nor the stereochemistry for the chiral centers they produce have been determined. The (2S,4R,5R) stereoisomer is shown." []
synonym: "(2S,4Xi,5Xi)-2,6-diamino-4,5-dihydroxyhexanoic acid" BROAD []
synonym: "alpha,epsilon-diamino-delta,gamma-dihydroxycaproic acid" BROAD []
synonym: "delta,gamma-dihydroxylysine" BROAD []
synonym: "go: GO:0030963" EXACT []
synonym: "mod: MOD:00375" EXACT []
synonym: "resid: AA0370" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+]C[C@H]([C@@H](C[C@@H](C(=O)O)[NH3+])O)O
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15
r_displaced_atoms: H15

[Term]
id: BpForms:protein:AA0264
name: O-(sn-1-glycerophosphoryl)-L-serine
def: "The stereochemistry of the glycerol phosphate has not been determined. The sn-1 form is assumed." []
synonym: "(2S)-2-amino-3-[(2Xi)-2,3-dihydroxypropyl]phosphonoxypropanoic acid" BROAD []
synonym: "O3-(sn-1-glycerophosphoryl)-L-serine" BROAD []
synonym: "O3-2,3-dihydroxypropyl hydrogen phosphate-L-serine ester" BROAD []
synonym: "O3-L-serine glyceryl-1-phosphodiester" BROAD []
synonym: "alpha-glycerophosphoryl serine" BROAD []
synonym: "cas: 26289-09-8" EXACT []
synonym: "glycerophosphoserine" BROAD []
synonym: "go: GO:0018340" EXACT []
synonym: "mod: MOD:00269" EXACT []
synonym: "pdb.ligand: OPE" EXACT []
synonym: "resid: AA0264" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC[C@@H](COP(=O)(OC[C@@H](C(=O)O)[NH3+])[O-])O
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15
r_displaced_atoms: H15

[Term]
id: BpForms:protein:AA0039
name: O4'-phospho-L-tyrosine
def: "Generating Enzyme: protein-tyrosine kinase (EC 2.7.1.112)." []
synonym: "(2S)-2-amino-3-(4-phosphonooxyphenyl)propanoic acid" BROAD []
synonym: "2-amino-3-(4-hydroxyphenyl)propanoic acid 4'-phosphate" BROAD []
synonym: "2-azanyl-3-(4-phosphonooxyphenyl)propanoic acid" BROAD []
synonym: "O-phosphono-L-tyrosine" BROAD []
synonym: "O4-phosphotyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "cas: 21820-51-9" EXACT []
synonym: "chebi: CHEBI:61972" EXACT []
synonym: "go: GO:0018108" EXACT []
synonym: "mod: MOD:00048" EXACT []
synonym: "o-phosphotyrosine" BROAD []
synonym: "pdb-ccd: PTR" EXACT []
synonym: "pdb.ligand: PTR" EXACT []
synonym: "resid: AA0039" EXACT []
synonym: "tyrosine phosphate" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: OC(=O)[C@H](Cc1ccc(cc1)OP(=O)([O-])[O-])[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0152
name: S-glucosyl-L-cysteine
def: "The beta anomeric form is shown. See also RESID:AA0392 and RESID:AA0560 for other S-glycosylated cysteines." []
synonym: "(2R)-2-amino-3-[(beta-D-glucopyranosyl)sulfanyl]propanoic acid" BROAD []
synonym: "S-(beta-D-glucopyranosyl)cysteine" BROAD []
synonym: "S-glycosyl-cysteine" BROAD []
synonym: "go: GO:0018240" EXACT []
synonym: "mod: MOD:00161" EXACT []
synonym: "resid: AA0152" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC[C@H]1O[C@@H](SC[C@@H](C(=O)O)[NH3+])[C@@H]([C@H]([C@@H]1O)O)O
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:AA0096
name: L-serine amide
def: "Generating Enzyme: peptidylglycine monooxygenase (EC 1.14.17.3)." []
synonym: "(2S)-2-amino-3-hydroxy-propanamide" BROAD []
synonym: "(2S)-2-amino-3-hydroxypropanamide" BROAD []
synonym: "L-serinamide" BROAD []
synonym: "S" BROAD []
synonym: "aminoserine" BROAD []
synonym: "cas: 6791-49-7" EXACT []
synonym: "chebi: CHEBI:21389" EXACT []
synonym: "go: GO:0018049" EXACT []
synonym: "mod: MOD:00105" EXACT []
synonym: "pdb-ccd: SET" EXACT []
synonym: "pdb.ligand: NH2" EXACT []
synonym: "resid: AA0096" EXACT []
synonym: "serinamide" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: NC(=O)[C@@H]([NH3+])CO
l_bond_atoms: N1
l_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0242
name: L-serine thiazole-4-carboxylic acid
def: "Formed by the condensation of a cysteine thiol with the carbonyl of the preceding residue and alpha-beta dehydrogenation. Generating Enzyme: peptidyl-cysteine cyclase (EC 4.2.1.-); peptidyl-thiazoline dehydrogenase (EC 1.3.-.-)." []
synonym: "2-[(1S)-1-amino-2-hydroxyethyl]-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "2-[1-azanyl-2-hydroxyethyl]-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "go: GO:0018138" EXACT []
synonym: "mod: MOD:00247" EXACT []
synonym: "pdb.ligand: BB9" EXACT []
synonym: "resid: AA0242" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC[C@@H](c1scc(n1)C(=O)O)[NH3+]
l_bond_atoms: N9
r_bond_atoms: C10
r_displaced_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:protein:AA0563
name: L-cysteine bacillithiol disulfide
def: "Generating Enzyme: autocatalytic." []
synonym: "(2S)-(2-[S-(L-cystein-S-yl)-L-cysteinyl]amino-2-deoxy-alpha-D-glucopyranosyloxy)-butanedioic acid" BROAD []
synonym: "BSH" BROAD []
synonym: "chebi: CHEBI:61338" EXACT []
synonym: "mod: MOD:01860" EXACT []
synonym: "resid: AA0563" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CSSC[C@@H](C(=O)N[C@@H]1[C@@H](O[C@@H]([C@H]([C@H]1O)O)CO)O[C@H](C(=O)[O-])CC(=O)[O-])[NH3+])[NH3+]
l_bond_atoms: N13
l_displaced_atoms: H13
r_bond_atoms: C32
r_displaced_atoms: O34-1

[Term]
id: BpForms:protein:AA0380
name: L-asparagine 5-imidazolinone glycine
def: "This entry represents the cross-link of the peptide backbone from the alpha-carboxyl carbon of residue N, an asparagine, to the alpha-amino nitrogen of residue N+2, a glycine, coupled with the formation of a double bond to the alpha-amino nitrogen of residue N+1 which loses one hydrogen, and the loss of a molecule of water. This cross-link is accompanied by modification of residue N+1. The modified residue N+1 is presented in a separate entry and is not included in the mass accounting of this entry. The backbone atoms of residue N+1 are shown in gray in the diagram. Generating Enzyme: autocatalytic." []
synonym: "(2-[(1S)-1,3-diamino-3-oxopropyl]-5-oxo-4,5-dihydro-1H-imidazol-1-yl)acetic acid" BROAD []
synonym: "2-[(4Z)-2-[(1S)-1,3-diamino-3-oxo-propyl]-4-[(4-hydroxyphenyl)methylidene]-5-oxo-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "2-[(S)-1,3-diamino-3-oxopropyl]-1-carboxymethyl-1-imidazolin-5-one" BROAD []
synonym: "NYG" BROAD []
synonym: "Zoanthus sp. fluorescent protein FP506 chromophore" BROAD []
synonym: "[(4z)-2-[(1s)-1,3-diamino-3-oxopropyl]-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1h-imidazol-1-yl]acetic acid" BROAD []
synonym: "[2-(1,3-diamino-3-oxopropyl)-5-oxo-4,5-dihydro-imidazol-1-yl]-acetic acid" BROAD []
synonym: "asparaginyl-5-imidazolinone glycine" BROAD []
synonym: "go: GO:0051360" EXACT []
synonym: "mod: MOD:00385" EXACT []
synonym: "para-hydroxybenzylidene-imidazolidinone chromophore" BROAD []
synonym: "pdb-ccd: NYG" EXACT []
synonym: "pdb.ligand: NYG" EXACT []
synonym: "resid: AA0380" EXACT []
synonym: "{(4Z)-2-[(1S)-1,3-diamino-3-oxopropyl]-4-[(4-hydroxyphenyl)methylidene]-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: NC(=O)C[C@@H](C1=NCC(=O)N1CC(=O)O)N
l_bond_atoms: N1
l_displaced_atoms: H1
r_bond_atoms: C14
r_displaced_atoms: O16
r_displaced_atoms: H16

[Term]
id: BpForms:protein:AA0074
name: N6,N6,N6-trimethyl-L-lysine
def: "Consult FAQ at http://pir.georgetown.edu/resid/faq.shtml#q12 concerning calculation of the difference formula. Generating Enzyme: histone-lysine N-methyltransferase (EC 2.1.1.43); cytochrome-c-lysine N-methyltransferase (EC 2.1.1.59); calmodulin-lysine N-methyltransferase (EC 2.1.1.60)." []
synonym: "(5S)-5-amino-5-carboxy-N,N,N-trimethylpentan-1-aminium" BROAD []
synonym: "2-amino-6-(trimethylammonio)hexanoic acid" BROAD []
synonym: "5-azanyl-5-carboxy-N,N,N-trimethylpentanazanium" BROAD []
synonym: "K" BROAD []
synonym: "N(zeta)-trimethyllysine" BROAD []
synonym: "N-[(5S)-5-amino-5-carboxypentyl]-N,N-dimethylmethanaminium" BROAD []
synonym: "N6,N6,N6-trimethyllysin-N6-ium" BROAD []
synonym: "N6,N6,N6-trimethyllysine cation" BROAD []
synonym: "[(5S)-5-amino-6-hydroxy-6-oxo-hexyl]-trimethyl-azanium" BROAD []
synonym: "cas: 19253-88-4" EXACT []
synonym: "chebi: CHEBI:61961" EXACT []
synonym: "epsilon-trimethyllysine" BROAD []
synonym: "go: GO:0018023" EXACT []
synonym: "mod: MOD:00083" EXACT []
synonym: "n-trimethyllysine" BROAD []
synonym: "pdb-ccd: M3L" EXACT []
synonym: "pdb.ligand: M3L" EXACT []
synonym: "resid: AA0074" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: OC(=O)[C@H](CCCC[N](C)(C)C)N
l_bond_atoms: N14
l_displaced_atoms: H14
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0524
name: N6-chloro-L-lysine
def: "In tryptophan 7-halogenase (EC 1.14.14.7), the modification is formed by autocatalysis as an intermediate in the catalytic cycle. The formation by myeloperoxidase (EC 1.11.1.7) is probably not a normal metabolic process. Generating Enzyme: autocatalytic; myeloperoxidase (EC 1.11.1.7)." []
synonym: "(2S)-2-amino-6-(chloroamino)hexanoic acid" BROAD []
synonym: "N(zeta)-chlorolysine" BROAD []
synonym: "epsilon-chlorolysine" BROAD []
synonym: "lysine chloramine" BROAD []
synonym: "mod: MOD:01670" EXACT []
synonym: "resid: AA0524" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: ClNCCCC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C9
r_displaced_atoms: O11
r_displaced_atoms: H11

[Term]
id: BpForms:protein:AA0205
name: L-cysteine sulfenic acid
def: "This reactive residue must be stabilized by the protein structure. As a active site it may be reduced to cysteine or cysteine anion and reoxidized during the reaction cycle. The "active site" feature is used if the stable form is the reduced cysteine; the "modified site" feature is used if the stable form is the oxidized cysteine sulfenic acid." []
synonym: "(2R)-2-amino-3-(hydroxysulfanyl)propanoic acid" BROAD []
synonym: "(2R)-2-amino-3-(oxido-lambda(4)-sulfanyl)propanoic acid [tautomer]" BROAD []
synonym: "(2R)-2-amino-3-hydroxysulfanyl-propanoic acid" BROAD []
synonym: "2-amino-2-carboxyethanesulfenic acid" BROAD []
synonym: "2-amino-3-sulfinylpropanoic acid [tautomer]" BROAD []
synonym: "3-sulfenoalanine" BROAD []
synonym: "C" BROAD []
synonym: "S-hydroxy-L-cysteine" BROAD []
synonym: "S-hydroxycysteine" BROAD []
synonym: "S-oxocysteine [tautomer]" BROAD []
synonym: "S-oxycysteine [tautomer]" BROAD []
synonym: "cas: 5722-80-5" EXACT []
synonym: "chebi: CHEBI:61962" EXACT []
synonym: "cysteine S-oxide [tautomer]" BROAD []
synonym: "cysteine sulfoxide [tautomer]" BROAD []
synonym: "cysteine sulphenic acid" BROAD []
synonym: "go: GO:0018171" EXACT []
synonym: "mod: MOD:00210" EXACT []
synonym: "pdb-ccd: CSO" EXACT []
synonym: "pdb.ligand: CSO" EXACT []
synonym: "resid: AA0205" EXACT []
synonym: "s-hydroxycysteine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OSC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8
r_displaced_atoms: H8

[Term]
id: BpForms:protein:AA0216
name: N-(L-isoaspartyl)-L-cysteine
synonym: "(S)-2-amino-4-((R)-1-carboxy-2-sulfanylethyl)amino-4-oxobutanoic acid" BROAD []
synonym: "2-(3-amino-3-carboxypropanoyl)amino-3-mercaptopropanoic acid" BROAD []
synonym: "2-amino-N4-(1-carboxy-2-mercaptoethyl)butanediamic acid" BROAD []
synonym: "N-beta-aspartylcysteine" BROAD []
synonym: "N-isoaspartyl cysteine" BROAD []
synonym: "go: GO:0018263" EXACT []
synonym: "mod: MOD:00221" EXACT []
synonym: "resid: AA0216" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: SC[C@@H](C(=O)O)NC(=O)C[C@@H](C=O)N
l_bond_atoms: N8
l_displaced_atoms: H8
r_bond_atoms: C5
r_displaced_atoms: O7
r_displaced_atoms: H7

[Term]
id: BpForms:protein:AA0556
name: L-cysteine sulfonic acid
def: "This modification is easily produced artifactually. Cysteine sulfinic acid (see RESID:AA0262) exposed to air oxidizes to cysteic acid." []
synonym: "(2R)-2-amino-3-sulfopropanoic acid" BROAD []
synonym: "(2R)-2-azanyl-3-sulfo-propanoic acid" BROAD []
synonym: "2-amino-2-carboxyethanesulfonic acid" BROAD []
synonym: "2-azanyl-3-sulfopropanoic acid" BROAD []
synonym: "3-sulfo-L-alanine" BROAD []
synonym: "3-sulfoalanine" BROAD []
synonym: "C" BROAD []
synonym: "cas: 498-40-8" EXACT []
synonym: "chebi: CHEBI:17285" EXACT []
synonym: "cysteic acid" BROAD []
synonym: "cysteine sulphonic acid" BROAD []
synonym: "cysteinesulfonic acid" BROAD []
synonym: "mod: MOD:00460" EXACT []
synonym: "pdb-ccd: OCS" EXACT []
synonym: "pdb.ligand: OCS" EXACT []
synonym: "resid: AA0556" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC(=O)[C@H](CS(O)(O)O)N
l_bond_atoms: N11
l_displaced_atoms: H11
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:K, K, K, K
name: Isodesmosine
def: "After the oxidation of three of the four lysines to allysine (see RESID:AA0121), this cross-link forms spontaneously with a Schiff-base reaction, and a series of one aldimine and two aldol condensation reactions. In this aleatoric modification up to four peptide chains may be crosslinked, with each peptide contributing a lysine potentially in any of the four biosynthetic positions. Desmosine is a structural isomer (see RESID:AA0587). Up to two of the lysines forming the cross-link may also be hydroxylated and glycosylated (see RESID:AA0028 and RESID:AA0153). Generating Enzyme: lysyl oxidase (EC 1.4.3.13)." []
synonym: "2-[(4S)-4-amino-4-carboxybutyl]-1-[(5S)-5-amino-5-carboxypentyl]-3,5-bis[(3S)-3-amino-3-carboxypropyl]pyridinium" BROAD []
synonym: "6-[2-(4-amino-4-carboxybutyl)-3,5-bis(3-amino-3-carboxypropyl)pyridinio]norleucine" BROAD []
synonym: "cas: 991-01-5" EXACT []
synonym: "chebi: CHEBI:64366" EXACT []
synonym: "mod: MOD:01934" EXACT []
synonym: "resid: AA0588" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O=C[C@H](CCCC[NH+]1C=C(CC[C@@H](C(=O)O)[NH3+])CC(=C1CCC[C@@H](C=O)[NH3+])CC[C@@H](C=O)[NH3+])[NH3+]
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C17
r_displaced_atoms: O19
r_displaced_atoms: H19

[Term]
id: BpForms:protein:AA0446
name: (2S,4S)-4,5-dihydroxyleucine
synonym: "(2S,4S)-2-amino-4,5-dihydroxy-4-methylpentanoic acid (non-preferred name)" BROAD []
synonym: "(2S,4S)-2-amino-4,5-dihydroxy-4-methylpentanoic acid" BROAD []
synonym: "(2s,4s)-2-amino-4,5-dihydroxy-4-methylpentanoic acid" BROAD []
synonym: "(2~{S},4~{S})-2-azanyl-4-methyl-4,5-bis(oxidanyl)pentanoic acid" BROAD []
synonym: "(4S)-4,5-dihydroxyleucine" BROAD []
synonym: "gamma,delta-dihydroxyleucine" BROAD []
synonym: "mod: MOD:01432" EXACT []
synonym: "pdb-ccd: G5G" EXACT []
synonym: "resid: AA0446" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: OC[C@](C[C@@H](C(=O)O)[NH3+])(O)C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0589
name: O-glucosyl-L-hydroxylysine
def: "The mimivirus enzyme is bifunctional and carries out both hydroxylation and glucosylation. Neither the regiospecificity nor stereospecificity of the hydroxylation, nor the anomeric specificity of the glucosylation have been determined. The 5-hydroxy, beta anomeric form is shown. Generating Enzyme: lysine dioxygenase (EC 1.14.11.-); hydroxylysine glucosyltransferase (EC 2.4.1.-)." []
synonym: "(D-glucopyranosyl)oxy-L-lysine" BROAD []
synonym: "mod: MOD:01935" EXACT []
synonym: "resid: AA0589" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: OC[C@H]1O[C@@H](O[C@H](CC[C@@H](C(=O)O)[NH3+])C[NH3+])[C@@H]([C@H]([C@@H]1O)O)O
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C15
r_displaced_atoms: O17
r_displaced_atoms: H17

[Term]
id: BpForms:protein:G, M
name: 2-imino-methionine 5-imidazolinone glycine
def: "This entry represents the cross-link of the peptide backbone from the alpha-carboxyl carbon of residue N, a methionine, to the alpha-amino nitrogen of residue N+2, a glycine, coupled with the formation of a double bond to the alpha-amino nitrogen of residue N, and the loss of a molecule of water. This cross-link is accompanied by modification of residue N+1. The modified residue N+1 is presented in a separate entry and is not included in the mass accounting of this entry. The backbone atoms of residue N+1 are shown in gray in the diagram. In the asFP595 chromoprotein, the peptide chain is cleaved at the methionine alpha-amino. For a previously proposed structure of the asFP595 chromoprotein, see RESID:AA0377. Generating Enzyme: autocatalytic." []
synonym: "(2-[1-imino-3-(methylsulfanyl)propyl]-5-oxo-4,5-dihydro-imidazol-1-yl)acetic acid" BROAD []
synonym: "(2-[3-(methylsulfanyl)propanimidoyl]-5-oxo-4,5-dihydro-1H-imidazol-1-yl)acetic acid" BROAD []
synonym: "2,N-didehydromethionyl-5-imidazolinone glycine" BROAD []
synonym: "2-[(4Z)-4-[(4-hydroxyphenyl)methylidene]-2-(3-methylsulfanylpropanimidoyl)-5-oxo-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "2-[1-imino-3-(methylsulfanyl)propyl]-1-carboxymethyl-1-imidazolin-5-one" BROAD []
synonym: "2-imino-methionyl-5-imidazolinone glycine" BROAD []
synonym: "GFP-like chromoprotein asFP595 chromophore" BROAD []
synonym: "MYG" BROAD []
synonym: "go: GO:0051359" EXACT []
synonym: "mod: MOD:00384" EXACT []
synonym: "para-hydroxybenzylidene-imidazolidinone chromophore" BROAD []
synonym: "pdb-ccd: NRQ" EXACT []
synonym: "pdb.ligand: NRQ" EXACT []
synonym: "red fluorescent protein eqFP611 chromophore" BROAD []
synonym: "resid: AA0379" EXACT []
synonym: "{(4Z)-4-[(4-hydroxyphenyl)methylidene]-2-[(1Z)-3-(methylsulfanyl)propanimidoyl]-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic acid" BROAD []
synonym: "{(4z)-4-(4-hydroxybenzylidene)-2-[3-(methylthio)propanimidoyl]-5-oxo-4,5-dihydro-1h-imidazol-1-yl}acetic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: CSCCC(=N)C1=NCC(=O)N1CC(=O)O
l_bond_atoms: N8
r_bond_atoms: C14
r_displaced_atoms: O16
r_displaced_atoms: H16

[Term]
id: BpForms:protein:AA0033
name: L-aspartic 4-phosphoric anhydride
synonym: "(2S)-2-amino-4-oxo-4-(phosphonooxy)butanoic acid" BROAD []
synonym: "(2S)-2-amino-4-oxo-4-phosphonooxy-butanoic acid" BROAD []
synonym: "2-aminobutanedioic 4-phosphoric anhydride" BROAD []
synonym: "2-azanyl-4-oxo-4-(phosphonooxy)butanoic acid" BROAD []
synonym: "4-oxo-O-phosphono-L-homoserine" BROAD []
synonym: "4-phosphoaspartic acid" BROAD []
synonym: "D" BROAD []
synonym: "aspartyl phosphate" BROAD []
synonym: "beta-aspartyl phosphate" BROAD []
synonym: "cas: 22138-53-0" EXACT []
synonym: "chebi: CHEBI:15836" EXACT []
synonym: "go: GO:0018443" EXACT []
synonym: "mod: MOD:00042" EXACT []
synonym: "pdb-ccd: PHD" EXACT []
synonym: "pdb.ligand: PHD" EXACT []
synonym: "resid: AA0033" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:D ! L-aspartic acid
structure: O=C(OP(=O)([O-])[O-])C[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:protein:AA0403
name: O-mannosyl-L-threonine
def: "See also RESID:AA0155, RESID:AA0247, RESID:AA0399, RESID:AA0401, RESID:AA0405, and RESID:AA0515 for other O-glycosylated threonines. Generating Enzyme: dolichyl-phosphate-mannose-protein mannosyltransferase (EC 2.4.1.109)." []
synonym: "(2S,3R)-2-amino-3-(alpha-D-mannopyranosyloxy)butanoic acid" BROAD []
synonym: "O-glycosylthreonine" BROAD []
synonym: "O3-mannosylthreonine" BROAD []
synonym: "mod: MOD:00811" EXACT []
synonym: "resid: AA0403" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: OC[C@H]1O[C@H](O[C@@H]([C@@H](C(=O)O)[NH3+])C)[C@H]([C@H]([C@@H]1O)O)O
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15
r_displaced_atoms: H15

[Term]
id: BpForms:protein:AA0398
name: O-(N-acetylamino)glucosyl-L-serine
def: "See also RESID:AA0154, RESID:AA0208, RESID:AA0209, RESID:AA0210, RESID:AA0291, RESID:AA0296, RESID:AA0297, RESID:AA0397, RESID:AA0400, RESID:AA0402, RESID:AA0404, RESID:AA0406, and RESID:AA0422 for other O-glycosylated serines. Generating Enzyme: [protein]-L-serine/L-threonine beta-N-acetyl-D-glucosaminyl-transferase (EC 2.4.1.-)." []
synonym: "(2S)-2-amino-3-(2-acetamido-2-deoxy-beta-D-glucopyranosyloxy)propanoic acid" BROAD []
synonym: "O-(2-acetylamino-2-deoxy-beta-D-glucopyranosyl)-L-serine" BROAD []
synonym: "O-(N-acetylglucosaminyl)serine" BROAD []
synonym: "O-glycosylserine" BROAD []
synonym: "O-seryl-beta-N-acetylglucosaminide" BROAD []
synonym: "O3-(2-acetamido-2-deoxy-beta-D-glucopyranosyl)-L-serine" BROAD []
synonym: "O3-(N-acetylglucosaminyl)serine" BROAD []
synonym: "cas: 10036-64-3" EXACT []
synonym: "mod: MOD:00805" EXACT []
synonym: "pdb.ligand: NAG" EXACT []
synonym: "resid: AA0398" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC[C@H]1O[C@@H](OC[C@@H](C(=O)O)[NH3+])[C@@H]([C@H]([C@@H]1O)O)NC(=O)C
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:AA0465
name: 1-amino-2-propanol
synonym: "(2R)-1-aminopropan-2-ol" BROAD []
synonym: "1-amino-2-hydroxypropane" BROAD []
synonym: "1-methyl-2-aminoethanol" BROAD []
synonym: "2-amino-1-methylethanol" BROAD []
synonym: "2-hydroxy-1-propylamine" BROAD []
synonym: "2-hydroxypropanamine" BROAD []
synonym: "2-hydroxypropylamine" BROAD []
synonym: "alpha-aminoisopropyl alcohol" BROAD []
synonym: "cas: 35320-23-1" EXACT []
synonym: "chebi: CHEBI:15675" EXACT []
synonym: "decarboxylated threonine" BROAD []
synonym: "isopropanolamine" BROAD []
synonym: "mod: MOD:01388" EXACT []
synonym: "resid: AA0465" EXACT []
synonym: "threamine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: C[C@H](C[NH3+])O
l_bond_atoms: N5-1
l_displaced_atoms: H5
l_displaced_atoms: H5+1

[Term]
id: BpForms:protein:AA0549
name: 5'-chloro-L-tryptophan
synonym: "(2S)-2-amino-3-(5-chloro-1H-indol-3-yl)propanoic acid" BROAD []
synonym: "cas: 33468-35-8" EXACT []
synonym: "mod: MOD:01843" EXACT []
synonym: "resid: AA0549" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: OC(=O)[C@@H]([NH3+])Cc1c[nH]c2c1cc(Cl)cc2
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0612
name: 5-glutamyl N2-glutamate
def: "This entry is for isoglutamyl glutamic acid where there is a single glutamic acid attached to a peptide glutamyl residue by an isopeptide bond. For L-isoglutamyl-polyglutamic acid where there are 2 to 6 alpha-peptide linked glutamic acid residues attached to a peptide glutamyl residue by an isopeptide bond, see RESID:AA0202. Generating Enzyme: glutamate--LysW ligase, ArgX (EC 6.3.2.-)." []
synonym: "(2S)-2-([(4S)-4-amino-4-carboxybutanoyl]amino)pentanedioic acid" BROAD []
synonym: "(2S)-2-[(4S)-4-amino-4-carboxybutanamido]pentanedioic acid" BROAD []
synonym: "2-([4-azanyl-4-carboxybutanoyl]azanyl)pentanedioic acid" BROAD []
synonym: "N-(gamma-L-glutamyl)-L-glutamic acid" BROAD []
synonym: "cas: 1116-22-9" EXACT []
synonym: "gamma-glutamylglutamate" BROAD []
synonym: "isoglutamyl glutamic acid" BROAD []
synonym: "isoglutamyl monoglutamic acid" BROAD []
synonym: "mod: MOD:01970" EXACT []
synonym: "resid: AA0612" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: O=C[C@H](CCC(=O)N[C@H](C(=O)[O-])CCC(=O)[O-])[NH3+]
l_bond_atoms: N9
l_displaced_atoms: H9
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:AA0230
name: S-nitrosyl-L-cysteine
def: "The reaction of nitrosonium (NO+) with cysteine residues may not be enzymatically catalyzed; the reaction of a cysteine residue with, or the reductive production of, nitric oxide (NO) has not been clarified. Generating Enzyme: autocatalytic; peptidyl-cysteine S-nitrosyltransferase (EC 2.6.99.-)." []
synonym: "(2R)-2-amino-3-nitrososulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "L-cysteine nitrite ester" BROAD []
synonym: "S-nitroso-L-cysteine" BROAD []
synonym: "S-nitrosocysteine" BROAD []
synonym: "cas: 51209-75-7" EXACT []
synonym: "go: GO:0018119" EXACT []
synonym: "mod: MOD:00235" EXACT []
synonym: "pdb-ccd: SNC" EXACT []
synonym: "resid: AA0230" EXACT []
synonym: "s-nitroso-cysteine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=NSC[C@@H](C(=O)O)N
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0571
name: L-cysteine 5-methyloxazole-4-carboxylic acid
def: "Formed by the condensation of a cysteine thiol with the carbonyl of the preceding residue and alpha-beta dehydrogenation. Generating Enzyme: peptidyl-threonine cyclase (EC 4.2.1.-); peptidyl-oxazoline dehydrogenase (EC 1.3.-.-)." []
synonym: "2-[(1R)-1-amino-2-sulfanylethyl]-5-methyl-1,3-oxazole-4-carboxylic acid" BROAD []
synonym: "2-[(1R)-1-azanyl-2-sulfanylethyl]-5-methyl-1,3-oxazole-4-carboxylic acid" BROAD []
synonym: "mod: MOD:01900" EXACT []
synonym: "resid: AA0571" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: SC[C@@H](c1oc(c(n1)C(=O)O)C)N
l_bond_atoms: N9
r_bond_atoms: C10
r_displaced_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:protein:AA0235
name: 4-hydroxy-L-lysine
def: "5-Hydroxy-L-lysine (see RESID:AA0028) was found at a homologous position in the closely related species Rhodomonas CS24. See also RESID:AA0370. The (2S,4R) diastereomer is shown." []
synonym: "(2S,4R)-2,6-diamino-4-hydroxyhexanoic acid" BROAD []
synonym: "L-threo-gamma-hydroxylysine" BROAD []
synonym: "alpha,epsilon-diamino-gamma-hydroxycaproic acid" BROAD []
synonym: "cas: 60594-62-9" EXACT []
synonym: "go: GO:0018396" EXACT []
synonym: "mod: MOD:00240" EXACT []
synonym: "resid: AA0235" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O[C@H](CC[NH3+])C[C@H]([NH3+])C(=O)O
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C17
r_displaced_atoms: O19
r_displaced_atoms: H19

[Term]
id: BpForms:protein:AA0457
name: L-cystine S-oxide
def: "This modification in the modeled protein has not been chemically confirmed." []
synonym: "(2R)-2-amino-3-[([(2R)-2-amino-2-carboxyethyl]sulfanyl)sulfinyl]propanoic acid" BROAD []
synonym: "S-[(2R)-2-amino-3-oxopropyl] (2R)-2-amino-3-oxopropane-1-sulfinothioate" BROAD []
synonym: "S-cysteinyl 3-(oxidosulfanyl)alanine" BROAD []
synonym: "cystine sulfoxide" BROAD []
synonym: "mod: MOD:01383" EXACT []
synonym: "resid: AA0457" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CS[S@@](=O)C[C@@H](C(=O)O)[NH3+])[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:C, G
name: L-cysteine 5-imidazolinone glycine
def: "This entry represents the cross-link of the peptide backbone from the alpha-carboxyl carbon of residue N, a cysteine, to the alpha-amino nitrogen of residue N+2, a glycine, coupled with the formation of a double bond to the alpha-amino nitrogen of residue N+1 which loses one hydrogen, and the loss of a molecule of water. This cross-link is accompanied by modification of residue N+1. The modification of serine to dehydroalanine coupled with the formation of 5-imidazolinone by the two neighboring residues produces the 4-methylidene-imidazole-5-one (MIO) active site of some amino acid ammonia-lyases that differs by UV and mass spectrometric evidence from other known dehydroalanine containing peptides not containing the second modification." []
synonym: "(2-[(1R)-1-amino-2-sulfanylethyl]-5-oxo-4,5-dihydro-1H-imidazol-1-yl)acetic acid" BROAD []
synonym: "2-[(4Z)-2-[(1R)-1-azanyl-2-sulfanyl-ethyl]-4-[(4-hydroxyphenyl)methylidene]-5-oxidanylidene-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "2-[1-amino-2-sulfanylethyl]-1-carboxymethyl-1-imidazolin-5-one" BROAD []
synonym: "4-methylidene-imidazole-5-one (MIO) active site" BROAD []
synonym: "CYG" BROAD []
synonym: "[(4Z)-2-[(1R)-1-amino-2-sulfanylethyl]-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1H-imidazol-1-yl]acetic acid" BROAD []
synonym: "[(4z)-2-[(1r)-1-amino-2-mercaptoethyl]-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1h-imidazol-1-yl]acetic acid" BROAD []
synonym: "cysteinyl-5-imidazolinone glycine" BROAD []
synonym: "go: GO:0018253" EXACT []
synonym: "mod: MOD:00196" EXACT []
synonym: "para-hydroxybenzylidene-imidazolidinone chromophore" BROAD []
synonym: "pdb-ccd: GYC" EXACT []
synonym: "pdb.ligand: GYC" EXACT []
synonym: "resid: AA0188" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC(=O)CN1C(=NCC1=O)[C@@H]([NH3+])CS
l_bond_atoms: N7
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0038
name: O-phospho-L-threonine
def: "Generating Enzyme: protein-threonine kinase (EC 2.7.1.37)." []
synonym: "(2S,3R)-2-amino-3-(phosphonooxy)butanoic acid" BROAD []
synonym: "(2S,3R)-2-amino-3-phosphonooxy-butanoic acid" BROAD []
synonym: "2-amino-3-hydroxybutanoic acid 3-phosphate" BROAD []
synonym: "2-azanyl-3-(phosphonooxy)butanoic acid" BROAD []
synonym: "O-phosphono-L-threonine" BROAD []
synonym: "O3-phosphothreonine" BROAD []
synonym: "T" BROAD []
synonym: "cas: 1114-81-4" EXACT []
synonym: "chebi: CHEBI:61971" EXACT []
synonym: "go: GO:0018107" EXACT []
synonym: "mod: MOD:00047" EXACT []
synonym: "pdb-ccd: TPO" EXACT []
synonym: "pdb.ligand: TPO" EXACT []
synonym: "phosphothreonine" BROAD []
synonym: "resid: AA0038" EXACT []
synonym: "threonine phosphate ester" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: OC(=O)[C@H]([C@H](OP(=O)([O-])[O-])C)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0542
name: 2'-hydroxy-L-tryptophan
def: "This modification may be produced artifactually." []
synonym: "(2S)-2-amino-3-(2-hydroxy-1H-indol-3-yl)propanoic acid" BROAD []
synonym: "2-azanyl-3-(2-hydroxy-1H-indol-3-yl)propanoic acid" BROAD []
synonym: "2-hydroxy-L-tryptophan" BROAD []
synonym: "2-hydroxy-tryptophan" BROAD []
synonym: "mod: MOD:01816" EXACT []
synonym: "pdb.ligand: TRO" EXACT []
synonym: "resid: AA0542" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: OC(=O)[C@H](Cc1c(O)[nH]c2c1cccc2)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0447
name: (2S,3S,4R)-3,4-dihydroxyisoleucine
def: "In some cases the stereochemistry for the second and third chiral centers have not been resolved." []
synonym: "(2S,3S,4R)-2-amino-3,4-dihydroxy-3-methylpentanoic acid (non-preferred name)" BROAD []
synonym: "(2S,3S,4R)-2-amino-3,4-dihydroxy-3-methylpentanoic acid" BROAD []
synonym: "(2S,3S,4R)-2-azanyl-3,4-dihydroxy-3-methyl-pentanoic acid" BROAD []
synonym: "(2s,3s,4r)-2-amino-3,4-dihydroxy-3-methylpentanoic acid" BROAD []
synonym: "(3S,4R)-3,4-dihydroxyisoleucine" BROAD []
synonym: "I" BROAD []
synonym: "beta,gamma-dihydroxyisoleucine" BROAD []
synonym: "mod: MOD:01376" EXACT []
synonym: "pdb-ccd: TS9" EXACT []
synonym: "pdb.ligand: TSI" EXACT []
synonym: "resid: AA0447" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:I ! L-isoleucine
structure: OC[C@H]([C@@]([C@H](O)C)(O)C)[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1

[Term]
id: BpForms:protein:AA0109
name: 2'-(S-L-cysteinyl)-L-histidine
def: "Cysteinylhistidine probably does not have a functional role in the enzymatic activity of Neurospora crassa tyrosinase." []
synonym: "(2R)-2-amino-3-[(4-[(2S)-2-amino-2-carboxyethyl]-1H-imidazol-2-yl)sulfanyl]propanoic acid" BROAD []
synonym: "(2S)-2-amino-3-[2-([(2R)-2-amino-2-carboxyethyl]sulfanyl)-1H-imidazol-4-yl]propanoic acid" BROAD []
synonym: "S-(2'-histidyl)cysteine" BROAD []
synonym: "cas: 77504-36-0" EXACT []
synonym: "go: GO:0018233" EXACT []
synonym: "mod: MOD:00118" EXACT []
synonym: "resid: AA0109" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CSc1ncc([nH]1)C[C@@H](C(=O)O)[NH3+])[NH3+]
l_bond_atoms: N19-1
l_displaced_atoms: H19
l_displaced_atoms: H19+1
r_bond_atoms: C16
r_displaced_atoms: O18
r_displaced_atoms: H18

[Term]
id: BpForms:protein:AA0483
name: L-threonine thiazole-4-carboxylic acid
def: "Formed by the condensation of a cysteine thiol with the carbonyl of the preceding residue and alpha-beta dehydrogenation. Generating Enzyme: peptidyl-cysteine cyclase (EC 4.2.1.-); peptidyl-thiazoline dehydrogenase (EC 1.3.-.-)." []
synonym: "2-[(1S,2R)-1-amino-2-hydroxypropyl]-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "2-[1-azanyl-2-hydroxypropyl]-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "mod: MOD:01406" EXACT []
synonym: "pdb.ligand: XAA" EXACT []
synonym: "resid: AA0483" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: C[C@H]([C@@H](c1scc(n1)C(=O)O)[NH3+])O
l_bond_atoms: N10
r_bond_atoms: C11
r_displaced_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:protein:AA0237
name: O-(ADP-ribosyl)-L-serine
def: "It is not known whether botulinum exoenzyme C3 catalyzes formation of the alpha or beta isomer. The alpha form is presented. The keyword "phosphoprotein" is not used with toxin modification. Generating Enzyme: NAD(P)+--serine ADP-ribosyltransferase (EC 2.4.2.-)." []
synonym: "(S)-2-amino-3-([adenosine 5'-(trihydrogen diphosphate) 5'->5'-ester with alpha-D-ribofuranosyl]oxy)-propanoic acid" BROAD []
synonym: "O3-(ADP-ribosyl)-L-serine" BROAD []
synonym: "O3-[alpha-D-ribofuranoside 5'->5'-ester with adenosine 5'-(trihydrogen diphosphate)]-L-serine" BROAD []
synonym: "O3-alpha-D-ribofuranosyl-L-serine 5'->5'-ester with adenosine 5'-(trihydrogen diphosphate)" BROAD []
synonym: "go: GO:0006471" EXACT []
synonym: "mod: MOD:00242" EXACT []
synonym: "resid: AA0237" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC(=O)[C@H](CO[C@H]1O[C@@H]([C@H]([C@H]1O)O)COP(=O)(OP(=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1ncnc2N)[O-])[O-])[NH3+]
l_bond_atoms: N51-1
l_displaced_atoms: H51
l_displaced_atoms: H51+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0346
name: N-glycyl-1-(phosphatidyl)ethanolamine
def: "A representative phospholipid structure is shown. Cleavage of a carboxyl terminal propeptide accompanies transamidation." []
synonym: "(R)-1-hexadecanoyloxy-2-((Z)-9-octadecenoyloxy)-3-[2-(aminoacetylamino)ethyloxyphospho]propane" BROAD []
synonym: "N-glycyl-1-palmitoyl-2-oleoyl-sn-glycero-3-phosphoethanolamine" BROAD []
synonym: "go: GO:0050495" EXACT []
synonym: "mod: MOD:00351" EXACT []
synonym: "resid: AA0346" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:G ! glycine
structure: CCCCCCCCCCCCCCCC(=O)OC[C@@H](OC(=O)CCCCCCC/C=C\CCCCCCCC)CO[P@@](=O)(OCCNC(=O)C[NH3+])[O-]
l_bond_atoms: N49
l_displaced_atoms: H49

[Term]
id: BpForms:protein:AA0064
name: N-methyl-L-methionine
def: "Polypeptides with monomethylated amino terminals can undergo premature cleavage during the coupling step of an Edman degradation. This can result in "preview" with both a residue and the following residue being seen from the first step on through a sequence. Although appropriate, the keyword "thioether bond" normally does not appear for this amino acid. Generating Enzyme: S-adenosylmethionine--methionyl-peptide N-methyltransferase (EC 2.1.1.-)." []
synonym: "(2S)-2-methylamino-4-(methylsulfanyl)butanoic acid" BROAD []
synonym: "(2S)-2-methylamino-4-methylsulfanyl-butanoic acid" BROAD []
synonym: "2-methylamino-4-(methylthio)butanoic acid" BROAD []
synonym: "M" BROAD []
synonym: "N-methyl-L-methionine" BROAD []
synonym: "N-methylmethionine" BROAD []
synonym: "cas: 42537-72-4" EXACT []
synonym: "chebi: CHEBI:61886" EXACT []
synonym: "go: GO:0018014" EXACT []
synonym: "mod: MOD:00073" EXACT []
synonym: "n-methyl methionine" BROAD []
synonym: "pdb-ccd: MME" EXACT []
synonym: "pdb.ligand: MME" EXACT []
synonym: "resid: AA0064" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: CSCC[C@@H](C(=O)O)[NH2+]C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0385
name: O-decanoyl-L-serine
def: "Generating Enzyme: ghrelin O-acyltransferase, GOAT (EC 2.3.1.-)." []
synonym: "(2S)-2-amino-3-(decanoyloxy)propanoic acid" BROAD []
synonym: "L-serine decanoate ester" BROAD []
synonym: "O3-decanoyl-L-serine" BROAD []
synonym: "go: GO:0042050" EXACT []
synonym: "mod: MOD:00390" EXACT []
synonym: "resid: AA0385" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: CCCCCCCCCC(=O)OC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N19-1
l_displaced_atoms: H19
l_displaced_atoms: H19+1
r_bond_atoms: C16
r_displaced_atoms: O18
r_displaced_atoms: H18

[Term]
id: BpForms:protein:AA0390
name: O4-(N-acetylamino)glucosyl-L-hydroxyproline
def: "See also RESID:AA0212 and RESID:AA0389 for other O4-glycosylated 4-hydroxyprolines." []
synonym: "(2S,4R)-4-[2-acetamido-2-deoxy-alpha-D-glucopyranosyloxy]pyrrolidine-2-carboxylic acid" BROAD []
synonym: "4-(N-acetylglucosaminyloxy)proline" BROAD []
synonym: "4-[(2-N-acetylamino)-alpha-D-glucopyranosyl]oxyproline" BROAD []
synonym: "O4-glycosyl-hydroxyproline" BROAD []
synonym: "alpha-2-(N-acetylamino)glucopyranosyl-4-hydroxyproline" BROAD []
synonym: "cas: 10036-64-3" EXACT []
synonym: "mod: MOD:00758" EXACT []
synonym: "resid: AA0390" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: OC[C@H]1O[C@H](O[C@H]2C[NH2+][C@@H](C2)C(=O)O)[C@@H]([C@H]([C@@H]1O)O)NC(=O)C
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C18
r_displaced_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:protein:E, Y
name: pyrroloquinoline quinone
def: "In some prokaryotes, the pqqA protein is the origin of pyrroloquinoline quinone. In other organisms the endogenous source, if there is one, has not been established." []
synonym: "2,4,6-tricarboxylic-pyrrolo[2,3-5,6]quinoline 8,9-quinone" BROAD []
synonym: "2,7,9-tricarboxy-1H-pyrrolo(2,3-f)quinoline-4,5-dione" BROAD []
synonym: "4,5-dihydro-4,5-dioxo-1H-pyrrolo[2,3-5,6]quinoline-2,7,9-tricarboxylic acid" BROAD []
synonym: "cas: 72909-34-3" EXACT []
synonym: "chebi: CHEBI:18315" EXACT []
synonym: "coenzyme PQQ" BROAD []
synonym: "go: GO:0018189" EXACT []
synonym: "methoxatin" BROAD []
synonym: "mod: MOD:00288" EXACT []
synonym: "pdb.ligand: PQQ" EXACT []
synonym: "resid: AA0283" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)c1cc(nc2c1c1[nH]c(cc1C(=O)C2=O)C(=O)[O-])C(=O)[O-]
l_bond_atoms: N7
r_bond_atoms: C23
r_displaced_atoms: O25-1

[Term]
id: BpForms:protein:AA0402
name: O-mannosyl-L-serine
def: "See also RESID:AA0154, RESID:AA0208, RESID:AA0209, RESID:AA0210, RESID:AA0291, RESID:AA0296, RESID:AA0297, RESID:AA0397, RESID:AA0398, RESID:AA0400, RESID:AA0404, RESID:AA0406, and RESID:AA0422 for other O-glycosylated serines. Generating Enzyme: dolichyl-phosphate-mannose-protein mannosyltransferase (EC 2.4.1.109)." []
synonym: "(2S)-2-amino-3-(alpha-D-mannopyranosyloxy)propanoic acid" BROAD []
synonym: "O-glycosylserine" BROAD []
synonym: "O-mannopyranosylserine" BROAD []
synonym: "O3-mannosylserine" BROAD []
synonym: "cas: 78609-14-0" EXACT []
synonym: "mod: MOD:00810" EXACT []
synonym: "resid: AA0402" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC[C@H]1O[C@H](OC[C@@H](C(=O)O)[NH3+])[C@H]([C@H]([C@@H]1O)O)O
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:AA0145
name: O4'-(8alpha-FAD)-L-tyrosine
def: "The keyword "phosphoprotein" is not used with flavin modifications linked through the flavin. Generating Enzyme: autocatalytic." []
synonym: "(2S)-2-amino-3-(4-[8alpha-riboflavin 5'-(trihydrogen diphosphate) 5'->5'-ester with adenosine]oxyphenyl)propanoic acid" BROAD []
synonym: "8alpha-(O4'-tyrosyl)FAD" BROAD []
synonym: "go: GO:0018296" EXACT []
synonym: "mod: MOD:00154" EXACT []
synonym: "pdb.ligand: FAD" EXACT []
synonym: "resid: AA0145" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: O=C1[N-]C(=O)C2C(N1)N(C[C@@H]([C@@H]([C@@H](CO[P@@](=O)(O[P@@](=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc3c1ncnc3N)[O-])[O-])O)O)O)C1C(N2)CC(C(C1)COc1ccc(cc1)C[C@@H](C(=O)O)[NH3+])C
l_bond_atoms: N73-1
l_displaced_atoms: H73
l_displaced_atoms: H73+1
r_bond_atoms: C70
r_displaced_atoms: O72
r_displaced_atoms: H72

[Term]
id: BpForms:protein:AA0476
name: N6-(ADP-ribosyl)-L-lysine
def: "The alpha form is presented. The keyword "phosphoprotein" is not used with ADP-ribosylation. Generating Enzyme: NAD(P)+--lysine ADP-ribosyltransferase (EC 2.4.2.-)." []
synonym: "(S)-2-amino-6-([adenosine 5'-(trihydrogen diphosphate) 5'->5'-ester with alpha-D-ribofuranosyl]amino)hexanoic acid" BROAD []
synonym: "2-amino-6-(ADP-ribosyl)amino-hexanoic acid" BROAD []
synonym: "N(zeta)-ADP-ribosyllysine" BROAD []
synonym: "N6-[alpha-D-ribofuranoside 5'->5'-ester with adenosine 5'-(trihydrogen diphosphate)]-L-lysine" BROAD []
synonym: "N6-alpha-D-ribofuranosyl-L-lysine 5'->5'-ester with adenosine 5'-(trihydrogen diphosphate)" BROAD []
synonym: "epsilon-ADP-ribosyllysine" BROAD []
synonym: "mod: MOD:01399" EXACT []
synonym: "resid: AA0476" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: OC(=O)[C@H](CCCC[NH2+][C@H]1O[C@@H]([C@H]([C@H]1O)O)CO[P@](=O)(O[P@@](=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1NC=N[C@H]2N)[O-])[O-])[NH3+]
l_bond_atoms: N57-1
l_displaced_atoms: H57
l_displaced_atoms: H57+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0153
name: O5-glucosylgalactosyl-L-hydroxylysine
def: "Some forms of lysyl hydroxylase (EC 1.14.11.4) are multifunctional and possess both transferase activities. Generating Enzyme: procollagen galactosyltransferase (EC 2.4.1.50); procollagen glucosyltransferase (EC 2.4.1.66)." []
synonym: "(2S,5R)-2,6-diamino-5-[2-O-(alpha-D-glucopyranosyl)-beta-D-galactopyranosyloxy]hexanoic acid" BROAD []
synonym: "5-(2-O-alpha-D-glucopyranosyl-beta-D-galactopyranosyl)oxy-L-lysine" BROAD []
synonym: "cas: 32448-35-4" EXACT []
synonym: "go: GO:0006493" EXACT []
synonym: "mod: MOD:00162" EXACT []
synonym: "resid: AA0153" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: OC[C@H]1O[C@@H](O[C@H](CC[C@@H](C(=O)O)[NH3+])C[NH3+])[C@@H]([C@H]([C@H]1O)O)O[C@H]1O[C@H](CO)[C@H]([C@@H]([C@H]1O)O)O
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C15
r_displaced_atoms: O17
r_displaced_atoms: H17

[Term]
id: BpForms:protein:AA0594
name: labionine
def: "This three residue cross-link modification includes both a thioether bond and an alpha-linked carbon-carbon bond." []
synonym: "(2S,4S)-2,4-diamino-2-[([(2R)-2-amino-2-carboxyethyl]sulfanyl)methyl]pentanedioic acid" BROAD []
synonym: "(2S,4S,8R)-2,4,8-triamino-4-carboxy-6-thianonanedioic acid" BROAD []
synonym: "(2S,4S,8R)-labionin" BROAD []
synonym: "mod: MOD:01948" EXACT []
synonym: "resid: AA0594" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CSC[C@](C[C@@H](C(=O)O)[NH3+])(C=O)N)[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:AA0434
name: hydroxyglycine
def: "The S form, produced by peptidylglycine alpha-hydroxylating monooxygenase, is shown." []
synonym: "alpha-hydroxyglycine" BROAD []
synonym: "amino(hydroxy)acetic acid" BROAD []
synonym: "aminohydroxyacetic acid" BROAD []
synonym: "cas: 4746-62-7" EXACT []
synonym: "chebi: CHEBI:38048" EXACT []
synonym: "mod: MOD:01180" EXACT []
synonym: "resid: AA0434" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:G ! glycine
structure: OC(=O)[C@H](O)N
l_bond_atoms: N7
l_displaced_atoms: H7
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0531
name: 5-hydroxy-N6-(beta-lysyl)-L-lysine
def: "This modification is produced from N6-acylation of lysine by a lysyl-adenylate. However, evidence on whether alpha- or beta-lysyl adenylate is used, and the intermediates on the pathway appears to be in conflict (see RESID:AA0530). The modified lysine residue is homologous to the lysine modified to hypusine in eukaryotic and archaeal translation initiation factor 5A. The structure of this modification has not been established. The original proposed structure was not hydroxylated. Neither the location of the hydroxyl, shown as a 5-hydroxy, or its stereochemistry is known. Generating Enzyme: translation elongation factor P-lysine 2,3-aminomutase YjeK (EC 5.4.3.-); translation elongation factor P-lysine monooxygenase YfcM (EC 1.14.99.-)." []
synonym: "(2S)-2-amino-6-([(3R)-3,6-diaminohexanoyl]amino)-5-hydroxyhexanoic acid" BROAD []
synonym: "5-hydroxy-N6-[(3R)-beta-lysyl]lysine" BROAD []
synonym: "EF-P lysine derivative" BROAD []
synonym: "N6-[(3R)-3,6-diaminohexanoyl]-L-5-hydroxylysine" BROAD []
synonym: "go: GO:0072580" EXACT []
synonym: "lysyl spermidine derivative [misidentification]" BROAD []
synonym: "mod: MOD:01780" EXACT []
synonym: "resid: AA0531" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+]CCC[C@@H](CC(=O)NC[C@@H](CC[C@@H](C(=O)O)[NH3+])O)[NH3+]
l_bond_atoms: N24-1
l_displaced_atoms: H24
l_displaced_atoms: H24+1
r_bond_atoms: C21
r_displaced_atoms: O23
r_displaced_atoms: H23

[Term]
id: BpForms:protein:AA0320
name: L-beta-methylthioasparagine
def: "There is a second chiral center. The (2R,3R) form is shown. This modification was predicted for ribosomal protein S12 in Bacillus subtilis when the sequence in the original version of the genome was reported to have asparagine rather than aspartic acid at the position of the methylthioaspartic acid modification (see RESID:AA0232). Two groups independently confirmed that the genome sequence was erroroneous. The sequence in the revised genome has aspartic acid at that position." []
synonym: "(2R,3Xi)-2-amino-3-(methylsulfanyl)-4-butanediamic acid" BROAD []
synonym: "2,4-diamino-3-(methylsulfanyl)-4-oxobutanoic acid" BROAD []
synonym: "3-carboxamido-S-methyl-cysteine" BROAD []
synonym: "beta-(methylthio)asparagine" BROAD []
synonym: "go: GO:0042259" EXACT []
synonym: "mod: MOD:00325" EXACT []
synonym: "resid: AA0320" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: CS[C@H]([C@@H](C(=O)O)N)C(=O)N
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:H, Y
name: 3'-(1'-L-histidyl)-L-tyrosine
def: "This modification is different from the modification 3-(3'-L-histidyl)-L-tyrosine, see RESID:AA0250." []
synonym: "(2S)-2-amino-3-[1-(5-[(2S)-2-amino-2-carboxyethyl]-2-hydroxyphenyl)-1H-imidazol-4-yl]propanoic acid" BROAD []
synonym: "3'-(N(epsilon)-histidyl)tyrosine" BROAD []
synonym: "3'-(N1'-histidyl)tyrosine" BROAD []
synonym: "3'-(tau-histidyl)tyrosine" BROAD []
synonym: "3'-(tele-histidyl)tyrosine" BROAD []
synonym: "chebi: CHEBI:19837" EXACT []
synonym: "go: GO:0018152" EXACT []
synonym: "mod: MOD:00275" EXACT []
synonym: "resid: AA0270" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: O=C[C@H](Cc1ccc(c(c1)n1cnc(c1)C[C@@H](C(=O)O)[NH3+])O)[NH3+]
l_bond_atoms: N23-1
l_displaced_atoms: H23
l_displaced_atoms: H23+1
r_bond_atoms: C20
r_displaced_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:protein:AA0471
name: cysteine-5-amino-3,4,5,6-tetrahydropyridine-2,5-dicarboxylic acid
def: "Formed by the metathesis of two didehydroalanines made from serines, condensation with a cysteine carbonyl and dehydrogenation." []
synonym: "(5R,6R)-5-amino-6-[(1R)-1-amino-2-sulfanylethyl]-3,4,5,6-tetrahydropyridine-2,5-dicarboxylic acid" BROAD []
synonym: "L-cysteine 5-aminopiperideine-2,5-dicarboxylic acid" BROAD []
synonym: "mod: MOD:01394" EXACT []
synonym: "pdb.ligand: XBB" EXACT []
synonym: "resid: AA0471" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: SC[C@@H]([C@H]1N=C(CC[C@]1(N)C=O)C(=O)O)[NH3+]
l_bond_atoms: N7
r_bond_atoms: C15
r_displaced_atoms: O17
r_displaced_atoms: H17

[Term]
id: BpForms:protein:AA0116
name: N6-(4-amino-2-hydroxybutyl)-L-lysine
def: "Hypusine appears to occur uniquely in translation initiation factor eIF-5A. For the detectable intermediate form, L-deoxyhypusine, in either deoxyhypusine synthase or in initiation factor 5A, eIF5A, see RESID:AA0564. It is highly probable that, like prokaryotic elongation factor EF-P, eIF-5A acts to relieve ribosome stalling during the translation of polyproline and prolylglycine sequences. The hypusine residue may extend into the ribosome active site and assist in catalysis of the petidyl transfer. Generating Enzyme: deoxyhypusine synthase (EC 2.5.1.46); deoxyhypusine monooxygenase (EC 1.14.99.29)." []
synonym: "(2S)-2-amino-6-([(2R)-4-amino-2-hydroxybutyl]amino)hexanoic acid" BROAD []
synonym: "(2S,9R)-2,11-diazanyl-9-hydroxy-7-azaundecanoic acid" BROAD []
synonym: "(2S,9R)-hypusine" BROAD []
synonym: "2-azanyl-6-[(4-azanyl-2-hydroxybutyl)azanyl]hexanoic acid" BROAD []
synonym: "N6-(4-amino-2-hydroxybutyl)-L-lysine" BROAD []
synonym: "cas: 34994-11-1" EXACT []
synonym: "chebi: CHEBI:21858" EXACT []
synonym: "go: GO:0008612" EXACT []
synonym: "mod: MOD:00125" EXACT []
synonym: "resid: AA0116" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+]CC[C@H](C[NH2+]CCCC[C@@H](C(=O)O)[NH3+])O
l_bond_atoms: N22-1
l_displaced_atoms: H22
l_displaced_atoms: H22+1
r_bond_atoms: C19
r_displaced_atoms: O21
r_displaced_atoms: H21

[Term]
id: BpForms:protein:AA0568
name: N6-malonyl-L-lysine
def: "The responsible generating enzyme activity is not identified. This modification can be reversed by Sirt5." []
synonym: "(2S)-2-amino-6-[(carboxyacetyl)amino]hexanoic acid" BROAD []
synonym: "2-azanyl-6-[(carboxyacetyl)azanyl]hexanoic acid" BROAD []
synonym: "N(epsilon)-(malonyl)lysine" BROAD []
synonym: "N6-(carboxyacetyl)lysine" BROAD []
synonym: "N6-malonyllysine" BROAD []
synonym: "go: GO:0044392" EXACT []
synonym: "malonyllysine" BROAD []
synonym: "mod: MOD:01893" EXACT []
synonym: "resid: AA0568" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O=C[C@H](CCCCNC(=O)CC(=O)[O-])[NH3+]
l_bond_atoms: N9
l_displaced_atoms: H9
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:AA0223
name: S-diphytanylglycerol diether-L-cysteine
def: "The stereochemistry of the glycerol has not been determined. The S form is shown." []
synonym: "(2R)-2-amino-3-([(2S)-2,3-bis(3,7,11,15-tetramethylhexadecanyloxy)propyl]sulfanyl)propanoic acid" BROAD []
synonym: "S-[2',3'-bis(phytanyloxy)propyl]cysteine" BROAD []
synonym: "S-archaeol cysteine" BROAD []
synonym: "go: GO:0018115" EXACT []
synonym: "mod: MOD:00228" EXACT []
synonym: "resid: AA0223" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: C[C@H](CCC[C@@H](CCC[C@@H](CCCC(C)C)C)C)CCOC[C@@H](CSC[C@@H](C(=O)O)[NH3+])OCC[C@@H](CCC[C@@H](CCC[C@@H](CCCC(C)C)C)C)C
l_bond_atoms: N36-1
l_displaced_atoms: H36
l_displaced_atoms: H36+1
r_bond_atoms: C33
r_displaced_atoms: O35
r_displaced_atoms: H35

[Term]
id: BpForms:protein:AA0407
name: S-stearoyl-L-cysteine
def: "Although the predominant palmitoyl transferase in mammalian systems appears to utilize a mixture of saturated and unsaturated fatty acids, some systems may be more specific in their incorporation of other fatty acids.  See RESID:AA0307 and RESID:AA0308. This modification may be misidentified as S-palmitoyl-cysteine (see RESID:AA0106) when labeled palmitate is used without determining whether metabolic conversion has occurred. Generating Enzyme: protein-cysteine S-stearoyltransferase (EC 2.3.1.-)." []
synonym: "(R)-2-amino-3-(octadecanoylsulfanyl)propanoic acid" BROAD []
synonym: "2-amino-3-(octadecanoylthio)propanoic acid" BROAD []
synonym: "cysteine octadecanoate thioester" BROAD []
synonym: "cysteine stearate thioester" BROAD []
synonym: "mod: MOD:00816" EXACT []
synonym: "resid: AA0407" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: CCCCCCCCCCCCCCCCCC(=O)SC[C@@H](C(=O)O)N
l_bond_atoms: N27
l_displaced_atoms: H27
r_bond_atoms: C24
r_displaced_atoms: O26
r_displaced_atoms: H26

[Term]
id: BpForms:protein:AA0509
name: 3'-iodo-L-tyrosine
synonym: "(2S)-2-amino-3-(4-hydroxy-3-iodo-phenyl)propanoic acid" BROAD []
synonym: "(2S)-2-amino-3-(4-hydroxy-3-iodophenyl)propanoic acid" BROAD []
synonym: "3-iodo-L-tyrosine" BROAD []
synonym: "3-iodo-tyrosine" BROAD []
synonym: "3-iodotyrosine" BROAD []
synonym: "4-hydroxy-3-iodo-phenylalanine" BROAD []
synonym: "MIT" BROAD []
synonym: "Y" BROAD []
synonym: "cas: 70-78-0" EXACT []
synonym: "chebi: CHEBI:27847" EXACT []
synonym: "mod: MOD:01612" EXACT []
synonym: "pdb-ccd: IYR" EXACT []
synonym: "pdb.ligand: IYR" EXACT []
synonym: "resid: AA0509" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: OC(=O)[C@H](Cc1ccc(c(c1)I)O)[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0445
name: (2S,4R)-4,5-dihydroxyleucine
synonym: "(2S,4R)-2-amino-4,5-dihydroxy-4-methylpentanoic acid (non-preferred name)" BROAD []
synonym: "(2S,4R)-2-amino-4,5-dihydroxy-4-methylpentanoic acid" BROAD []
synonym: "(2s,4r)-2-amino-4,5-dihydroxy-4-methylpentanoic acid" BROAD []
synonym: "(2~{S},4~{R})-2-azanyl-4-methyl-4,5-bis(oxidanyl)pentanoic acid" BROAD []
synonym: "(4R)-4,5-dihydroxyleucine" BROAD []
synonym: "gamma,delta-dihydroxyleucine" BROAD []
synonym: "mod: MOD:01375" EXACT []
synonym: "pdb-ccd: EEP" EXACT []
synonym: "resid: AA0445" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: OC[C@@](C[C@@H](C(=O)O)[NH3+])(O)C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:U
name: L-selenocysteine
def: "Selenocysteine is translated for the UGA codon in some genetic systems. It has not yet been demonstrated to arise alternatively from a post-translational modification. Although the single letter symbol U is recommended by IUBMB, many software applications fail to recognize it, and some sequence databases may use the single letter symbol C. Generating Enzyme: serine--tRNA ligase (EC 6.1.1.11); L-seryl-tRNA(Sec) selenium transferase, SelA (EC 2.9.1.1); O-phosphoseryl-tRNA(Sec) kinase (EC 2.7.1.164); O-phospho-L-seryl-tRNA(Sec):L-selenocysteinyl-tRNA synthase, SepSecS (EC 2.9.1.2)." []
synonym: "(2R)-2-amino-3-selanylpropanoic acid" BROAD []
synonym: "2-azanyl-3-selanylpropanoic acid" BROAD []
synonym: "3-selenylalanine" BROAD []
synonym: "SeCys" BROAD []
synonym: "cas: 10236-58-5" EXACT []
synonym: "chebi: CHEBI:30000" EXACT []
synonym: "go: GO:0001514" EXACT []
synonym: "mod: MOD:00031" EXACT []
synonym: "mod: MOD:00686" EXACT []
synonym: "pdb.ligand: CSE" EXACT []
synonym: "resid: AA0022" EXACT []
synonym: "selenium cysteine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: N[C@H](C(=O)O)C[SeH]
l_bond_atoms: N1
l_displaced_atoms: H1
r_bond_atoms: C4
r_displaced_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:protein:AA0229
name: L-cysteine glutathione disulfide
def: "Disulfide formation with free glutatione extracellularly is probably not enzymatically catalyzed." []
synonym: "(2S)-2-amino-3-((2S)-2-((4R)-4-amino-4-carboxyl-1-oxobutyl)amino-3-(carboxylmethyl)amino-3-oxo-propyl)dithio-propanoic acid" BROAD []
synonym: "L-gamma-glutamyl-L-cysteinyl-glycine (2-1')-disulfide with L-cysteine" BROAD []
synonym: "N-(N-gamma-glutamyl-cystinyl)-glycine" BROAD []
synonym: "cas: 13081-14-6" EXACT []
synonym: "chebi: CHEBI:21264" EXACT []
synonym: "cysteinyl glutathione" BROAD []
synonym: "go: GO:0018118" EXACT []
synonym: "mod: MOD:00234" EXACT []
synonym: "pdb.ligand: GSH" EXACT []
synonym: "resid: AA0229" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CSSC[C@@H](C(=O)NCC(=O)[O-])NC(=O)CC[C@@H](C(=O)[O-])[NH3+])[NH3+]
l_bond_atoms: N13
l_displaced_atoms: H13
r_bond_atoms: C15
r_displaced_atoms: O17-1

[Term]
id: BpForms:protein:AA0426
name: S-(15-deoxy-Delta12,14-prostaglandin J2-9-yl)-L-cysteine
def: "Generating Enzyme: autocatalytic." []
synonym: "(2R)-2-amino-3-([(5Z,9Xi,12E,14Z)-1-hydroxy-1,11-oxoprosta-5,12,14-trien-9-yl]sulfanyl)propanoic acid" BROAD []
synonym: "(5Z,9Xi,12E,14Z)-9-([(2R)-2-amino-3-carboxyethyl]sulfanyl)-11-oxoprosta-5,12,14-trien-1-oic acid" BROAD []
synonym: "cas: 60203-57-8" EXACT []
synonym: "chebi: CHEBI:27485" EXACT []
synonym: "mod: MOD:01174" EXACT []
synonym: "resid: AA0426" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: CCCCC/C=C\C=C/1\C(=O)C[C@H]([C@@H]1C/C=C\CCCC(=O)[O-])SC[C@@H](C=O)[NH3+]
l_bond_atoms: N32-1
l_displaced_atoms: H32
l_displaced_atoms: H32+1
r_bond_atoms: C23
r_displaced_atoms: O25-1

[Term]
id: BpForms:protein:AA0458
name: aminomalonic acid
def: "This modification in the modeled protein has not been chemically confirmed. As a free amino acid, aminomalonic acid is achiral. However, originating from (2S)-serine in a protein, the residue would be named as a (2R)-2,3-diamino-3-oxopropanoic acid, with the serine carbon-3 carboxyl taking precedence, becoming carbon-1, and changing the stereochemical designation. The PDB Hetgroup FGL was originally designated as the "C(alpha)-formyl glycine" active site residue L-3-oxoalanine (see RESID:AA0185) observed in its hydrated form. That structure, a gem-diol with an sp(3) carbon, was misinterpreted as a carboxyl with an sp(2) carbon and assigned to aminomalonic acid instead." []
synonym: "2-carboxyglycine" BROAD []
synonym: "Ama" BROAD []
synonym: "aminopropanedioic acid" BROAD []
synonym: "cas: 1068-84-4" EXACT []
synonym: "mod: MOD:01384" EXACT []
synonym: "pdb.ligand: FGL" EXACT []
synonym: "resid: AA0458" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: O=C[C@H](C(=O)[O-])[NH3+]
l_bond_atoms: N8-1
l_displaced_atoms: H8
l_displaced_atoms: H8+1
r_bond_atoms: C5
r_displaced_atoms: O7-1

[Term]
id: BpForms:protein:AA0590
name: N6-oleoyl-L-lysine
def: "Generating Enzyme: peptidyl-lysine N6-oleoyltransferase (EC 2.3.1.-)." []
synonym: "(2S)-2-amino-6-([(9Z)-octadec-9-enoyl]amino)hexanoic acid" BROAD []
synonym: "N6-[(9Z)-1-oxo-9-octadecenyl]lysine" BROAD []
synonym: "cas: 23499-75-4" EXACT []
synonym: "mod: MOD:01936" EXACT []
synonym: "resid: AA0590" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: CCCCCCCC/C=C\CCCCCCCC(=O)NCCCC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N30-1
l_displaced_atoms: H30
l_displaced_atoms: H30+1
r_bond_atoms: C27
r_displaced_atoms: O29
r_displaced_atoms: H29

[Term]
id: BpForms:protein:AA0305
name: N5-methyl-L-arginine
def: "This modification should not be confused with 5-methylarginine (see RESID:AA0272). Generating Enzyme: protein-arginine N5-methyltransferase (EC 2.1.1.-)." []
synonym: "(2S)-2-amino-5-(N-methylcarbamimidamido)pentanoic acid" BROAD []
synonym: "N5-carbamimidoyl-N5-methyl-L-ornithine" BROAD []
synonym: "chebi: CHEBI:21848" EXACT []
synonym: "delta-N-methylarginine" BROAD []
synonym: "go: GO:0019701" EXACT []
synonym: "mod: MOD:00310" EXACT []
synonym: "resid: AA0305" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: OC(=O)[C@H](CCCN(C(=[NH2])N)C)[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0541
name: L-glutamate thiazole-4-carboxylic acid
def: "Formed by the condensation of a cysteine thiol with the carbonyl of the preceding residue and alpha-beta dehydrogenation. This modification is currently represented in the PDB as part of the HET group for the entire molecule of nosiheptide. Generating Enzyme: peptidyl-cysteine cyclase (EC 4.2.1.-); peptidyl-thiazoline dehydrogenase (EC 1.3.-.-)." []
synonym: "2-[(1S)-1-amino-3-carboxypropyl]-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "2-[-1-azanyl-3-carboxypropyl]-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "mod: MOD:01815" EXACT []
synonym: "pdb.ligand: BB9" EXACT []
synonym: "resid: AA0541" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=Cc1csc(n1)[C@@H](CCC(=O)[O-])[NH3+]
l_bond_atoms: N7
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:AA0325
name: (phospho-5'-guanosine)-L-histidine
def: "It is not known whether the phosphoramide bond is formed with the tele- or pros-nitrogen of histidine. The tele-linked form is presented." []
synonym: "(2S)-2-amino-3-(1-(5'-adenosine phosphono)imidazol-4-yl)propanoic acid" BROAD []
synonym: "L-histidine 5'-guanosine phosphoramidester" BROAD []
synonym: "L-histidine monoanhydride with 5'-guanylic acid" BROAD []
synonym: "N(tau)-5'-guanylic-L-histidine" BROAD []
synonym: "N1'-guanylylated histidine" BROAD []
synonym: "go: GO:0045427" EXACT []
synonym: "mod: MOD:00330" EXACT []
synonym: "pdb.ligand: 5GP" EXACT []
synonym: "resid: AA0325" EXACT []
synonym: "tele-5'-guanylic-L-histidine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: OC(=O)[C@H](Cc1ncn(c1)[P@@](=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1nc(N)[nH]c2=O)[O-])[NH3+]
l_bond_atoms: N40-1
l_displaced_atoms: H40
l_displaced_atoms: H40+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0082
name: L-arginine amide
def: "Generating Enzyme: peptidylglycine monooxygenase (EC 1.14.17.3)." []
synonym: "(2S)-2-amino-5-[(diaminomethylidene)amino]pentanamide" BROAD []
synonym: "2-amino-5-carbamimidamidopentanamide" BROAD []
synonym: "2-amino-5-guanidinopentanamide" BROAD []
synonym: "R" BROAD []
synonym: "[amino-[[(4S)-4,5-diamino-5-oxo-pentyl]amino]methylidene]azanium" BROAD []
synonym: "amino{[(4S)-4,5-diamino-5-oxopentyl]amino}methaniminium" BROAD []
synonym: "argininamide" BROAD []
synonym: "arginineamide" BROAD []
synonym: "cas: 2788-83-2" EXACT []
synonym: "chebi: CHEBI:21236" EXACT []
synonym: "go: GO:0018035" EXACT []
synonym: "mod: MOD:00091" EXACT []
synonym: "pdb-ccd: AAR" EXACT []
synonym: "pdb.ligand: AAR" EXACT []
synonym: "resid: AA0082" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: NC(=[NH+]CCC[C@@H](C(=O)N)[NH3+])N
l_bond_atoms: N1
l_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0480
name: (2S)-4,5,5'-trihydroxyleucine
synonym: "(2S)-2-amino-4,5-dihydroxy-4-(hydroxymethyl)pentanoic acid" BROAD []
synonym: "4,5,5'-trihydroxyleucine" BROAD []
synonym: "gamma,delta,delta'-trihydroxyleucine" BROAD []
synonym: "mod: MOD:01403" EXACT []
synonym: "resid: AA0480" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: OCC(C[C@@H](C(=O)O)N)(CO)O
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0044
name: N-acetyl-L-glutamic acid
def: "Generating Enzyme: peptide alpha-N-acetyltransferase (EC 2.3.1.88)." []
synonym: "(2S)-2-(acetamido)pentanedioic acid" BROAD []
synonym: "2-(acetylamino)pentanedioic acid" BROAD []
synonym: "2-(acetylazanyl)pentanedioic acid" BROAD []
synonym: "acetylglutamic acid" BROAD []
synonym: "cas: 1188-37-0" EXACT []
synonym: "chebi: CHEBI:17533" EXACT []
synonym: "go: GO:0018002" EXACT []
synonym: "mod: MOD:00053" EXACT []
synonym: "resid: AA0044" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: O=C[C@@H](NC(=O)C)CCC(=O)[O-]
l_bond_atoms: N5
l_displaced_atoms: H5
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:AA0299
name: L-leucine methyl ester
def: "The carboxy-terminal motif for this modification, [PAMV][DG]YFL*, is strongly conserved. Generating Enzyme: [phosphatase 2A protein]-leucine-carboxy methyltransferase (EC 2.1.1.233)." []
synonym: "2-amino-4-methylpentanoic methyl ester" BROAD []
synonym: "L" BROAD []
synonym: "alpha-aminoisocaproic methyl ester" BROAD []
synonym: "cas: 2666-93-5" EXACT []
synonym: "chebi: CHEBI:44075" EXACT []
synonym: "go: GO:0018439" EXACT []
synonym: "methyl (2S)-2-amino-4-methyl-pentanoate" BROAD []
synonym: "methyl (2S)-2-amino-4-methylpentanoate" BROAD []
synonym: "methyl L-leucinate" BROAD []
synonym: "methyl l-leucinate" BROAD []
synonym: "mod: MOD:00304" EXACT []
synonym: "pdb-ccd: MLL" EXACT []
synonym: "pdb.ligand: MLL" EXACT []
synonym: "resid: AA0299" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: COC(=O)[C@H](CC(C)C)[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1

[Term]
id: BpForms:protein:AA0115
name: N6-1-carboxyethyl-L-lysine
def: "Generating Enzyme: autocatalytic." []
synonym: "(2S)-2-amino-6-([(1S)-1-carboxyethyl]amino)hexanoic acid" BROAD []
synonym: "N6-(1-carboxyethyl)lysine" BROAD []
synonym: "NZ-(1-carboxyethyl)lysine" BROAD []
synonym: "cas: 68852-50-6" EXACT []
synonym: "chebi: CHEBI:53015" EXACT []
synonym: "go: GO:0018238" EXACT []
synonym: "mod: MOD:00124" EXACT []
synonym: "pdb.ligand: MCL" EXACT []
synonym: "resid: AA0115" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O=C[C@H](CCCC[NH2+][C@H](C(=O)[O-])C)[NH3+]
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:AA0080
name: O-palmitoyl-L-serine
def: "The palmitate represents a mixture of saturated and unsaturated fatty acids." []
synonym: "(2S)-2-amino-3-(hexadecanoyloxy)propanoic acid" BROAD []
synonym: "L-serine hexadecanoate ester" BROAD []
synonym: "O3-palmitoyl-serine" BROAD []
synonym: "cas: 88815-78-5" EXACT []
synonym: "go: GO:0018221" EXACT []
synonym: "mod: MOD:00089" EXACT []
synonym: "pdb.ligand: PLM" EXACT []
synonym: "resid: AA0080" EXACT []
synonym: "serine palmitate ester" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: CCCCCCCCCCCCCCCC(=O)OC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N25-1
l_displaced_atoms: H25
l_displaced_atoms: H25+1
r_bond_atoms: C22
r_displaced_atoms: O24
r_displaced_atoms: H24

[Term]
id: BpForms:protein:AA0610
name: 3-methyl-L-lanthionine
def: "There are 3 chiral centers, so there are 8 possible stereoisomers. Bacterial peptidyl-cysteine dehydroalanine/dehydrobutyrine ligase and peptide conformation preferentially produce the (2S,3S,2'R) diastereomer. The cysteine maintains its L configuration (R chirality), while the threonine 2-aminobutanoate skeleton koses and then regains an L configuration (R chirality). For the (2S,3S,2'R), see RESID:AA0112. Generating Enzyme: peptidyl-phosphoserine/phosphothreonine dehydratase (EC 4.2.1.-); peptidyl-cysteine dehydroalanine/dehydrobutyrine ligase (EC 6.2.-.-)." []
synonym: "(2R,3R)-2-amino-3-([(2R)-2-amino-2-carboxyethyl]sulfanyl)butanoic acid" BROAD []
synonym: "(2R,3R,2'R)-2-amino-3-[(2-amino-2-carboxyethyl)thio]butanoic acid" BROAD []
synonym: "(2R,3R,6R)-2,6-diamino-3-methyl-4-thiaheptanedioic acid" BROAD []
synonym: "(2R,3R,6R)-3-methyllanthionine" BROAD []
synonym: "2-azanyl-3-[(2-azanyl-2-carboxyethyl)sulfanyl]butanoic acid" BROAD []
synonym: "3-methyl-L,L-lanthionine" BROAD []
synonym: "cysteine-3-L-butyrine thioether" BROAD []
synonym: "mod: MOD:01968" EXACT []
synonym: "resid: AA0610" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CS[C@@H]([C@@H](C(=O)O)[NH3+])C)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:protein:AA0420
name: N4-(N-acetylamino)galactosyl-L-asparagine
def: "This modification occurs in archaebacterial cell surface proteins with an NX[ST] motif. See also RESID:AA0151 and RESID:AA0421 for other N4-glycosylated asparagines." []
synonym: "(2S)-2-amino-4-(2-acetamido-2-deoxy-beta-D-galactopyranosyl)amino-4-oxobutanoic acid" BROAD []
synonym: "N4-(2-acetamido-2-deoxy-beta-D-galactopyranosyl)-L-asparagine" BROAD []
synonym: "N4-(2-acetylamino-2-deoxy-beta-D-galactopyranosyl)-L-asparagine" BROAD []
synonym: "N4-(N-acetylgalactosaminyl)asparagine" BROAD []
synonym: "N4-asparagine-beta-N-acetylgalactosaminide" BROAD []
synonym: "N4-glycosyl-L-asparagine" BROAD []
synonym: "N4-glycosylasparagine" BROAD []
synonym: "cas: 100991-94-4" EXACT []
synonym: "mod: MOD:00832" EXACT []
synonym: "resid: AA0420" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: OC[C@H]1O[C@H](NC(=O)C[C@@H](C(=O)O)N)[C@@H]([C@H]([C@H]1O)O)NC(=O)C
l_bond_atoms: N17
l_displaced_atoms: H17
r_bond_atoms: C14
r_displaced_atoms: O16
r_displaced_atoms: H16

[Term]
id: BpForms:protein:AA0607
name: N4-(2,4-diacetamido-2,4,6-trideoxy-D-glucosyl)-L-serine
def: "Bacillosamine is a trivial name formed by modification of a non-standard monosaccharide parent name, and is not recommended by the IUPAC Nomenclature Committee. Some authors use bacillosamine to refer to the diacetylated form, rather than the unacetylated form. For O-(2,4-diacetamido-2,4-dideoxy-D-glucosyl)-L-serine, see RESID:AA0499." []
synonym: "(2S)-2-amino-4-[(2,4-diacetamido-2,4,6-trideoxy-beta-D-glucopyranosyl)oxy]propanoic acid" BROAD []
synonym: "DABA" BROAD []
synonym: "DATDH" BROAD []
synonym: "DiNAcBac" BROAD []
synonym: "O-[2,4-bis(acetylamino)-2,4,6-trideoxy-beta-D-glucopyranosyl]-L-serine" BROAD []
synonym: "O-[N,N-diacetylbacillosaminyl]serine" BROAD []
synonym: "O-[N2,N4-diacetylbacillosaminyl]serine" BROAD []
synonym: "mod: MOD:01963" EXACT []
synonym: "resid: AA0607" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: CC(=O)N[C@H]1[C@H](OC[C@@H](C(=O)O)[NH3+])O[C@@H]([C@H]([C@@H]1O)NC(=O)C)C
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15
r_displaced_atoms: H15

[Term]
id: BpForms:protein:AA0047
name: N-acetyl-L-isoleucine
def: "The occurrence of this modification has not been confirmed." []
synonym: "(2S,3S)-2-acetamido-3-methylpentanoic acid" BROAD []
synonym: "2-acetylamino-3-methylpentanoic acid" BROAD []
synonym: "2-acetylazanyl-3-methylpentanoic acid" BROAD []
synonym: "acetylisoleucine" BROAD []
synonym: "cas: 3077-46-1" EXACT []
synonym: "chebi: CHEBI:21555" EXACT []
synonym: "go: GO:0017194" EXACT []
synonym: "mod: MOD:00056" EXACT []
synonym: "resid: AA0047" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:I ! L-isoleucine
structure: CC[C@@H]([C@@H](C(=O)O)NC(=O)C)C
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0219
name: 1-chondroitin sulfate-L-aspartic acid ester
synonym: "1-aspartic acid ester with 6-chondroitin 4-sulfate" BROAD []
synonym: "go: GO:0019800" EXACT []
synonym: "mod: MOD:00224" EXACT []
synonym: "poly[beta-1,4-D-glucopyranuronosyl-beta-1,3-(2-acetamido-2-deoxy-4-sulfate D-galactosyl)]beta-1,4-D-glucopyranuronosyl-beta-1,3-(2-acetamido-2-deoxy-4-sulfate-6-(1-L-aspartyl)-D-galactose)" BROAD []
synonym: "protein-glycosaminoglycan-protein cross-link" BROAD []
synonym: "resid: AA0219" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:D ! L-aspartic acid
structure: CC(=O)N[C@H]1[C@H](O)O[C@@H]([C@@H]([C@@H]1O[C@@H]1O[C@@H](C[C@@H]([C@H]1O)O)C(=O)[O-])OS(=O)(=O)[O-])COC(=O)[C@H](CC(=O)[O-])[NH3+]
l_bond_atoms: N4
l_displaced_atoms: H4
r_bond_atoms: C30
r_displaced_atoms: O32-1

[Term]
id: BpForms:protein:AA0217
name: 2'-alpha-mannosyl-L-tryptophan
def: "The carbohydrate, identified as mannose, is linked to tryptophan by an unusual C-glycosidic linkage. The structures determined in NMR and X-ray diffraction studies differ in assigning the glycosylation as being alpha or beta, respectively.  The beta anomeric form is shown." []
synonym: "(2S)-2-amino-3-(2-beta-D-mannopyranosyl-1H-indol-3-yl)propanoic acid" BROAD []
synonym: "2'-tryptophan C-mannoside" BROAD []
synonym: "go: GO:0018103" EXACT []
synonym: "mod: MOD:00222" EXACT []
synonym: "pdb.ligand: BMA" EXACT []
synonym: "resid: AA0217" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: OC[C@H]1O[C@@H]([C@H]([C@H]([C@@H]1O)O)O)c1[nH]c2c(c1C[C@@H](C(=O)O)[NH3+])cccc2
l_bond_atoms: N29-1
l_displaced_atoms: H29
l_displaced_atoms: H29+1
r_bond_atoms: C26
r_displaced_atoms: O28
r_displaced_atoms: H28

[Term]
id: BpForms:protein:AA0198
name: D-tryptophan
def: "Generating Enzyme: protein-tryptophan epimerase (EC 5.1.1.-)." []
synonym: "(R)-2-amino-3-(1H-indol-3-yl)propanoic acid" BROAD []
synonym: "alpha-amino-beta-(3-indolyl)propionoic acid" BROAD []
synonym: "cas: 153-94-6" EXACT []
synonym: "chebi: CHEBI:29955" EXACT []
synonym: "go: GO:0019128" EXACT []
synonym: "mod: MOD:00205" EXACT []
synonym: "pdb.ligand: DTR" EXACT []
synonym: "resid: AA0198" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: OC(=O)[C@@H](Cc1c[nH]c2c1cccc2)[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0455
name: S-palmitoleyl-L-serine
def: "Generating Enzyme: protein-serine O-palmitoleyltransferase (EC 2.3.1.-)." []
synonym: "(2S)-2-amino-3-((9Z)-9-hexadecenoyloxy)propanoic acid" BROAD []
synonym: "L-serine cis-9-hexadecenoate ester" BROAD []
synonym: "O3-palmitoleyl-serine" BROAD []
synonym: "mod: MOD:01381" EXACT []
synonym: "pdb.ligand: PAM" EXACT []
synonym: "resid: AA0455" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: CCCCCC/C=C\CCCCCCCC(=O)OC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N25-1
l_displaced_atoms: H25
l_displaced_atoms: H25+1
r_bond_atoms: C22
r_displaced_atoms: O24
r_displaced_atoms: H24

[Term]
id: BpForms:protein:AA0338
name: N-methyl-L-tyrosine
def: "This modification is predicted for proteins homologous to pilin in certain organisms where the position corresponding to N-methylphenylalanine instead encodes tyrosine. Polypeptides with monomethylated amino terminals can undergo premature cleavage during the coupling step of an Edman degradation. This can result in "preview" with both a residue and the following residue being seen from the first step on through a sequence. Generating Enzyme: prepilin peptidase (EC 3.4.23.43)." []
synonym: "(2S)-3-(4-hydroxyphenyl)-2-(methylamino)propanoic acid" BROAD []
synonym: "(2S)-3-(4-hydroxyphenyl)-2-methylamino-propanoic acid" BROAD []
synonym: "N-methyl-L-tyrosine" BROAD []
synonym: "N-methyltyrosine" BROAD []
synonym: "cas: 537-49-5" EXACT []
synonym: "go: GO:0046897" EXACT []
synonym: "mod: MOD:00343" EXACT []
synonym: "n-methyl-l-tyrosine" BROAD []
synonym: "pdb-ccd: YNM" EXACT []
synonym: "resid: AA0338" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: C[NH2+][C@H](C(=O)O)Cc1ccc(cc1)O
l_bond_atoms: N2-1
l_displaced_atoms: H2
l_displaced_atoms: H2+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0523
name: omega-N,omega-N,omega-N'-trimethyl-L-arginine
def: "No enzyme activities capable of producing this modification under physiological conditions have been reported." []
synonym: "(2S)-2-amino-5-([(dimethylamino)(methylamino)methylidene]amino)pentanoic acid" BROAD []
synonym: "(2S)-2-amino-5-([(dimethylamino)(methylimino)methyl]amino)pentanoic acid" BROAD []
synonym: "2-[(4S)-4-amino-5-oxopentyl]-1,1,3-trimethylguanidine" BROAD []
synonym: "N(G)-trimethylarginine" BROAD []
synonym: "N5-[(dimethylamino)(imino)methyl]ornithine" BROAD []
synonym: "mod: MOD:01669" EXACT []
synonym: "resid: AA0523" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: CN/C(=[NH+]/CCC[C@@H](C(=O)O)[NH3+])/N(C)C
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:protein:AA0337
name: N-methyl-L-leucine
def: "This modification is predicted for proteins homologous to pilin in certain organisms where the position corresponding to N-methylphenylalanine instead encodes leucine. Polypeptides with monomethylated amino terminals can undergo premature cleavage during the coupling step of an Edman degradation. This can result in "preview" with both a residue and the following residue being seen from the first step on through a sequence. Generating Enzyme: prepilin peptidase (EC 3.4.23.43)." []
synonym: "(2S)-4-methyl-2-(methylamino)pentanoic acid" BROAD []
synonym: "(S)-2-methylamino-4-methylpentanoic acid" BROAD []
synonym: "2-(methylamino)-4-methyl-valeric acid" BROAD []
synonym: "L" BROAD []
synonym: "N-methyl-L-leucine" BROAD []
synonym: "N-methylleucine" BROAD []
synonym: "cas: 3060-46-6" EXACT []
synonym: "go: GO:0046896" EXACT []
synonym: "mod: MOD:00342" EXACT []
synonym: "n-methylleucine" BROAD []
synonym: "pdb-ccd: MLE" EXACT []
synonym: "pdb.ligand: MLE" EXACT []
synonym: "resid: AA0337" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: C[NH2+][C@H](C(=O)O)CC(C)C
l_bond_atoms: N2-1
l_displaced_atoms: H2
l_displaced_atoms: H2+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0582
name: 3-methoxydidehydroalanine
def: "It has not been established whether the natural form is the Z or the E isomer. The Z isomer is shown." []
synonym: "2-amino-3-methoxyprop-2-enoic acid" BROAD []
synonym: "3-methoxydidehydroalanine" BROAD []
synonym: "mod: MOD:01922" EXACT []
synonym: "resid: AA0582" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: CO/C=C(/C(=O)O)\N
l_bond_atoms: N8
l_displaced_atoms: H8
r_bond_atoms: C5
r_displaced_atoms: O7
r_displaced_atoms: H7

[Term]
id: BpForms:protein:AA0191
name: D-alanine
def: "Generating Enzyme: protein-alanine epimerase (EC 5.1.1.-)." []
synonym: "(R)-2-aminopropanoic acid" BROAD []
synonym: "cas: 338-69-2" EXACT []
synonym: "chebi: CHEBI:29949" EXACT []
synonym: "go: GO:0019122" EXACT []
synonym: "mod: MOD:00198" EXACT []
synonym: "mod: MOD:00858" EXACT []
synonym: "pdb.ligand: DAL" EXACT []
synonym: "resid: AA0191" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: C[C@@H]([NH3+])C(=O)O
l_bond_atoms: N4-1
l_displaced_atoms: H4
l_displaced_atoms: H4+1
r_bond_atoms: C8
r_displaced_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:protein:AA0118
name: N6-lipoyl-L-lysine
def: "Generating Enzyme: lipoate--protein ligase (EC 6.3.4.-)." []
synonym: "(2S)-2-amino-6-(5-[(3R)-1,2-dithiolan-3-yl]pentanamido)hexanoic acid" BROAD []
synonym: "(2S)-2-amino-6-[(5-[(3R)-1,2-dithiolan-3-yl]pentanoyl)amino]hexanoic acid" BROAD []
synonym: "(2S,6'R)-2-amino-6-(6,8-dithiooctanamido)hexanoic acid" BROAD []
synonym: "2-amino-6-(5-[1,2-dithiolan-3-yl]-1-oxopentyl)aminohexanoic acid" BROAD []
synonym: "N6-6,8-dithiooctanoyllysine" BROAD []
synonym: "N6-lipoyllysine" BROAD []
synonym: "cas: 1200-22-2" EXACT []
synonym: "chebi: CHEBI:14919" EXACT []
synonym: "go: GO:0018055" EXACT []
synonym: "mod: MOD:00127" EXACT []
synonym: "pdb.ligand: LPA" EXACT []
synonym: "resid: AA0118" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O=C(CCCC[C@@H]1CCSS1)NCCCC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N23-1
l_displaced_atoms: H23
l_displaced_atoms: H23+1
r_bond_atoms: C20
r_displaced_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:protein:AA0250
name: 3-(3'-L-histidyl)-L-tyrosine
def: "The chirality of tyrosine C-3 is not specified; from the model it appears to be 3R. This modification is different from the modification 3'-(1'-L-histidyl)-L-tyrosine, see RESID:AA0270." []
synonym: "(2S,3R)-2-amino-3-(5-[(2S)-2-amino-2-carboxyethyl]-1H-imidazol-1-yl)-3-(4-hydroxyphenyl)propanoic acid" BROAD []
synonym: "3-(N3'-histidyl)tyrosine" BROAD []
synonym: "3-(pi-histidyl)tyrosine" BROAD []
synonym: "3-(pros-histidyl)tyrosine" BROAD []
synonym: "beta-(N(delta)-histidyl)tyrosine" BROAD []
synonym: "beta-(N3'-histidyl)tyrosine" BROAD []
synonym: "go: GO:0018150" EXACT []
synonym: "mod: MOD:00255" EXACT []
synonym: "resid: AA0250" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: O=C[C@H]([C@H](n1cncc1C[C@@H](C(=O)O)[NH3+])c1ccc(cc1)O)N
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C15
r_displaced_atoms: O17
r_displaced_atoms: H17

[Term]
id: BpForms:protein:AA0584
name: O-octanoyl-L-cysteine
def: "Generating Enzyme: autocatalytic." []
synonym: "(2S)-2-amino-3-(octanoylsulfanyl)propanoic acid" BROAD []
synonym: "2-amino-3-(octanoylthio)propanoic acid" BROAD []
synonym: "cysteine octanoate thioester" BROAD []
synonym: "mod: MOD:01924" EXACT []
synonym: "resid: AA0584" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: CCCCCCCC(=O)SC[C@@H](C(=O)O)N
l_bond_atoms: N17
l_displaced_atoms: H17
r_bond_atoms: C14
r_displaced_atoms: O16
r_displaced_atoms: H16

[Term]
id: BpForms:protein:AA0113
name: 3'-(S-L-cysteinyl)-L-tyrosine
def: "In galactose oxidase, cysteinyltyrosine may exist as a stable free radical; the bond between the sulfur and the phenyl ring appears to have some double bond character. This modification should not be confused with 3-(S-L-cysteinyl)-L-tyrosine (see RESID:AA0396)." []
synonym: "(2S)-2-amino-3-(3-[(2R)2-amino-2-carboxyethylsulfanyl]-4-hydroxyphenyl)propanoic acid" BROAD []
synonym: "2-amino-3-[3-(2-amino-2-carboxyethylthio)-4-hydroxyphenyl]propanoic acid" BROAD []
synonym: "3'-(cystein-S-yl)tyrosine" BROAD []
synonym: "S-(tyros-3'-yl)cysteine" BROAD []
synonym: "go: GO:0018234" EXACT []
synonym: "mod: MOD:00122" EXACT []
synonym: "resid: AA0113" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: O=C[C@H](CSc1cc(ccc1O)C[C@@H](C(=O)O)[NH3+])[NH3+]
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C17
r_displaced_atoms: O19
r_displaced_atoms: H19

[Term]
id: BpForms:protein:AA0521
name: N-(DNA-1',2'-dideoxyribos-1'-ylidene)-L-valine
def: "The model has three open valences, one on the valine carboxyl group and two in the DNA nucleotide segment on the 5'-phosphate and the 3'-hydroxyl. The keyword "phosphoprotein" is not used with polynucleotide-linked intermediate modifications. Generating Enzyme: DNA glycosylase (EC 3.2.2.-)." []
synonym: "(2S)-2-[(3R,4R)-3,4-dihydroxy-5-(phosphonooxy)pentylidene]amino-3-methylbutanoic acid" BROAD []
synonym: "DNA glycosylase valine Schiff base intermediate" BROAD []
synonym: "mod: MOD:01665" EXACT []
synonym: "resid: AA0521" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:V ! L-valine
structure: OP(OC[C@H]([C@H](CC[NH2+][C@H](C(=O)O)C(C)C)O)O)O
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C16
r_displaced_atoms: O18
r_displaced_atoms: H18

[Term]
id: BpForms:protein:AA0261
name: N-L-glutamyl-poly-L-glutamic acid
def: "Generating Enzyme: ribosomal S6--glutamic acid ligase (EC 6.3.2.-)." []
synonym: "go: GO:0018170" EXACT []
synonym: "mod: MOD:00266" EXACT []
synonym: "resid: AA0261" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: [O-]C(=O)CC[C@@H](C(=O)N[C@H](C(=O)[O-])CCC(=O)[O-])[NH3+]
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:G, Q
name: 2-imino-glutamine 5-imidazolinone glycine
def: "This entry represents the cross-link of the peptide backbone from the alpha-carboxyl carbon of residue N, a glutamine, to the alpha-amino nitrogen of residue N+2, a glycine, coupled with the formation of a double bond to the alpha-amino nitrogen of residue N, and the loss of a molecule of water. This cross-link is accompanied by modification of residue N+1. The modified residue N+1 is presented in a separate entry and is not included in the mass accounting of this entry. The backbone atoms of residue N+1 are shown in gray in the diagram. Generating Enzyme: autocatalytic." []
synonym: "2,N-didehydroglutaminyl-5-imidazolinone glycine" BROAD []
synonym: "2-(3-carbamoyl-1-imino-propyl)-1-carboxymethyl-1-imidazolin-5-one" BROAD []
synonym: "2-[(4Z)-2-(4-azanyl-4-oxidanylidene-butanimidoyl)-4-[(4-hydroxyphenyl)methylidene]-5-oxidanylidene-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "QYG" BROAD []
synonym: "[(4Z)-2-[(1E)-4-amino-4-oxobutanimidoyl]-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1H-imidazol-1-yl]acetic acid" BROAD []
synonym: "[2-(3-carbamoyl-1-imino-propyl)-4-(4-hydroxy-benzylidene)-5-oxo-4,5-dihydro-imidazol-1-yl]-acetic acid" BROAD []
synonym: "[2-(3-carbamoyl-1-imino-propyl)-5-oxo-4,5-dihydro-imidazol-1-yl]-acetic acid" BROAD []
synonym: "[2-(4-amino-4-oxobutanimidoyl)-5-oxo-4,5-dihydro-1H-imidazol-1-yl]acetic acid" BROAD []
synonym: "fluorescent protein FP583 chromophore" BROAD []
synonym: "go: GO:0019729" EXACT []
synonym: "mod: MOD:00197" EXACT []
synonym: "para-hydroxybenzylidene-imidazolidinone chromophore" BROAD []
synonym: "pdb-ccd: CRQ" EXACT []
synonym: "pdb.ligand: CRQ" EXACT []
synonym: "red fluorescent protein chromophore" BROAD []
synonym: "resid: AA0189" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Q ! L-glutamine
structure: NC(=O)CCC(=N)C1=NCC(=O)N1CC(=O)O
l_bond_atoms: N1
l_displaced_atoms: H1
r_bond_atoms: C15
r_displaced_atoms: O17
r_displaced_atoms: H17

[Term]
id: BpForms:protein:AA0269
name: L-cysteine persulfide
def: "In desulfurization, the sulfur is donated by free cysteine to peptidyl-cysteine producing free alanine and peptidyl-cysteine persulfide. See also RESID:AA0101 and RESID:AA0268." []
synonym: "(2R)-2-amino-3-disulfanyl-propanoic acid" BROAD []
synonym: "(R)-2-amino-3-disulfanylpropanoic acid" BROAD []
synonym: "2-amino-3-disulfanylpropanoic acid" BROAD []
synonym: "2-amino-3-hydrodisulfidopropanoic acid" BROAD []
synonym: "2-amino-3-hydropersulfidopropanoic acid" BROAD []
synonym: "2-amino-3-persulfhydrylpropanoic acid" BROAD []
synonym: "3-(thiosulfeno)-alanine" BROAD []
synonym: "3-disulfanyl-L-alanine" BROAD []
synonym: "3-disulfanylalanine" BROAD []
synonym: "C" BROAD []
synonym: "S-mercaptocysteine" BROAD []
synonym: "S-sulfanylcysteine" BROAD []
synonym: "cas: 5652-32-4" EXACT []
synonym: "chebi: CHEBI:61963" EXACT []
synonym: "go: GO:0018179" EXACT []
synonym: "mod: MOD:00274" EXACT []
synonym: "pdb-ccd: CSS" EXACT []
synonym: "pdb.ligand: CSS" EXACT []
synonym: "resid: AA0269" EXACT []
synonym: "s-mercaptocysteine" BROAD []
synonym: "thiocysteine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC(=O)[C@@H]([NH3+])CSS
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0608
name: O-(2-acetamido-4-glyceramido-2,4,6-trideoxy-D-glucosyl)-L-serine
def: "The stereochemical identity of the sugar and the glyceryl group have not been established by chemical methods." []
synonym: "(2S)-2-amino-3-[(2-acetamido-4-glycerylamino-2,4,6-trideoxy-D-glucopyranosyl)oxy]propanoic acid" BROAD []
synonym: "GATDH" BROAD []
synonym: "O-(2-acetamido-4-glyceramido-2,4,6-trideoxy-D-glucopyranosyl)-L-serine" BROAD []
synonym: "O-(N2-acetyl-N4-glycerylbacillosaminyl)-L-serine" BROAD []
synonym: "mod: MOD:01964" EXACT []
synonym: "resid: AA0608" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC[C@@H](C(=O)N[C@@H]1[C@@H](C)O[C@H]([C@@H]([C@H]1O)NC(=O)C)OC[C@@H](C(=O)O)[NH3+])O
l_bond_atoms: N32-1
l_displaced_atoms: H32
l_displaced_atoms: H32+1
r_bond_atoms: C29
r_displaced_atoms: O31
r_displaced_atoms: H31

[Term]
id: BpForms:protein:K, M
name: S-(L-lysyl)-L-methionine sulfilimine
def: "The process for formation of the sulfanylimine bond has not been determined. It might involve the initial formation of methionine sulfoxide. The lysine involved in this cross-link in collagen IV is usually hydroxylated, but it is not subsequently glycosylated." []
synonym: "(2S)-2-amino-6-([(E)-[(3S)-3-amino-3-carboxypropyl](methyl)-lambda(4)-sulfanylidene]amino)hexanoic acid" BROAD []
synonym: "(E)-N6-([(3S)-3-amino-3-carboxypropyl](methyl)-lambda(4)-sulfanylidene)-L-lysine" BROAD []
synonym: "S-lysyl-methionine" BROAD []
synonym: "mod: MOD:01602" EXACT []
synonym: "resid: AA0501" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: O=C[C@H](CCCC/N=[S@](/CC[C@@H](C(=O)O)[NH3+])\C)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C15
r_displaced_atoms: O17
r_displaced_atoms: H17

[Term]
id: BpForms:protein:AA0527
name: N6-octanoyl-L-lysine
def: "The metabolic role of this modification is uncertain. Generating Enzyme: octanoyltransferase (EC 2.3.1.181)." []
synonym: "(2S)-2-amino-6-(octanoylamino)hexanoic acid" BROAD []
synonym: "N(zeta)-octanoyllysine" BROAD []
synonym: "N6-(1-oxooctyl)-L-lysine" BROAD []
synonym: "cas: 23735-96-8" EXACT []
synonym: "epsilon-octanoyllysine" BROAD []
synonym: "mod: MOD:01774" EXACT []
synonym: "resid: AA0527" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: CCCCCCCC(=O)NCCCC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C17
r_displaced_atoms: O19
r_displaced_atoms: H19

[Term]
id: BpForms:protein:AA0090
name: L-isoleucine amide
def: "Generating Enzyme: peptidylglycine monooxygenase (EC 1.14.17.3)." []
synonym: "(2S,3S)-2-amino-3-methylpentanamide" BROAD []
synonym: "cas: 14445-54-6" EXACT []
synonym: "chebi: CHEBI:21345" EXACT []
synonym: "go: GO:0018043" EXACT []
synonym: "isoleucinamide" BROAD []
synonym: "mod: MOD:00099" EXACT []
synonym: "pdb.ligand: NH2" EXACT []
synonym: "resid: AA0090" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:I ! L-isoleucine
structure: CC[C@@H]([C@@H](C(=O)N)[NH3+])C
l_bond_atoms: N9
l_displaced_atoms: H9

[Term]
id: BpForms:protein:H, M
name: N-[(L-histidin-1'-yl)methyl]-L-methionine
def: "The electron density model has contradictory characteristics. The bond distances from the "formyl" carbon to the two nitrogens are in the single bond range, and the torsion angles around those bonds are not planar, suggesting that neither is a double bond. However, the bond angle between that carbon and the two nitrogens is closer to trigonal than to tetrahedral, suggesting sp2 hybridization. The modification is shown in a reduced state. Since both the source organism and the expression host encode N-formylmethionine initiator and the autocatalytic modification can occur before completion of translation, it is probable but not yet established that the modification occurs under natural conditions. Generating Enzyme: autocatalytic." []
synonym: "(2S)-2-([(4-[(2S)-2-amino-2-carboxyethyl]-1H-imidazol-1-yl)methyl]amino)-4-(methylsulfanyl)butanoic acid" BROAD []
synonym: "mod: MOD:01890" EXACT []
synonym: "mod: MOD:01891" EXACT []
synonym: "pdb.ligand: FME" EXACT []
synonym: "resid: AA0566" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: CSCC[C@@H](C(=O)O)NCn1cnc(c1)C[C@@H](C=O)[NH3+]
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0399
name: O-(N-acetylaminoglucosyl)-L-threonine
def: "See also RESID:AA0155, RESID:AA0247, RESID:AA0401, RESID:AA0403, RESID:AA0405, and RESID:AA0515 for other O-glycosylated threonines. The PDB has some entries with threonine apparently alpha-glycosylated with N-acetylglucosamine. These are low resolution structures and appear to be erroneous. Generating Enzyme: [protein]-L-serine/L-threonine beta-N-acetyl-D-glucosaminyl-transferase (EC 2.4.1.-)." []
synonym: "(2S,3R)-2-amino-3-(2-acetamido-2-deoxy-beta-D-glucopyranosyloxy)butanoic acid" BROAD []
synonym: "O-(2-acetylamino-2-deoxy-beta-D-glucopyranosyl)-L-threonine" BROAD []
synonym: "O-(N-acetylglucosaminyl)-L-threonine" BROAD []
synonym: "O-glycosylthreonine" BROAD []
synonym: "O-threonyl-beta-N-acetylglucosaminide" BROAD []
synonym: "O3-(2-acetamido-2-deoxy-beta-D-glucopyranosyl)-L-threonine" BROAD []
synonym: "O3-(N-acetylglucosaminyl)threonine" BROAD []
synonym: "cas: 10036-64-3" EXACT []
synonym: "mod: MOD:00806" EXACT []
synonym: "pdb.ligand: NDG" EXACT []
synonym: "resid: AA0399" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: OC[C@H]1O[C@@H](O[C@@H]([C@@H](C(=O)O)[NH3+])C)[C@@H]([C@H]([C@@H]1O)O)NC(=O)C
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15
r_displaced_atoms: H15

[Term]
id: BpForms:protein:AA0486
name: 1-amino-2-propanone
synonym: "1-aminopropan-2-one" BROAD []
synonym: "1-aminopropanone" BROAD []
synonym: "aminoacetone" BROAD []
synonym: "cas: 298-08-8" EXACT []
synonym: "chebi: CHEBI:17906" EXACT []
synonym: "mod: MOD:01433" EXACT []
synonym: "resid: AA0486" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: CC(=O)C[NH3+]
l_bond_atoms: N5-1
l_displaced_atoms: H5
l_displaced_atoms: H5+1

[Term]
id: BpForms:protein:AA0433
name: N,N-dimethyl-L-alanine
def: "Generating Enzyme: ribosomal protein L11 methyltransferase prmA (EC 2.1.1.-); N-terminal RCC1 methyltransferase (EC 2.1.1.-)." []
synonym: "(2S)-2-dimethylaminopropanoic acid" BROAD []
synonym: "(S)-1-carboxy-N,N-dimethylaminoethane" BROAD []
synonym: "(S)-2-(dimethylamino)propanoic acid" BROAD []
synonym: "A" BROAD []
synonym: "N,N-dimethyl-L-alanine" BROAD []
synonym: "N,N-dimethylalanine" BROAD []
synonym: "cas: 2812-31-9" EXACT []
synonym: "go: GO:0018011" EXACT []
synonym: "mod: MOD:01179" EXACT []
synonym: "n,n-dimethyl-l-alanine" BROAD []
synonym: "pdb-ccd: LAL" EXACT []
synonym: "resid: AA0433" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: C[C@@H](C(=O)O)[NH+](C)C
r_bond_atoms: C4
r_displaced_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:protein:AA0251
name: L-methionine sulfone
synonym: "(2S)-2-amino-4-(methylsulfonyl)butanoic acid" BROAD []
synonym: "(2S)-2-amino-4-methylsulfonyl-butanoic acid" BROAD []
synonym: "L-methionine S,S-dioxide" BROAD []
synonym: "M" BROAD []
synonym: "S,S-dioxymethionine" BROAD []
synonym: "cas: 7314-32-1" EXACT []
synonym: "go: GO:0018159" EXACT []
synonym: "mod: MOD:00256" EXACT []
synonym: "pdb-ccd: OMT" EXACT []
synonym: "pdb.ligand: OMT" EXACT []
synonym: "resid: AA0251" EXACT []
synonym: "s-dioxymethionine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: OC(=O)[C@H](CCS(=O)(=O)C)[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0443
name: (2S,4R)-5-hydroxyleucine
def: "The oxidation artifacts 5-hydroxyleucine and 5-oxoleucine can form autocatalytically and stereospecifically, but not selectively. It is not clear whether the modified residue subsequently takes part in catalytic reactions at the active site of alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 (ABH3)." []
synonym: "(2S,4R)-2-amino-5-hydroxy-4-methylpentanoic acid" BROAD []
synonym: "(2s,4r)-5-hydroxyleucine" BROAD []
synonym: "(2~{S},4~{R})-2-azanyl-4-methyl-5-oxidanyl-pentanoic acid" BROAD []
synonym: "(4R)-5-hydroxyleucine" BROAD []
synonym: "L" BROAD []
synonym: "delta-hydroxyleucine" BROAD []
synonym: "mod: MOD:01373" EXACT []
synonym: "pdb-ccd: HL5" EXACT []
synonym: "resid: AA0443" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: OC[C@@H](C[C@@H](C(=O)O)[NH3+])C
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:protein:AA0171
name: S-sulfo-L-cysteine
synonym: "(2R)-2-amino-3-(sulfosulfanyl)propanoic acid" BROAD []
synonym: "(2R)-2-amino-3-sulfosulfanyl-propanoic acid" BROAD []
synonym: "2-amino-3-(sulfothio)propanoic acid" BROAD []
synonym: "3-(sulfosulfanyl)-L-alanine" BROAD []
synonym: "C" BROAD []
synonym: "S-sulfocysteine" BROAD []
synonym: "cas: 1637-71-4" EXACT []
synonym: "chebi: CHEBI:27891" EXACT []
synonym: "cysteine sulfate thioester" BROAD []
synonym: "cysteine-S-sulfonic acid" BROAD []
synonym: "cysteine-s-sulfonic acid" BROAD []
synonym: "go: GO:0018248" EXACT []
synonym: "mod: MOD:00180" EXACT []
synonym: "pdb-ccd: CSU" EXACT []
synonym: "pdb.ligand: CSU" EXACT []
synonym: "resid: AA0171" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC(=O)[C@H](CSS(O)(O)O)N
l_bond_atoms: N12
l_displaced_atoms: H12
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0049
name: N-acetyl-L-methionine
def: "Although appropriate, the keyword "thioether bond" normally does not appear for this amino acid. Generating Enzyme: peptide alpha-N-acetyltransferase (EC 2.3.1.88)." []
synonym: "(2S)-2-acetamido-4-(methylsulfanyl)butanoic acid" BROAD []
synonym: "2-acetylamino-4-(methylsulfanyl)butanoic acid" BROAD []
synonym: "2-acetylamino-4-(methylthio)butanoic acid" BROAD []
synonym: "2-acetylazanyl-4-(methylsulfanyl)butanoic acid" BROAD []
synonym: "acetylmethionine" BROAD []
synonym: "cas: 65-82-7" EXACT []
synonym: "chebi: CHEBI:21557" EXACT []
synonym: "go: GO:0017196" EXACT []
synonym: "methionamine" BROAD []
synonym: "mod: MOD:00058" EXACT []
synonym: "resid: AA0049" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: CSCC[C@@H](C(=O)O)NC(=O)C
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0211
name: N6-formyl-L-lysine
synonym: "(2S)-2-amino-6-(formylamino)hexanoic acid" BROAD []
synonym: "N(zeta)-formyllysine" BROAD []
synonym: "cas: 1190-48-3" EXACT []
synonym: "epsilon-formyllysine" BROAD []
synonym: "go: GO:0018257" EXACT []
synonym: "mod: MOD:00216" EXACT []
synonym: "resid: AA0211" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O=CNCCCC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C10
r_displaced_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:protein:AA0500
name: 3'-farnesyl-2',3'-dihydro-2',N2-cyclo-L-tryptophan
synonym: "(2S,3aR,8aS)-3a-[(2E,6E)-3,7,11-trimethyldodeca-2,6,10-trien-1-yl]-1,2,3,3a,8,8a-hexahydropyrrolo[2,3-b]indole-2-carboxylic acid" BROAD []
synonym: "chebi: CHEBI:52950" EXACT []
synonym: "mod: MOD:01590" EXACT []
synonym: "resid: AA0500" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: C/C(=C\C[C@]12C[C@H](N[C@H]1Nc1c2cccc1)C(=O)O)/CC/C=C(/CCC=C(C)C)\C
l_bond_atoms: N9
l_displaced_atoms: H9
r_bond_atoms: C19
r_displaced_atoms: O21
r_displaced_atoms: H21

[Term]
id: BpForms:protein:AA0358
name: L-cysteinyl-L-selenocysteine
def: "The experimental redox potential of cysteinylselenocysteine in synthetic glutaredoxin 3 is -260 to -275 mV. See RESID:AA0025 and RESID:AA0437." []
synonym: "(R,R)-2-amino-3-[3-(2-aminopropanoic acid)sulfanyl]selanylpropanoic acid" BROAD []
synonym: "go: GO:0050837" EXACT []
synonym: "mod: MOD:00363" EXACT []
synonym: "mod: MOD:00867" EXACT []
synonym: "resid: AA0358" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CS[Se]C[C@@H](C(=O)O)N)[NH3+]
l_bond_atoms: N14
l_displaced_atoms: H14
r_bond_atoms: C11
r_displaced_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:protein:AA0221
name: 1'-(8alpha-FAD)-L-histidine
def: "The arrangement of the attachment has not been completely established in some cases. The keyword "phosphoprotein" is not used with flavin modifications linked through the flavin. Generating Enzyme: apo mitochondrial succinate dehydrogenase [ubiquinone] flavoprotein subunit---FAD ligase sdh5 (EC 6.3.4.-)." []
synonym: "(S)-2-amino-3-(1-[8alpha riboflavin 5'-(trihydrogen diphosphate) 5'->5'-ester with adenosine]imidazol-4-yl)propanoic acid" BROAD []
synonym: "8alpha-(N(epsilon)-histidyl)FAD" BROAD []
synonym: "8alpha-(N1'-histidyl)FAD" BROAD []
synonym: "8alpha-N3-histidyl FAD [misnomer]" BROAD []
synonym: "N(tau)-(8alpha-FAD)-histidine" BROAD []
synonym: "go: GO:0018297" EXACT []
synonym: "mod: MOD:00226" EXACT []
synonym: "pdb.ligand: FAD" EXACT []
synonym: "resid: AA0221" EXACT []
synonym: "tele-(8alpha-FAD)-histidine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: O=c1[nH]c(=O)c2c([nH]1)n(C[C@@H]([C@@H]([C@@H](CO[P@@](=O)(O[P@@](=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc3c1NC=N[C@H]3N)[O-])[O-])O)O)O)c1=C[C@H](C(=Cc1[nH+]2)C)Cn1cnc(c1)C[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N77-1
l_displaced_atoms: H77
l_displaced_atoms: H77+1
r_bond_atoms: C74
r_displaced_atoms: O76
r_displaced_atoms: H76

[Term]
id: BpForms:protein:AA0028
name: 5-hydroxy-L-lysine
def: "Some forms of lysyl hydroxylase are multifunctional and possess both galactosyltransferase (EC 2.4.1.50) and glucosyltransferase (EC 2.4.1.66) activities. Generating Enzyme: procollagen-lysine 5-dioxygenase (EC 1.14.11.4)." []
synonym: "(2S,5R)-2,6-diamino-5-hydroxy-hexanoic acid" BROAD []
synonym: "(2S,5R)-2,6-diamino-5-hydroxyhexanoic acid" BROAD []
synonym: "(5R)-5-hydroxy-L-lysine" BROAD []
synonym: "2,6-bisazanyl-5-hydroxyhexanoic acid" BROAD []
synonym: "2,6-diamino-2,3,4,6-tetradeoxyhexonic acid" BROAD []
synonym: "5-hydroxylysine" BROAD []
synonym: "K" BROAD []
synonym: "L-erythro-delta-hydroxylysine" BROAD []
synonym: "alpha,epsilon-diamino-delta-hydroxycaproic acid" BROAD []
synonym: "cas: 1190-94-9" EXACT []
synonym: "chebi: CHEBI:18040" EXACT []
synonym: "go: GO:0018395" EXACT []
synonym: "mod: MOD:00037" EXACT []
synonym: "pdb-ccd: LYZ" EXACT []
synonym: "pdb.ligand: LYZ" EXACT []
synonym: "resid: AA0028" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+]C[C@@H](CC[C@@H](C(=O)O)[NH3+])O
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:W, W
name: 1-(L-tryptophan-3-yl)-L-tryptophan
def: "The production of this cross-link during bicarbonate-dependent peroxidase catalysis may be artifactual. Generating Enzyme: autocatalytic." []
synonym: "(2S,2'S)-3,3'-(3'H-1,3'-biindole-3,3'-diyl)bis(2-aminopropanoic acid)" BROAD []
synonym: "2-amino-3-[2-[2-amino-3-(2-carboxyethyl)-1H-indol-4-yl]-1H-indol-3-yl]propanoic acid" BROAD []
synonym: "3-[(2S)-2-amino-2-carboxyethyl]-3-(3-[(2S)-2-amino-2-carboxyethyl]-1H-indol-2-yl)-1H-indole" BROAD []
synonym: "3-[2-azanyl-2-carboxyethyl]-3-(3-[2-azanyl-2-carboxyethyl]-1H-indol-2-yl)-1H-indole" BROAD []
synonym: "ditryptophan" BROAD []
synonym: "mod: MOD:01818" EXACT []
synonym: "resid: AA0544" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: O=C[C@H](Cc1cn(c2c1cccc2)[C@@]1(C=Nc2c1cccc2)C[C@@H](C(=O)O)[NH3+])[NH3+]
l_bond_atoms: N30-1
l_displaced_atoms: H30
l_displaced_atoms: H30+1
r_bond_atoms: C27
r_displaced_atoms: O29
r_displaced_atoms: H29

[Term]
id: BpForms:protein:AA0381
name: L-lysine 5-imidazolinone glycine
def: "This entry represents the cross-link of the peptide backbone from the alpha-carboxyl carbon of residue N, a lysine, to the alpha-amino nitrogen of residue N+2, a glycine, coupled with the formation of a double bond to the alpha-amino nitrogen of residue N+1 which loses one hydrogen, and the loss of a molecule of water. This cross-link is accompanied by modification of residue N+1. The modified residue N+1 is presented in a separate entry and is not included in the mass accounting of this entry. The backbone atoms of residue N+1 are shown in gray in the diagram. Generating Enzyme: autocatalytic." []
synonym: "(2-[(1S)-1,5-diaminopentyl]-5-oxo-4,5-dihydro-1H-imidazol-1-yl)acetic acid" BROAD []
synonym: "2-[(4Z)-2-[(1S)-1,5-diaminopentyl]-4-[(4-hydroxyphenyl)methylidene]-5-oxo-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "2-[(S)-1,5-diaminopentanyl]-1-carboxymethyl-1-imidazolin-5-one" BROAD []
synonym: "Anemonia majano fluorescent protein FP486 chromophore" BROAD []
synonym: "KYG" BROAD []
synonym: "[(4z)-2-[(1s)-1,5-diaminopentyl]-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1h-imidazol-1-yl]acetic acid" BROAD []
synonym: "[2-(1,5-diaminopentanyl)-5-oxo-4,5-dihydro-imidazol-1-yl]-acetic acid" BROAD []
synonym: "go: GO:0051361" EXACT []
synonym: "lysyl-5-imidazolinone glycine" BROAD []
synonym: "mod: MOD:00386" EXACT []
synonym: "para-hydroxybenzylidene-imidazolidinone chromophore" BROAD []
synonym: "pdb-ccd: CR7" EXACT []
synonym: "pdb.ligand: CR7" EXACT []
synonym: "resid: AA0381" EXACT []
synonym: "{(4Z)-2-[(1S)-1,5-diaminopentyl]-4-[(4-hydroxyphenyl)methylidene]-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+]CCCC[C@@H](C1=NCC(=O)N1CC(=O)O)[NH3+]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C18
r_displaced_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:protein:AA0057
name: N-formylglycine
def: "This modification should not be confused with L-3-oxoalanine, also referred to as C(alpha)-formylglycine (see RESID:AA0185)." []
synonym: "(formylamino)acetic acid" BROAD []
synonym: "(formylamino)ethanoic acid" BROAD []
synonym: "(formylazanyl)ethanoic acid" BROAD []
synonym: "2-formamidoacetic acid" BROAD []
synonym: "2-formamidoethanoic acid" BROAD []
synonym: "N(alpha)-formylglycine" BROAD []
synonym: "cas: 2491-15-8" EXACT []
synonym: "chebi: CHEBI:21717" EXACT []
synonym: "go: GO:0018005" EXACT []
synonym: "mod: MOD:00066" EXACT []
synonym: "resid: AA0057" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:G ! glycine
structure: O=CNCC(=O)O
l_bond_atoms: N3
l_displaced_atoms: H3
r_bond_atoms: C5
r_displaced_atoms: O7
r_displaced_atoms: H7

[Term]
id: BpForms:protein:AA0282
name: (2S,3R,4S)-3,4-dihydroxyproline
synonym: "(2S,3R,4S)-3,4-dihydroxypyrrolidine-2-carboxylic acid" BROAD []
synonym: "2,3-trans-3,4-cis-3,4-dihydroxy-L-proline" BROAD []
synonym: "2-alpha-3-beta-4-beta-3,4-dihydroxyproline" BROAD []
synonym: "cas: 95341-64-3" EXACT []
synonym: "go: GO:0018188" EXACT []
synonym: "mod: MOD:00287" EXACT []
synonym: "resid: AA0282" EXACT []
synonym: "trans-2,3-cis-3,4-dihydroxy-L-proline" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: O[C@H]1C[NH2+][C@@H]([C@H]1O)C(=O)O
l_bond_atoms: N5-1
l_displaced_atoms: H5
l_displaced_atoms: H5+1
r_bond_atoms: C13
r_displaced_atoms: O15
r_displaced_atoms: H15

[Term]
id: BpForms:protein:AA0520
name: 7'-hydroxy-L-tryptophan
def: "This modification without secondary glycosylation (see RESID:AA0506) has only been observed as the first precursor form of 4'-(L-tryptophan)-L-tryptophyl quinone (see RESID:AA0149). Generating Enzyme: peptidyl-tryptophan 7-oxygenase MauX (EC 1.-.-.-)." []
synonym: "(2S)-2-amino-3-(7-hydroxy-1H-indol-3-yl)propanoic acid" BROAD []
synonym: "7-hydroxy-L-tryptophan" BROAD []
synonym: "7-hydroxy-l-tryptophan" BROAD []
synonym: "W" BROAD []
synonym: "mod: MOD:01664" EXACT []
synonym: "pdb-ccd: 0AF" EXACT []
synonym: "pdb.ligand: 0AF" EXACT []
synonym: "resid: AA0520" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: OC(=O)[C@H](Cc1c[nH]c2c1cccc2O)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0382
name: 2-tetrahydropyridinyl-5-imidazolinone glycine
def: "This entry represents the cross-link of the peptide backbone from the alpha-carboxyl carbon of residue N, a lysine, to the alpha-amino nitrogen of residue N+2, a glycine, coupled with the formation of a double bond to the alpha-amino nitrogen of residue N+1 which loses one hydrogen, and the loss of a molecule of water. In addition, the residue N lysine undergoes cyclization. The alpha-amino nitrogen is replaced by the epsilon-amino nitrogen, the peptide chain is broken, residue N-1 is released as an amide, and a double bond is formed between the alpha-carbon and the nitrogen so that a tetrahydropyridine ring results. This cross-link is accompanied by modification of residue N+1. The modified residue N+1 is presented in a separate entry and is not included in the mass accounting of this entry. The backbone atoms of residue N+1 are shown in gray in the diagram. Generating Enzyme: autocatalytic." []
synonym: "2-(3,4,5,6-tetrahydropyridin-2-yl)-1-carboxymethyl-1-imidazolin-5-one" BROAD []
synonym: "2-(tetrahydropyrid-2-yl)-5-imidazolinone glycine" BROAD []
synonym: "2-[(4Z)-4-[(4-hydroxyphenyl)methylidene]-5-oxo-2-(3,4,5,6-tetrahydropyridin-2-yl)imidazol-1-yl]ethanoic acid" BROAD []
synonym: "KYG" BROAD []
synonym: "Zoanthus sp. fluorescent protein zFP538 chromophore" BROAD []
synonym: "[(4Z)-4-[(4-hydroxyphenyl)methylidene]-5-oxo-2-(3,4,5,6-tetrahydropyridin-2-yl)-4,5-dihydro-1H-imidazol-1-yl]acetic acid" BROAD []
synonym: "[(4z)-4-(4-hydroxybenzylidene)-5-oxo-2-(3,4,5,6-tetrahydropyridin-2-yl)-4,5-dihydro-1h-imidazol-1-yl]acetic acid" BROAD []
synonym: "[5-oxo-2-(3,4,5,6-tetrahydropyridin-2-yl)-4,5-dihydro-1H-imidazol-1-yl]acetic acid" BROAD []
synonym: "go: GO:0051362" EXACT []
synonym: "mod: MOD:00387" EXACT []
synonym: "para-hydroxybenzylidene-imidazolidinone chromophore" BROAD []
synonym: "pdb-ccd: CH7" EXACT []
synonym: "pdb.ligand: CH7" EXACT []
synonym: "resid: AA0382" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: OC(=O)CN1C(=O)CN=C1[C@@H]1CCCC[NH2+]1
l_bond_atoms: N9
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0051
name: N-acetyl-L-serine
def: "Generating Enzyme: peptide alpha-N-acetyltransferase (EC 2.3.1.88)." []
synonym: "(2S)-2-acetamido-3-hydroxy-propanoic acid" BROAD []
synonym: "(2S)-2-acetamido-3-hydroxypropanoic acid" BROAD []
synonym: "2-acetylamino-3-hydroxypropanoic acid" BROAD []
synonym: "2-acetylazanyl-3-hydroxypropanoic acid" BROAD []
synonym: "N-acetyl-L-serine" BROAD []
synonym: "N-acetylserine" BROAD []
synonym: "S" BROAD []
synonym: "cas: 16354-58-8" EXACT []
synonym: "chebi: CHEBI:45441" EXACT []
synonym: "go: GO:0017198" EXACT []
synonym: "mod: MOD:00060" EXACT []
synonym: "n-acetyl-serine" BROAD []
synonym: "pdb-ccd: SAC" EXACT []
synonym: "resid: AA0051" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC[C@@H](C(=O)O)NC(=O)C
l_bond_atoms: N8
l_displaced_atoms: H8
r_bond_atoms: C5
r_displaced_atoms: O7
r_displaced_atoms: H7

[Term]
id: BpForms:protein:AA0127
name: pyruvic acid
def: "The pyruvic acid forming an amide bond between its 1-carboxyl group and an amino terminal residue arises from oxidative deamination of an encoded amino acid, either cysteine or serine. It is important to distinguish this modification from an exogenous pyruvic acid forming a ketimine bond with its 2-keto group and an amino terminal residue (see RESID:AA0274 and RESID:AA0275)." []
synonym: "2-oxopropanoic acid" BROAD []
synonym: "cas: 127-17-3" EXACT []
synonym: "go: GO:0018058" EXACT []
synonym: "mod: MOD:00136" EXACT []
synonym: "mod: MOD:00807" EXACT []
synonym: "mod: MOD:01661" EXACT []
synonym: "pdb.ligand: PYR" EXACT []
synonym: "resid: AA0127" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC(=O)C(=O)C
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0392
name: S-galactosyl-L-cysteine
def: "The beta form is shown. See also RESID:AA0152 and RESID:AA0560 for other S-glycosylated cysteines." []
synonym: "(2R)-2-amino-3-(D-galactopyranosylsulfanyl)propanoic acid" BROAD []
synonym: "S-(beta-D-galactopyranosyl)cysteine" BROAD []
synonym: "S-glycosyl-cysteine" BROAD []
synonym: "mod: MOD:00799" EXACT []
synonym: "resid: AA0392" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC[C@H]1O[C@@H](SC[C@@H](C(=O)O)[NH3+])[C@@H]([C@H]([C@H]1O)O)O
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:AA0203
name: O4'-(phospho-5'-adenosine)-L-tyrosine
synonym: "(2S)-2-amino-3-[4-(5'-adenosine phosphonoxy)phenyl]propanoic acid" BROAD []
synonym: "5'-adenylic-O-tyrosine" BROAD []
synonym: "O4'-L-tyrosine 5'-adenosine phosphodiester" BROAD []
synonym: "cas: 93957-03-0" EXACT []
synonym: "go: GO:0018254" EXACT []
synonym: "hydrogen 5'-adenylate tyrosine ester" BROAD []
synonym: "mod: MOD:00208" EXACT []
synonym: "pdb.ligand: AMP" EXACT []
synonym: "resid: AA0203" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: OC(=O)[C@H](Cc1ccc(cc1)OP(=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1ncnc2N)[O-])[NH3+]
l_bond_atoms: N40-1
l_displaced_atoms: H40
l_displaced_atoms: H40+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0506
name: 7'-hydroxy-2'-alpha-mannosyl-L-tryptophan
def: "The 7'-hydroxylation of tryptophan apparently makes it susceptible to oxidation and cross-linking, however these secondary products have not been characterized." []
synonym: "(2S)-2-amino-3-[7-hydroxy-2-(alpha-D-mannopyranosyl)-1H-indol-3-yl]propanoic acid" BROAD []
synonym: "mod: MOD:01609" EXACT []
synonym: "resid: AA0506" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: OC[C@H]1O[C@@H]([C@H]([C@H]([C@@H]1O)O)O)c1[nH]c2c(c1C[C@@H](C(=O)O)[NH3+])cccc2O
l_bond_atoms: N29-1
l_displaced_atoms: H29
l_displaced_atoms: H29+1
r_bond_atoms: C26
r_displaced_atoms: O28
r_displaced_atoms: H28

[Term]
id: BpForms:protein:AA0489
name: [cyclo(prolylserin)-O-yl] cysteinate
def: "This diketopiperazine ester is formed by cyclization of the C-terminal seryl-proline dipeptide and transesterification to cysteine. Although it is constructed from three C-terminal amino acids, for simplicity it is represented in the UniProt feature as a modification of cysteine and not as a crosslink." []
synonym: "(3,6-dioxopyrrolo[4,5-a]piperazin-2-yl)methyl cysteinate" BROAD []
synonym: "[(3S,8aS)-1,4-dioxooctahydropyrrolo[1,2-a]pyrazin-3-yl]methyl (2R)-2-amino-3-sulfanylpropanoate" BROAD []
synonym: "mod: MOD:01436" EXACT []
synonym: "mod: MOD:01437" EXACT []
synonym: "resid: AA0489" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: SC[C@@H](C(=O)OC[C@@H]1NC(=O)[C@H]2N(C1=O)CCC2)N
l_bond_atoms: N11
l_displaced_atoms: H11

[Term]
id: BpForms:protein:AA0066
name: N,N-dimethyl-L-proline
def: "Consult FAQ at http://pir.georgetown.edu/resid/faq.shtml#q12 concerning calculation of the difference formula. Generating Enzyme: N-terminal RCC1 methyltransferase (EC 2.1.1.-)." []
synonym: "(2S)-2-carboxy-1,1-dimethylpyrrolidinium" BROAD []
synonym: "1,1-dimethyl-L-prolinium" BROAD []
synonym: "N,N-dimethyl-L-prolinium" BROAD []
synonym: "cas: 51705-67-0" EXACT []
synonym: "chebi: CHEBI:21451" EXACT []
synonym: "go: GO:0018016" EXACT []
synonym: "mod: MOD:00075" EXACT []
synonym: "pdb.ligand: PBE" EXACT []
synonym: "resid: AA0066" EXACT []
synonym: "stachydrin" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: OC(=O)[C@@H]1CCC[N]1(C)C
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0373
name: L-aspartyl aldehyde
synonym: "(S)-2-amino-4-oxobutanoic acid" BROAD []
synonym: "L-aminosuccinaldehydic acid" BROAD []
synonym: "L-aminosuccinic acid semialdehyde" BROAD []
synonym: "L-aspartate-beta-semialdehyde" BROAD []
synonym: "L-aspartic beta-semialdehyde" BROAD []
synonym: "L-beta-formylalanine" BROAD []
synonym: "cas: 498-20-4" EXACT []
synonym: "go: GO:0051203" EXACT []
synonym: "mod: MOD:00378" EXACT []
synonym: "resid: AA0373" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:D ! L-aspartic acid
structure: O=CC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8
r_displaced_atoms: H8

[Term]
id: BpForms:protein:AA0508
name: 6-(S-L-cysteinyl)-8alpha-(N3'-L-histidino)-FMN
def: "The keyword "phosphoprotein" is not used with flavin modifications linked through the flavin. Generating Enzyme: autocatalytic." []
synonym: "6-((R)-2-amino-2-carboxyethyl)sulfanyl-8alpha-[4-((S)-2-amino-2-carboxyethyl)imidazol-3-yl]-riboflavin 5'-trihydrogen phosphate" BROAD []
synonym: "6-(S-cysteinyl)-8alpha-(N(delta)-histidyl)-FMN" BROAD []
synonym: "6-(S-cysteinyl)-8alpha-(N(pi)-histidyl)-FMN" BROAD []
synonym: "6-(S-cysteinyl)-8alpha-(N3'-histidyl)-FMN" BROAD []
synonym: "6-(S-cysteinyl)-8alpha-(pros-histidyl)-FMN" BROAD []
synonym: "mod: MOD:01611" EXACT []
synonym: "resid: AA0508" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CS[C@@H]1C(=C(C=C2C1=N[C@@H]1C(=O)NC(=O)N=C1N2C[C@@H]([C@@H]([C@@H](COP(=O)([O-])[O-])O)O)O)Cn1cncc1C[C@@H](C(=O)O)[NH3+])C)[NH3+]
l_bond_atoms: N53-1
l_displaced_atoms: H53
l_displaced_atoms: H53+1
r_bond_atoms: C50
r_displaced_atoms: O52
r_displaced_atoms: H52

[Term]
id: BpForms:protein:AA0199
name: D-threonine
def: "Generating Enzyme: protein-threonine 2-epimerase (EC 5.1.1.-)." []
synonym: "(2R,3R)-2-amino-3-hydroxybutanoic acid" BROAD []
synonym: "cas: 632-20-2" EXACT []
synonym: "chebi: CHEBI:32826" EXACT []
synonym: "mod: MOD:00863" EXACT []
synonym: "pdb.ligand: DTH" EXACT []
synonym: "resid: AA0199" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: C[C@H]([C@H](C(=O)O)[NH3+])O
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8
r_displaced_atoms: H8

[Term]
id: BpForms:protein:AA0041
name: N-acetyl-L-alanine
def: "Generating Enzyme: peptide alpha-N-acetyltransferase (EC 2.3.1.88); ribosomal-protein-alanine N-acetyltransferase (EC 2.3.1.128)." []
synonym: "(2S)-2-(acetamido)propanoic acid" BROAD []
synonym: "(2S)-2-acetamidopropanoic acid" BROAD []
synonym: "2-(acetylamino)propanoic acid" BROAD []
synonym: "2-(acetylazanyl)propanoic acid" BROAD []
synonym: "A" BROAD []
synonym: "N-acetyl-L-alanine" BROAD []
synonym: "acetylalanine" BROAD []
synonym: "cas: 97-69-8" EXACT []
synonym: "chebi: CHEBI:61920" EXACT []
synonym: "go: GO:0017189" EXACT []
synonym: "mod: MOD:00050" EXACT []
synonym: "n-acetylalanine" BROAD []
synonym: "pdb-ccd: AYA" EXACT []
synonym: "resid: AA0041" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: CC(=O)N[C@H](C(=O)O)C
l_bond_atoms: N4
l_displaced_atoms: H4
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0040
name: 2'-[3-carboxamido-3-(trimethylammonio)propyl]-L-histidine
def: "Diphthamide appears to occur uniquely in translation elongation factor eEF-2. Generating Enzyme: diphthine synthase Dph5 (EC 2.1.1.98); diphthine--ammonia ligase (EC 6.3.2.22); diphthamide biosynthesis protein, histidine 3-carboxy-3-aminopropyltransferase (EC 2.5.1.-)." []
synonym: "(2R)-1-amino-4-(4-[(2S)-2-amino-2-carboxyethyl]-1H-imidazol-2-yl)-N,N,N-trimethyl-1-oxobutan-2-aminium" BROAD []
synonym: "(2R)-1-amino-4-{4-[(2S)-2-amino-2-carboxyethyl]-1H-imidazol-2-yl}-N,N,N-trimethyl-1-oxobutan-2-aminium" BROAD []
synonym: "(3-[4-(2-amino-2-carboxy-ethyl)-1H-imidazol-2-yl]-1-carbamoyl-propyl)-trimethylammonium" BROAD []
synonym: "1-azanyl-4-(4-[2-azanyl-2-carboxyethyl]-1H-imidazol-2-yl)-N,N,N-trimethyl-1-oxobutan-2-azanium" BROAD []
synonym: "2-[(R)-3-carboxamido-3-(trimethylammonio)propyl]-4-((S)-2-amino-2-carboxyethyl)-1H-imidazole" BROAD []
synonym: "2-[3-carboxamido-3-(trimethylammonio)propyl]histidine" BROAD []
synonym: "2-amino-3-[[2-(3-amino-3-carbamoyl-prop-1-enyl)-1,1,3-trimethyl-2,3-dihydroimidazol-5-yl]]propanoic acid" BROAD []
synonym: "2-amino-4-[[5-(2-amino-2-carboxylato-ethyl)-1,1,3-trimethyl-2,3-dihydroimidazol-2-yl]]but-3-enamide" BROAD []
synonym: "H" BROAD []
synonym: "[(2R)-1-amino-4-[4-[(2S)-2-amino-3-hydroxy-3-oxo-propyl]-1H-imidazol-2-yl]-1-oxo-butan-2-yl]-trimethyl-azanium" BROAD []
synonym: "alpha-(aminocarbonyl)-4-(2-amino-2-carboxyethyl)-N,N,N-trimethyl-1H-imidazole-2-propanaminium" BROAD []
synonym: "cas: 75645-22-6" EXACT []
synonym: "chebi: CHEBI:16692" EXACT []
synonym: "diphthamide" BROAD []
synonym: "go: GO:0006471" EXACT []
synonym: "mod: MOD:00049" EXACT []
synonym: "pdb-ccd: DDE" EXACT []
synonym: "pdb.ligand: DDE" EXACT []
synonym: "resid: AA0040" EXACT []
synonym: "{3-[4-(2-amino-2-carboxy-ethyl)-1h-imidazol-2-yl]-1-carbamoyl-propyl}-trimethyl-ammonium" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: N[C@H](C(=O)O)Cc1c[nH]c(n1)CC[C@@H]([N](C)(C)C)C(=O)N
l_bond_atoms: N1
l_displaced_atoms: H1
r_bond_atoms: C4
r_displaced_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:protein:AA0561
name: S-(2-succinyl)-L-cysteine
def: "This modification is produced in the active site inhibition of glyceraldehyde-3-phosphate dehydrogenase by fumarate, but as the active site intermediate in maleate isomerase. Generating Enzyme: autocatalytic." []
synonym: "(2R)-2-amino-3-([(1R)-1,2-dicarboxyethyl]sulfanyl)propanoic acid" BROAD []
synonym: "(2R)-2-{[(2R)-2-amino-2-carboxyethyl]sulfanyl}butanedioic acid" BROAD []
synonym: "2-((2-amino-2-carboxyethyl)thio)butanedioic acid" BROAD []
synonym: "2-amino-3-(1,2-dicarboxyethylthio)propanoic acid" BROAD []
synonym: "S-(1,2-dicarboxyethyl)cysteine" BROAD []
synonym: "S-(2-succinyl)cysteine" BROAD []
synonym: "S-[(2R)-2-succinyl]-L-cysteine" BROAD []
synonym: "cas: 34317-60-7" EXACT []
synonym: "mod: MOD:01889" EXACT []
synonym: "pdb.ligand: SIN" EXACT []
synonym: "resid: AA0561" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CS[C@@H](C(=O)[O-])CC(=O)[O-])[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:AA0400
name: O-galactosyl-L-serine
def: "See also RESID:AA0154, RESID:AA0208, RESID:AA0209, RESID:AA0210, RESID:AA0291, RESID:AA0296, RESID:AA0297, RESID:AA0397, RESID:AA0398, RESID:AA0402, RESID:AA0404, RESID:AA0406, and RESID:AA0422 for other O-glycosylated serines. Generating Enzyme: galactosyltransferase (EC 2.4.1.-)." []
synonym: "(2S)-2-amino-3-(alpha-D-galactopyranosyloxy)propanoic acid" BROAD []
synonym: "O-glycosylserine" BROAD []
synonym: "O3-galactosylserine" BROAD []
synonym: "mod: MOD:00808" EXACT []
synonym: "resid: AA0400" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC[C@H]1O[C@H](OC[C@@H](C(=O)O)[NH3+])[C@@H]([C@H]([C@H]1O)O)O
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:AA0617
name: S-(poly-3-hydroxybutyrate)-L-cysteine
def: "The mechanism of biosynthesis may involve transfer of the polymer to and from a noncovalently bound coenzyme A. The intermediate modification with two polymeric units is presented. Generating Enzyme: autocatalytic." []
synonym: "(alpha)-([(2R)-2-amino-2-carboxyethyl]sulfanyl)-(omega)-[(3R)-3-hydroxybutanoyl]-poly([(3R)-3-methyl-1-oxopropane-1,3-diyl]oxy)" BROAD []
synonym: "S-poly(3-hydroxybutanoate)cysteine" BROAD []
synonym: "S-poly(3-hydroxybutanoic acid)cysteine" BROAD []
synonym: "S-poly(3-hydroxybutyrate)cysteine" BROAD []
synonym: "S-poly(3-hydroxybutyric acid)cysteine" BROAD []
synonym: "S-poly(beta-hydroxybutyrate)cysteine" BROAD []
synonym: "S-poly[(R)-3-hydroxybutyrate]cysteine" BROAD []
synonym: "cas: 29435-48-1" EXACT []
synonym: "mod: MOD:01975" EXACT []
synonym: "resid: AA0617" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: C[C@H](CC(=O)O[C@@H](CC(=O)SC[C@@H](C(=O)O)N)C)O
l_bond_atoms: N20
l_displaced_atoms: H20
r_bond_atoms: C17
r_displaced_atoms: O19
r_displaced_atoms: H19

[Term]
id: BpForms:protein:AA0512
name: glycyl cysteine dithioester
def: "These are highly reactive dithioester cross-links formed between internal cysteine residues of ThiF and the carboxyl end of ThiS and other similar proteins." []
synonym: "(2R)-2-amino-3-[(aminoacetyl)disulfanyl]propanoic acid" BROAD []
synonym: "2-(glycyldithio)alanine" BROAD []
synonym: "S-glycyl cysteine persulfide" BROAD []
synonym: "S-glycyl thiocysteine" BROAD []
synonym: "mod: MOD:01615" EXACT []
synonym: "resid: AA0512" EXACT []
synonym: "thioglycine cysteine disulfide" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC(=O)[C@@H]([NH3+])CSSC(=O)C[NH3+]
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0317
name: 1'-methyl-L-histidine
def: "In the older biochemical literature this is usually called 3-methylhistidine. See also RESID:AA0073. The crystallographic designation for the substituted nitrogen is epsilon-2, E2. Generating Enzyme: protein-histidine N-methyltransferase (EC 2.1.1.85)." []
synonym: "(2S)-2-amino-3-(1-methylimidazol-4-yl)propanoic acid" BROAD []
synonym: "(S)-2-amino-3-(1-methyl-1H-imidazol-4-yl)propanoic acid" BROAD []
synonym: "1-methyl-L-histidine" BROAD []
synonym: "3-methylhistidine [misnomer]" BROAD []
synonym: "4-methyl-histidine [misnomer]" BROAD []
synonym: "4-methyl-histidine" BROAD []
synonym: "H" BROAD []
synonym: "N(epsilon)-methylhistidine" BROAD []
synonym: "N(tau)-methylhistidine" BROAD []
synonym: "cas: 332-80-9" EXACT []
synonym: "chebi: CHEBI:16367" EXACT []
synonym: "go: GO:0018021" EXACT []
synonym: "mod: MOD:00322" EXACT []
synonym: "pdb-ccd: HIC" EXACT []
synonym: "pdb.ligand: HIC" EXACT []
synonym: "resid: AA0317" EXACT []
synonym: "tele-methylhistidine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: Cn1cc(nc1)C[C@H]([NH3+])C(=O)O
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C14
r_displaced_atoms: O16
r_displaced_atoms: H16

[Term]
id: BpForms:protein:AA0449
name: (3R,4R)-4,5-dihydroxyisoleucine
def: "In peptide sequencing work prior to 1968, this modification was reported as a beta-methylleucine derivative that could arise by either beta-methylation of leucine or gamma-methylation of isoleucine. The correct structure has been determined to be derived from isoleucine without methylation." []
synonym: "(2S,3R,4R)-2-amino-4,5-dihydroxy-3-methyl-pentanoic acid" BROAD []
synonym: "(2S,3R,4R)-2-amino-4,5-dihydroxy-3-methylpentanoic acid (non-preferred name)" BROAD []
synonym: "(2S,3R,4R)-2-amino-4,5-dihydroxy-3-methylpentanoic acid" BROAD []
synonym: "(3R,4R)-4,5-dihydroxyisoleucine" BROAD []
synonym: "4,5-dihydroxyisoleucine" BROAD []
synonym: "I" BROAD []
synonym: "gamma,delta-dihydroxyisoleucine" BROAD []
synonym: "mod: MOD:01378" EXACT []
synonym: "pdb-ccd: ILX" EXACT []
synonym: "pdb.ligand: ILX" EXACT []
synonym: "resid: AA0449" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:I ! L-isoleucine
structure: OC[C@@H]([C@@H]([C@@H](C(=O)O)[NH3+])C)O
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C9
r_displaced_atoms: O11
r_displaced_atoms: H11

[Term]
id: BpForms:protein:AA0579
name: (2S,3S)-3-hydroxyaspartic acid
def: "This diastereomeric form has been found in the ankyrin repeat domain of many proteins. For the (2S,3R)-diastereomer, see RESID:AA0027. Generating Enzyme: hypoxia-inducible factor-asparagine dioxygenase (EC 1.14.11.30)." []
synonym: "(2S,3S)-2-amino-3-hydroxybutanedioic acid" BROAD []
synonym: "(2S,3S)-2-azanyl-3-oxidanyl-butanedioic acid" BROAD []
synonym: "(3S)-3-hydroxy-L-aspartic acid" BROAD []
synonym: "(3s)-3-hydroxy-l-aspartic acid" BROAD []
synonym: "2-amino-3-hydroxysuccinic acid" BROAD []
synonym: "2-azanyl-3-hydroxybutanedioic acid" BROAD []
synonym: "3-hydroxyaspartic acid" BROAD []
synonym: "D" BROAD []
synonym: "L-threo-3-hydroxyaspartic acid" BROAD []
synonym: "L-threo-beta-hydroxyaspartic acid" BROAD []
synonym: "cas: 7298-99-9" EXACT []
synonym: "chebi: CHEBI:10696" EXACT []
synonym: "mod: MOD:01919" EXACT []
synonym: "pdb-ccd: BHD" EXACT []
synonym: "pdb.ligand: BHD" EXACT []
synonym: "resid: AA0579" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:D ! L-aspartic acid
structure: O=C[C@H]([C@@H](C(=O)[O-])O)[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:AA0431
name: 1'-(1,2,3-trihydroxyprop-2-yl)-L-histidine
synonym: "(2S)-2-amino-3-[1-(1,2,3-trihydroxypropan-2-yl)imidazol-4-yl]propanoic acid" BROAD []
synonym: "(S)-2-amino-3-[1-(1,2,3-trihydroxypropan-2-yl)-1H-imidazol-4-yl]propanoic acid" BROAD []
synonym: "1-[1,2-dihydroxy-1-(hydroxymethyl)ethyl]-L-histidine" BROAD []
synonym: "1-[1,2-dihydroxy-1-(hydroxymethyl)ethyl]-l-histidine" BROAD []
synonym: "H" BROAD []
synonym: "N(epsilon)-histidine dihydroxyacetone adduct" BROAD []
synonym: "N(tau)-(1,2,3-trihydroxypropan-2-yl)histidine" BROAD []
synonym: "mod: MOD:00160" EXACT []
synonym: "mod: MOD:01177" EXACT []
synonym: "pdb-ccd: HIQ" EXACT []
synonym: "pdb.ligand: HIQ" EXACT []
synonym: "resid: AA0431" EXACT []
synonym: "tele-(1,2,3-trihydroxypropan-2-yl)histidine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: OCC(n1cnc(c1)C[C@@H](C(=O)O)[NH3+])(CO)O
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:AA0343
name: N-carbamoyl-L-alanine
def: "Carbamoylation of the alpha-amino group can be artifactual, especially when urea buffers are used." []
synonym: "(S)-2-(carbamoylamino)propanoic acid" BROAD []
synonym: "2-ureidopropanoic acid" BROAD []
synonym: "N-carbamylalanine" BROAD []
synonym: "go: GO:0046945" EXACT []
synonym: "mod: MOD:00348" EXACT []
synonym: "resid: AA0343" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: NC(=O)N[C@H](C(=O)O)C
l_bond_atoms: N4
l_displaced_atoms: H4
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0451
name: 2'-(S-L-cysteinyl)-6'-hydroxy-L-tryptophan sulfoxide
synonym: "2-((2R)-2-amino-2carboxyethyl)sulfinyl-3-((2S)-2-amino-2-carboxyethyl)-1H-indole" BROAD []
synonym: "3-(oxidosulfanyl)-L-alanine" BROAD []
synonym: "6'-hydroxy-S-oxo-tryptathionine" BROAD []
synonym: "C" BROAD []
synonym: "mod: MOD:01380" EXACT []
synonym: "pdb-ccd: CSX" EXACT []
synonym: "pdb.ligand: CSX" EXACT []
synonym: "resid: AA0451" EXACT []
synonym: "s-oxy cysteine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](Cc1c([nH]c2c1ccc(c2)O)[S@](=O)C[C@@H](C(=O)O)N)[NH3+]
l_bond_atoms: N25
l_displaced_atoms: H25
r_bond_atoms: C22
r_displaced_atoms: O24
r_displaced_atoms: H24

[Term]
id: BpForms:protein:AA0493
name: N-(dihydroxymethyl)-L-methionine
def: "The formyl group of N-formylmethionine, as an aldehyde, may undergo spontaneous addition of water to form a dihydoxymethyl group. It is detectable by mass spectrometry and other methods. Although appropriate, the keyword "thioether bond" normally does not appear for this amino acid. Generating Enzyme: methionine--tRNA ligase (EC 6.1.1.10); methionyl-tRNA formyltransferase (EC 2.1.2.9)." []
synonym: "(2S)-2-[(dihydroxymethyl)amino]-4-(methylsulfanyl)butanoic acid" BROAD []
synonym: "N-formyl-L-methionine hydrate" BROAD []
synonym: "N-orthoformylmethionine" BROAD []
synonym: "mod: MOD:01446" EXACT []
synonym: "mod: MOD:01447" EXACT []
synonym: "pdb.ligand: CXM" EXACT []
synonym: "resid: AA0493" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: CSCC[C@@H](C(=O)O)NC(O)O
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0362
name: O-sulfo-L-threonine
synonym: "(2S,3R)-2-amino-3-(sulfooxy)butanoic acid" BROAD []
synonym: "2-amino-3-hydroxybutanoic acid 3-sulfate" BROAD []
synonym: "O3-sulfonothreonine" BROAD []
synonym: "O3-sulfothreonine" BROAD []
synonym: "go: GO:0050985" EXACT []
synonym: "mod: MOD:00367" EXACT []
synonym: "resid: AA0362" EXACT []
synonym: "threonine sulfate ester" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: OC(=O)[C@H]([C@H](OS(=O)(=O)[O-])C)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0112
name: 3-methyl-L-lanthionine
def: "There are 3 chiral centers, so there are 8 possible stereoisomers. Bacterial peptidyl-cysteine dehydroalanine/dehydrobutyrine ligase and peptide conformation preferentially produce the (2S,3S,2'R) diastereomer. The cysteine maintains its L configuration (R chirality), while the threonine 2-aminobutanoate skeleton has a D configuration (S chirality). For the (2R,3R,2'R) diastereomer, see RESID:AA0610. Generating Enzyme: peptidyl-phosphoserine/phosphothreonine dehydratase (EC 4.2.1.-); peptidyl-cysteine dehydroalanine/dehydrobutyrine ligase (EC 6.2.-.-)." []
synonym: "(2S,3S)-2-amino-3-([(2R)-2-amino-2-carboxyethyl]sulfanyl)butanoic acid" BROAD []
synonym: "(2S,3S,2'R)-2-amino-3-[(2-amino-2-carboxyethyl)thio]butanoic acid" BROAD []
synonym: "(2S,3S,6R)-2,6-diamino-3-methyl-4-thiaheptanedioic acid" BROAD []
synonym: "(2S,3S,6R)-3-methyllanthionine" BROAD []
synonym: "(2S-[2R*,3R*(S*)])-2-amino-3-[(2-amino-2-carboxyethyl)thio]butanoic acid" BROAD []
synonym: "3-methyl-D,L-lanthionine" BROAD []
synonym: "cas: 42849-28-5" EXACT []
synonym: "chebi: CHEBI:20118" EXACT []
synonym: "cysteine-3-D-butyrine thioether" BROAD []
synonym: "go: GO:0018081" EXACT []
synonym: "mod: MOD:00121" EXACT []
synonym: "pdb.ligand: DBB" EXACT []
synonym: "resid: AA0112" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CS[C@H]([C@H](C(=O)O)[NH3+])C)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:protein:AA0214
name: L-citrulline
def: "Generating Enzyme: protein-arginine deiminase (EC 3.5.3.15)." []
synonym: "(2S)-5-(aminocarbonylamino)-2-azanyl-pentanoic acid" BROAD []
synonym: "(S)-2-amino-5-(carbamoylamino)pentanoic acid" BROAD []
synonym: "2-amino-5-(aminocarbonyl)aminopentanoic acid" BROAD []
synonym: "N5-(aminocarbonyl)ornithine" BROAD []
synonym: "N5-carbamoylornithine" BROAD []
synonym: "N5-carbamylornithine" BROAD []
synonym: "N~5~-carbamoyl-L-ornithine" BROAD []
synonym: "R" BROAD []
synonym: "alpha-amino-delta-ureidovaleric acid" BROAD []
synonym: "cas: 372-75-8" EXACT []
synonym: "citrulline" BROAD []
synonym: "delta-ureidonorvaline" BROAD []
synonym: "go: GO:0018101" EXACT []
synonym: "mod: MOD:00219" EXACT []
synonym: "pdb-ccd: CIR" EXACT []
synonym: "pdb.ligand: CIR" EXACT []
synonym: "resid: AA0214" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: NC(=O)NCCC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C10
r_displaced_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:protein:AA0185
name: L-3-oxoalanine
def: "The modified cysteine is found in sulfatases at the second position in the sequence motif [L/V]C[A/C/S/T]PSR. In at least one case, the oxidation acceptor or cofactor for the generating enzyme is known to be S-adenosylmethionine. The generating enzyme activity acting on serine would be EC 1.1.99.-, and acting on cysteine would be EC 1.8.99.-. This modification should not be confused with N-formylglycine (see RESID:AA0057). The use of the misleading, non-standard name "C-alpha-formyl glycine" should be avoided. This active site residue occurs in the hydrated form, 2-amino-3,3-dihydroxypropanoic acid, as observed in crystallographic structures.  See RESID:AA0492. The PDB Hetgroup FGL was originally designated as the "C(alpha)-formyl glycine" active site residue L-3-oxoalanine observed in its hydrated form. That structure, a gem-diol with an sp(3) carbon, was misinterpreted as a carboxyl with an sp(2) carbon, and assigned to aminomalonic acid (see RESID:AA0458) instead. Generating Enzyme: sulfatase maturing enzyme (sulfatase modifying factor, C-alpha-formylglycine-generating enzyme) (EC 1.1.99.-) #link SER; sulfatase maturing enzyme (sulfatase modifying factor, C-alpha-formylglycine-generating enzyme) (EC 1.8.99.-) #link CYS." []
synonym: "(S)-2-amino-3-oxopropanoic acid" BROAD []
synonym: "2-amino-3-oxopropionic acid" BROAD []
synonym: "2-aminopropanedioic acid" BROAD []
synonym: "C(alpha)-formylglycine [misnomer]" BROAD []
synonym: "G" BROAD []
synonym: "L-amino-malonic acid semialdehyde" BROAD []
synonym: "L-aminomalonaldehydic acid" BROAD []
synonym: "L-serinesemialdehyde [misnomer]" BROAD []
synonym: "aminopropanedioic acid" BROAD []
synonym: "cas: 5735-66-0" EXACT []
synonym: "go: GO:0018083" EXACT []
synonym: "mod: MOD:00193" EXACT []
synonym: "mod: MOD:00835" EXACT []
synonym: "pdb-ccd: FGL" EXACT []
synonym: "pdb.ligand: FGL" EXACT []
synonym: "resid: AA0185" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=CC(C(=O)O)N
l_bond_atoms: N7
l_displaced_atoms: H7
r_bond_atoms: C4
r_displaced_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:protein:AA0386
name: O-octanoyl-L-threonine
def: "Generating Enzyme: ghrelin O-acyltransferase, GOAT (EC 2.3.1.-)." []
synonym: "(2S)-2-amino-3-(octanoyloxy)butanoic acid" BROAD []
synonym: "L-threonine octanoate ester" BROAD []
synonym: "O3-octanoyl-L-threonine" BROAD []
synonym: "go: GO:0042050" EXACT []
synonym: "mod: MOD:00391" EXACT []
synonym: "resid: AA0386" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: C[C@H]([C@H]([NH3+])C(=O)O)OC(=O)CCCCCCC
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C10
r_displaced_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:protein:AA0181
name: dehydroalanine
def: "The modification of serine to dehydroalanine coupled with the formation of 5-imidazolinone by the two neighboring residues produces the 4-methylidene-imidazole-5-one (MIO) active site of some amino acid ammonia-lyases that differs by UV and mass spectrometric evidence from other known dehydroalanine containing peptides not containing the second modification. The formation of iodinated thyronine, O-(4-hydroxyphenyl)-tyrosine, by phenoxy radical transfer from tyrosine in thyroglobulin produces dehydroalanine as a by-product. See RESID:AA0177 and RESID:AA0178. The formation of S-(2-aminovinyl)-L-cysteine, see RESID:AA0548, requires that an interior cysteine first undergoes oxidative dethiolation to form dehydroalanine. This reaction is normally followed by formation of an L-lanthionine through reformation of an L-cysteine in a thioether bond with the C-terminal cysteine. The C-terminal cysteine is subsequently decarboxylated. Because the intermediate dehydroalanine formed from cysteine is not normally observed, it is not annotated as a feature in UniProt. Either free or in a peptide chain, dehydroalanine is unstable, undergoing hydrolysis with formation of 2-hydroxyalanine which can, like 2-hydroxyglycine (see RESID:AA0434), decompose by deamination breaking the peptide backbone to form a peptide amide and a pyruvoyl peptide (see RESID:AA0127). A 2,3-didehydro amino acid blocks Edman degradation. Generating Enzyme: protein-cysteine dethiolase (EC 4.4.1.-) #link CYS; autocatalytic #link SEC; protein-serine dehydratase (EC 4.2.1.-) #link SER." []
synonym: "2,3-didehydroalanine" BROAD []
synonym: "2-aminoacrylic acid" BROAD []
synonym: "2-aminopropenoic acid" BROAD []
synonym: "4-methylidene-imidazole-5-one (MIO) active site" BROAD []
synonym: "Dha" BROAD []
synonym: "anhydroserine" BROAD []
synonym: "cas: 1948-56-7" EXACT []
synonym: "chebi: CHEBI:17123" EXACT []
synonym: "go: GO:0018250" EXACT []
synonym: "mod: MOD:00189" EXACT []
synonym: "mod: MOD:00793" EXACT []
synonym: "mod: MOD:00824" EXACT []
synonym: "mod: MOD:01954" EXACT []
synonym: "pdb.ligand: DHA" EXACT []
synonym: "resid: AA0181" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: NC(=C)C(=O)O
l_bond_atoms: N1
l_displaced_atoms: H1
r_bond_atoms: C4
r_displaced_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:protein:AA0296
name: O-(N-acetylglucosamine-1-phosphoryl)-L-serine
def: "See also RESID:AA0154, RESID:AA0208, RESID:AA0209, RESID:AA0210, RESID:AA0291, RESID:AA0297, RESID:AA0397, RESID:AA0398, RESID:AA0400, RESID:AA0402, RESID:AA0404, RESID:AA0406, and RESID:AA0422 for other O-glycosylated serines. Generating Enzyme: UDP-N-acetylglucosamine:serine-protein N-acetylglucosamine-1-phosphotransferase (EC 2.7.8.-)." []
synonym: "(2S)-2-amino-3-[([(2-acetamido-2-deoxy-alpha-D-glucopyranosyl)oxy][hydroxy]phosphoryl)oxy]propanoic acid" BROAD []
synonym: "O-beta(N-acetyl-glucosamine-alpha1-phosphate)serine" BROAD []
synonym: "O3-(N-acetylglucosamine-1-phosphoryl)-L-serine" BROAD []
synonym: "O3-L-serine 2-(acetylamino)-2-deoxy-D-glucopyranose 1-phosphodiester" BROAD []
synonym: "cas: 6866-69-9" EXACT []
synonym: "go: GO:0018425" EXACT []
synonym: "mod: MOD:00301" EXACT []
synonym: "resid: AA0296" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC[C@H]1O[C@H](OP(=O)(OC[C@@H](C(=O)O)[NH3+])[O-])[C@@H]([C@H]([C@@H]1O)O)NC(=O)C
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C15
r_displaced_atoms: O17
r_displaced_atoms: H17

[Term]
id: BpForms:protein:AA0581
name: L-methionine sulfoxide
def: "The S-oxide of methionine is a chiral center. The oxidized methionine in actin has been determined to be the (R)-sulfoxide. The methionine (R)-sulfoxides in actin can be reduced to methionine by methionine-R-sulfoxide reductase B1, MsrB1 (EC 1.8.4.-). Generating Enzyme: protein-methionine sulfoxide oxidase Mical1 (EC 1.14.13.-)." []
synonym: "(2S)-2-amino-4-[(R)-methylsulfinyl]butanoic acid" BROAD []
synonym: "L-methionine (R)-S-oxide" BROAD []
synonym: "M" BROAD []
synonym: "cas: 3226-66-2" EXACT []
synonym: "chebi: CHEBI:45764" EXACT []
synonym: "methionine sulfoxide" BROAD []
synonym: "mod: MOD:00721" EXACT []
synonym: "pdb-ccd: SME" EXACT []
synonym: "pdb.ligand: SME" EXACT []
synonym: "resid: AA0581" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: C[S@@](=O)CC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:protein:AA0374
name: L-serine microcin E492 siderophore ester
synonym: "N-[5-(6-O-seryl-beta-glucosyl)-2,3-dihydroxybenzoyl]-O-[N-(2,3-dihydroxybenzoyl)-O-[N-(2,3-dihydroxybenzoyl)seryl]seryl]serine" BROAD []
synonym: "go: GO:0051263" EXACT []
synonym: "mod: MOD:00379" EXACT []
synonym: "resid: AA0374" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC[C@@H](C(=O)OC[C@@H](C(=O)OC[C@@H](C(=O)[O-])NC(=O)c1cc(cc(c1O)O)[C@@H]1O[C@H](COC(=O)[C@H](CO)N)[C@H]([C@@H]([C@H]1O)O)O)NC(=O)c1cccc(c1O)O)NC(=O)c1cccc(c1O)O
l_bond_atoms: N20
l_displaced_atoms: H20
r_bond_atoms: C17
r_displaced_atoms: O19-1

[Term]
id: BpForms:protein:AA0252
name: dipyrrolylmethanemethyl-L-cysteine
def: "The pyrromethane cofactor is synthesized on the enzyme autocatalytically by condensation of two porphobilinogen molecules." []
synonym: "(2S)-3-[5-[4-(2-carboxy)ethyl-3-carboxymethyl-1-pyrrol-2-yl]methyl-4-(2-carboxy)ethyl-3-carboxymethyl-1-pyrrol-2-yl]methylthio-2-aminopropanoic acid" BROAD []
synonym: "3-[5-(3-acetic acid-4-propanoic acid-1-pyrrol-2-yl)methyl-3-acetic acid-4-propanoic acid-1-pyrrol-2-yl]methylthio-2-aminopropanoic acid" BROAD []
synonym: "cas: 29261-13-0" EXACT []
synonym: "chebi: CHEBI:23842" EXACT []
synonym: "dipyrrole cofactor" BROAD []
synonym: "dipyrrolylmethyl-L-cysteine" BROAD []
synonym: "dipyrromethane cofactor" BROAD []
synonym: "go: GO:0018160" EXACT []
synonym: "mod: MOD:00257" EXACT []
synonym: "pdb.ligand: DPM" EXACT []
synonym: "pyrromethane cofactor" BROAD []
synonym: "resid: AA0252" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CSCc1[nH]c(c(c1CC(=O)[O-])CCC(=O)[O-])Cc1[nH]cc(c1CC(=O)[O-])CCC(=O)[O-])[NH3+]
l_bond_atoms: N9
l_displaced_atoms: H9
r_bond_atoms: C15
r_displaced_atoms: O17-1

[Term]
id: BpForms:protein:AA0427
name: S-phycourobilin-L-cysteine
def: "There are additional chiral centers at C-3alpha, C-4, and C-16." []
synonym: "(2S,3R,16R)-18-ethenyl-3-[(1R)-1-([(R)-2-amino-2-carboxyethyl]sulfanyl)ethyl]-8,12-bis(2-carboxyethyl)-2,7,13,17-tetramethyl-4,5,15,16-tetrahydrobiline-1,19(21H,22H,24H)-dione" BROAD []
synonym: "18-ethenyl-3-[1-(2-amino-2-carboxyethylsulfanyl)ethyl]-2,3,15,16-dihydro-2,7,13,17-tetramethyl-1,19-dioxo-(21H,22H,24H)-bilin-8,12-dipropanoic acid" BROAD []
synonym: "PUB" BROAD []
synonym: "cas: 61932-71-6" EXACT []
synonym: "mod: MOD:01175" EXACT []
synonym: "phycourobilin cysteine adduct" BROAD []
synonym: "resid: AA0427" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CS[C@@H](C1=C(C)C(=O)N[C@H]1Cc1[nH]c(c(c1C)CCC(=O)[O-])Cc1[nH]c(c(c1CCC(=O)[O-])C)C[C@H]1NC(=O)C(=C1C)C=C)C)[NH3+]
l_bond_atoms: N14
l_displaced_atoms: H14
r_bond_atoms: C27
r_displaced_atoms: O29-1

[Term]
id: BpForms:protein:AA0169
name: S-(ADP-ribosyl)-L-cysteine
def: "The anomeric form of the pertussis toxin product has not been characterized; the alpha form is presented. The keywords "phosphoprotein" and "thioether bond" are not used with toxin modification. Generating Enzyme: NAD(P)+--cysteine ADP-ribosyltransferase (EC 2.4.2.-)." []
synonym: "(R)-2-amino-3-([adenosine 5'-(trihydrogen diphosphate) 5'->5'-ester with alpha-D-ribofuranosyl]sulfanyl)propanoic acid" BROAD []
synonym: "S-L-cysteine alpha-D-ribofuranoside 5'->5'-ester with adenosine 5'-(trihydrogen diphosphate)" BROAD []
synonym: "S-alpha-D-ribofuranosyl-L-cysteine 5'->5'-ester with adenosine 5'-(trihydrogen diphosphate)" BROAD []
synonym: "go: GO:0006471" EXACT []
synonym: "mod: MOD:00178" EXACT []
synonym: "resid: AA0169" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC(=O)[C@H](CS[C@@H]1O[C@@H]([C@H]([C@H]1O)O)COP(=O)(OP(=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1ncnc2N)[O-])[O-])[NH3+]
l_bond_atoms: N51-1
l_displaced_atoms: H51
l_displaced_atoms: H51+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0083
name: L-asparagine amide
def: "Generating Enzyme: peptidylglycine monooxygenase (EC 1.14.17.3)." []
synonym: "(2S)-2-aminobutanediamide" BROAD []
synonym: "asparaginamide" BROAD []
synonym: "cas: 16748-73-5" EXACT []
synonym: "chebi: CHEBI:21243" EXACT []
synonym: "go: GO:0018036" EXACT []
synonym: "mod: MOD:00092" EXACT []
synonym: "pdb.ligand: NH2" EXACT []
synonym: "resid: AA0083" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: NC(=O)C[C@@H](C(=O)N)[NH3+]
l_bond_atoms: N1
l_displaced_atoms: H1

[Term]
id: BpForms:protein:F, Y, Y
name: coelenterazine
def: "The structure of the amino acid components of coelenterazine suggest that it is biosynthesized from a phenylalanyl-tyrosyl-tyrosine peptide. This entry presents coelenterazine as a modification produced by the cross-linking of a tripeptide precursor. For coelenterazine as a heterogen cross-linked to a cysteine see RESID:AA0526." []
synonym: "8-benzyl-2-(4-hydroxybenzyl)-6-(4-hydroxyphenyl)imidazo[1,2-a]pyrazin-3(7H)-one" BROAD []
synonym: "Oplophorus luciferin" BROAD []
synonym: "cas: 55779-48-1" EXACT []
synonym: "chebi: CHEBI:2311" EXACT []
synonym: "mod: MOD:01949" EXACT []
synonym: "resid: AA0595" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: Oc1ccc(cc1)Cc1nc2n(c1=O)cc([nH]c2Cc1ccccc1)c1ccc(cc1)O
l_bond_atoms: N10

[Term]
id: BpForms:protein:AA0484
name: L-phenylalanine thiazoline-4-carboxylic acid
def: "Formed by the condensation of a cysteine thiol with the carbonyl of the preceding residue. Generating Enzyme: peptidyl-cysteine cyclase (EC 4.2.1.-)." []
synonym: "(4R)-2-[(1S)-1-amino-2-phenylethyl]-4,5-dihydro-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "2-[1-azanyl-2-phenylethyl]-4,5-dihydro-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "mod: MOD:01407" EXACT []
synonym: "resid: AA0484" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [NH3+][C@H]([C@H]1SC[C@H](N1)C(=O)O)Cc1ccccc1
l_bond_atoms: N13
l_displaced_atoms: H13
r_bond_atoms: C14
r_displaced_atoms: O16
r_displaced_atoms: H16

[Term]
id: BpForms:protein:E, N
name: 2-(2-aminosuccinimidyl)pentanedioic acid
def: "This cross-link is formed by the condensation of an aspartic acid or asparagine residue with the alpha-amido of the following residue. Generating Enzyme: autocatalytic." []
synonym: "(4S)-4-[(3S)-3-amino-2,5-dioxopyrrolidin-1-yl]-5-oxopentanoic acid" BROAD []
synonym: "aspartimide glutamic acid" BROAD []
synonym: "mod: MOD:01940" EXACT []
synonym: "mod: MOD:01941" EXACT []
synonym: "pdb.ligand: SNN" EXACT []
synonym: "resid: AA0593" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: O=C[C@@H](N1C(=O)C[C@@H](C1=O)N)CCC(=O)[O-]
l_bond_atoms: N13
l_displaced_atoms: H13
r_bond_atoms: C16
r_displaced_atoms: O18-1

[Term]
id: BpForms:protein:AA0529
name: N-(glycyl)-L-cysteine
def: "This modified carboxyl end glycine residue is produced by transamidation of S-(glycyl)-L-cysteine (see RESID:AA0206) transiently forming a peptide bond to a free cysteine before the cysteine is released by a peptidase activity." []
synonym: "(2R)-2-[(aminoacetyl)amino]-3-sulfanylpropanoic acid" BROAD []
synonym: "N-(2-amino-1-oxoethyl)cysteine" BROAD []
synonym: "mod: MOD:01778" EXACT []
synonym: "resid: AA0529" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:G ! glycine
structure: SC[C@@H](C(=O)[O-])NC(=O)C[NH3+]
l_bond_atoms: N8
l_displaced_atoms: H8
r_bond_atoms: C5
r_displaced_atoms: O7-1

[Term]
id: BpForms:protein:AA0557
name: L-cysteine sulfinyl phosphate
def: "This modification is probably produced as an intermediate during the ATP mediated reduction of cysteine sulfinic acid (see RESID:AA0262) formed in some proteins during oxidative stress." []
synonym: "(2R)-2-amino-3-[(phosphonooxy)sulfinyl]propanoic acid" BROAD []
synonym: "cysteine sulfinic phosphoryl ester" BROAD []
synonym: "mod: MOD:01847" EXACT []
synonym: "resid: AA0557" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O[S@](OP(=O)(O)O)C[C@@H](C(=O)O)N
l_bond_atoms: N14
l_displaced_atoms: H14
r_bond_atoms: C11
r_displaced_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:protein:AA0478
name: (2S,3S)-3-hydroxyasparagine
def: "This diastereomeric form has been found in the C-terminal transactivation domain (CAD) of hypoxia-inducible factor (HIF), and in the ankyrin repeat domains of notch 1, which probably also contains the other diastereomeric form of the modification in its EGF domains. The PDB group code includes models with both the (2S,3R) and the (2S,3S) stereoconfiguration. Generating Enzyme: hypoxia-inducible factor-asparagine dioxygenase (EC 1.14.11.30)." []
synonym: "(2S,3S)-2,4-diamino-3-hydroxy-4-oxobutanoic acid" BROAD []
synonym: "(2S,3S)-2-amino-3-hydroxy-4-butanediamic acid" BROAD []
synonym: "L-threo-beta-hydroxyasparagine" BROAD []
synonym: "chebi: CHEBI:50789" EXACT []
synonym: "mod: MOD:01401" EXACT []
synonym: "pdb.ligand: AHB" EXACT []
synonym: "resid: AA0478" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: OC(=O)[C@H]([C@@H](C(=O)N)O)N
l_bond_atoms: N12
l_displaced_atoms: H12
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0619
name: N,N,N-trimethylglyine
def: "This modification is the major post-translational modification in the methylation of N-terminal glycine. See also RESID:AA0063 and RESID:AA0620. Consult FAQ at http://pir.georgetown.edu/resid/faq.shtml#q12 concerning calculation of the difference formula. It is not clear whether "N-terminal methyltransferase" defined in EC 2.1.1.244 is intended to exclude an enzyme activity that methylates N-terminal glycine, or whether there are distinguishable enzyme activities. Generating Enzyme: protein N-terminal methyltransferase (EC 2.1.1.244)." []
synonym: "(trimethylammonio)ethanoic acid" BROAD []
synonym: "1-carboxy-N,N,N-trimethylmethanazanium" BROAD []
synonym: "2-trimethylammonioacetate" BROAD []
synonym: "N,N,N-trimethylglycine cation" BROAD []
synonym: "N,N,N-trimethylglycinium" BROAD []
synonym: "betaine" BROAD []
synonym: "carboxy-N,N,N-trimethylmethanaminium" BROAD []
synonym: "carboxymethyl-trimethylazanium" BROAD []
synonym: "cas: 107-43-7" EXACT []
synonym: "chebi: CHEBI:17750" EXACT []
synonym: "glycine betaine" BROAD []
synonym: "mod: MOD:01982" EXACT []
synonym: "resid: AA0619" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:G ! glycine
structure: OC(=O)C[N](C)(C)C
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0423
name: O-acetyl-L-threonine
def: "O-acetylation of threonine in host kinases is catalyzed by yersinia toxin blocking the normal phosphorylation." []
synonym: "(2S,3R)-3-(acetyloxy)-2-aminobutanoic acid" BROAD []
synonym: "O-acetylthreonine" BROAD []
synonym: "cas: 17012-42-9" EXACT []
synonym: "mod: MOD:01171" EXACT []
synonym: "pdb.ligand: TH5" EXACT []
synonym: "resid: AA0423" EXACT []
synonym: "threonine acetate ester" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: CC(=O)O[C@@H]([C@@H](C(=O)O)[NH3+])C
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C9
r_displaced_atoms: O11
r_displaced_atoms: H11

[Term]
id: BpForms:protein:AA0401
name: O-galactosyl-L-threonine
def: "See also RESID:AA0155, RESID:AA0247, RESID:AA0399, RESID:AA0403, RESID:AA0405, and RESID:AA0515 for other O-glycosylated threonines. Generating Enzyme: galactosyltransferase (EC 2.4.1.-)." []
synonym: "(2S,3R)-2-amino-3-(alpha-D-galactopyranosyloxy)butanoic acid" BROAD []
synonym: "O-glycosylthreonine" BROAD []
synonym: "O3-galactosylthreonine" BROAD []
synonym: "mod: MOD:00809" EXACT []
synonym: "resid: AA0401" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: OC[C@H]1O[C@H](O[C@@H]([C@@H](C(=O)O)[NH3+])C)[C@@H]([C@H]([C@H]1O)O)O
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15
r_displaced_atoms: H15

[Term]
id: BpForms:protein:AA0341
name: 2-(S-L-cysteinyl)-D-phenylalanine
def: "The D-stereoisomer of the 2-S-cysteinyl substituted phenylalanine has S configuration." []
synonym: "(2S)-2-amino-2-[(2R)-2-amino-2-carboxyethyl]sulfanyl-3-phenylpropanoic acid" BROAD []
synonym: "(2S,5R)-2,5-diamino-3-thia-2-phenylmethylhexanedioic acid" BROAD []
synonym: "alpha-(L-cystein-S-yl)-D-phenylalanine" BROAD []
synonym: "go: GO:0046925" EXACT []
synonym: "mod: MOD:00346" EXACT []
synonym: "resid: AA0341" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@](Cc1ccccc1)(SC[C@@H](C(=O)O)[NH3+])N
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C15
r_displaced_atoms: O17
r_displaced_atoms: H17

[Term]
id: BpForms:protein:AA0442
name: (2S)-4-hydroxyleucine
synonym: "(2S)-2-amino-4-hydroxy-4-methylpentanoic acid" BROAD []
synonym: "gamma-hydroxyleucine" BROAD []
synonym: "mod: MOD:01372" EXACT []
synonym: "resid: AA0442" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: OC(=O)[C@H](CC(O)(C)C)[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0546
name: L-allo-isoleucine
def: "Generating Enzyme: protein-isoleucine 3-epimerase (EC 5.1.1.-)." []
synonym: "(2S,3R)-2-amino-3-methylpentanoic acid" BROAD []
synonym: "2-azanyl-3-methylpentanoic acid" BROAD []
synonym: "3-methyl-norvaline" BROAD []
synonym: "L-threo-isoleucine" BROAD []
synonym: "allo-L-isoleucine" BROAD []
synonym: "alpha-amino-beta-methylvaleric acid" BROAD []
synonym: "cas: 1509-34-8" EXACT []
synonym: "chebi: CHEBI:30008" EXACT []
synonym: "mod: MOD:01840" EXACT []
synonym: "resid: AA0546" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:I ! L-isoleucine
structure: CC[C@H]([C@@H](C(=O)O)[NH3+])C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0103
name: S-12-hydroxyfarnesyl-L-cysteine
def: "Formation of S-12-hydroxyfarnesylcysteine may be coupled with subsequent cleavage of a carboxy-terminal tripeptide for the CAAX motif and methyl esterification of the farnesylated cysteine. See L-cysteine methyl ester (RESID:AA0105)." []
synonym: "(2R)-2-amino-3-([(2E,6E,10Z)-12-hydroxy-3,7,11-trimethyldodeca-2,6,10-trien-1-yl]sulfanyl)propanoic acid" BROAD []
synonym: "2-amino-3-(12-hydroxy-3,7,11-trimethyl-3,6,10-dodecatrienylthio)propanoic acid" BROAD []
synonym: "go: GO:0018227" EXACT []
synonym: "mod: MOD:00112" EXACT []
synonym: "resid: AA0103" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC/C(=C\CC/C(=C/CC/C(=C/CSC[C@@H](C(=O)O)[NH3+])/C)/C)/C
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C18
r_displaced_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:protein:AA0087
name: L-glutamic acid 1-amide
def: "Generating Enzyme: peptidylglycine monooxygenase (EC 1.14.17.3)." []
synonym: "(2S)-2-amino-1-pentanediamic acid" BROAD []
synonym: "(4S)-4,5-diamino-5-oxo-pentanoic acid" BROAD []
synonym: "4,5-diamino-5-oxopentanoic acid" BROAD []
synonym: "4-amido-4-carbamoyl-butyric acid" BROAD []
synonym: "E" BROAD []
synonym: "L-alpha-glutamine" BROAD []
synonym: "cas: 328-48-3" EXACT []
synonym: "chebi: CHEBI:21305" EXACT []
synonym: "go: GO:0018040" EXACT []
synonym: "isoglutamine" BROAD []
synonym: "mod: MOD:00096" EXACT []
synonym: "pdb-ccd: GMA" EXACT []
synonym: "pdb.ligand: NH2" EXACT []
synonym: "resid: AA0087" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: [O-]C(=O)CC[C@@H](C(=O)N)[NH3+]
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:AA0432
name: S-(aspart-4-yloxy) thiocarbonate
def: "This modification was originally observed in the enzyme expressed in Escherichia coli. It was not chemically confirmed or characterized. It did not appear in a later model at higher resolution by the same group." []
synonym: "(2R)-2-amino-4-carboxysulfanyloxy-4-oxo-butanoic acid" BROAD []
synonym: "(2S)-2-amino-4-(carboxysulfanyl)oxy-4-oxobutanoic acid" BROAD []
synonym: "4-aspartyloxysulfanylcarbonate" BROAD []
synonym: "D" BROAD []
synonym: "O-(carboxysulfanyl)-4-oxo-D-homoserine" BROAD []
synonym: "O-carboxysulfanyl-4-oxo-L-homoserine" BROAD []
synonym: "mod: MOD:01178" EXACT []
synonym: "o-(carboxysulfanyl)-4-oxo-l-homoserine" BROAD []
synonym: "pdb-ccd: OHS" EXACT []
synonym: "pdb.ligand: OHS" EXACT []
synonym: "resid: AA0432" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:D ! L-aspartic acid
structure: O=C(C[C@@H](C(=O)O)[NH3+])OSC(=O)[O-]
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8
r_displaced_atoms: H8

[Term]
id: BpForms:protein:AA0550
name: 2-(3-methylbutanoyl)-5-hydroxy-oxazole-4-carbothionic acid
def: "The amino group of the following amino acid forms a thiopeptide bond. The amino(sulfanyl)methylidene tautomeric form is shown in the diagram and model. The biosynthesis of this modification from the encoded cysteine peptide has not been elaborated." []
synonym: "(4Z)-4-[hydroxy(sulfanyl)methylidene]-2-(3-methylbutanoyl)-1,3-oxazol-5(4H)-one [tautomer]" BROAD []
synonym: "5-hydroxy-2-(3-methylbutanoyl)-1,3-oxazole-4-carbothioic O-acid" BROAD []
synonym: "mod: MOD:01844" EXACT []
synonym: "pdb.ligand: 8LI" EXACT []
synonym: "resid: AA0550" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [S-]/C=C/1\N=C(OC1=O)C(=O)CC(C)C
l_bond_atoms: N4

[Term]
id: BpForms:protein:AA0444
name: (2S,4R)-5-oxoleucine
def: "The oxidation artifacts 5-hydroxyleucine and 5-oxoleucine can form autocatalytically and stereospecifically, but not selectively. It is not clear whether the modified residue subsequently takes part in catalytic reactions at the active site of alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 (ABH3)." []
synonym: "(2S,4R)-2-amino-4-methyl-5-oxo-pentanoic acid" BROAD []
synonym: "(2S,4R)-2-amino-4-methyl-5-oxopentanoic acid" BROAD []
synonym: "(4R)-5-oxo-L-leucine" BROAD []
synonym: "(4r)-5-oxo-l-leucine" BROAD []
synonym: "L" BROAD []
synonym: "chebi: CHEBI:43739" EXACT []
synonym: "mod: MOD:01374" EXACT []
synonym: "pdb-ccd: LED" EXACT []
synonym: "pdb.ligand: LED" EXACT []
synonym: "resid: AA0444" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: O=C[C@@H](C[C@@H](C(=O)O)[NH3+])C
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:protein:AA0614
name: 5-glutamyl coenzyme A thioester
def: "Generating Enzyme: autocatalytic." []
synonym: "(2S)-2-amino-5-(2-[([3-([(2R)-2-hydroxy-3,3-dimethyl-4-([3'-phospho-adenosyl-5'-diphosphoryl]-oxy)-butanoyl]-amino)-propanoyl]-amino)-ethyl]-sulfanyl)-5-oxopentanoic acid" BROAD []
synonym: "(2S)-2-amino-5-([2-(3-[(2R)-2-hydroxy-3,3-dimethyl-4-([3'-phospho-adenosyl-5'-diphosphoryl]-oxy)-butanamido]-propanamido)-ethyl]-sulfanyl)-5-oxopentanoic acid" BROAD []
synonym: "5-glutamyl 4-[(3'-phospho-adenosyl-5'-diphosphoryl)oxy]pantetheine thioester" BROAD []
synonym: "mod: MOD:01972" EXACT []
synonym: "resid: AA0614" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: O=C(NCCSC(=O)CC[C@@H](C(=O)O)[NH3+])CCNC(=O)[C@@H](C(COP(=O)(OP(=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1OP(=O)([O-])[O-])O)n1cnc2c1ncnc2N)[O-])[O-])(C)C)O
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15
r_displaced_atoms: H15

[Term]
id: BpForms:protein:AA0200
name: D-valine
def: "Generating Enzyme: protein-valine epimerase (EC 5.1.1.-)." []
synonym: "(R)-2-amino-3-methylbutanoic acid" BROAD []
synonym: "alpha-amino-beta-methylbutyric acid" BROAD []
synonym: "alpha-aminoisovaleric acid" BROAD []
synonym: "cas: 640-68-6" EXACT []
synonym: "chebi: CHEBI:30016" EXACT []
synonym: "mod: MOD:00705" EXACT []
synonym: "pdb.ligand: DVA" EXACT []
synonym: "resid: AA0200" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:V ! L-valine
structure: [NH3+][C@@H](C(=O)O)C(C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0056
name: S-acetyl-L-cysteine
synonym: "(2R)-2-amino-3-ethanoylsulfanyl-propanoic acid" BROAD []
synonym: "(2R)-3-acetylsulfanyl-2-aminopropanoic acid" BROAD []
synonym: "2-amino-3-(acetylthio)propanoic acid" BROAD []
synonym: "2-azanyl-3-(acetylsulfanyl)propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-acetyl-L-cysteine" BROAD []
synonym: "S-acetylcysteine" BROAD []
synonym: "cas: 15312-11-5" EXACT []
synonym: "cysteine acetate thioester" BROAD []
synonym: "go: GO:0018219" EXACT []
synonym: "mod: MOD:00065" EXACT []
synonym: "pdb-ccd: SCY" EXACT []
synonym: "pdb.ligand: SCY" EXACT []
synonym: "resid: AA0056" EXACT []
synonym: "s-acetyl-cysteine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: CC(=O)SC[C@@H](C(=O)O)N
l_bond_atoms: N11
l_displaced_atoms: H11
r_bond_atoms: C8
r_displaced_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:protein:AA0435
name: L-aspartic acid 4-methyl ester
def: "An enzyme acting to form the methyl ester of L-aspartyl peptides might interfere with the D-aspartyl peptide repair mechanism." []
synonym: "(2S)-2-amino-4-methoxy-4-oxobutanoic acid" BROAD []
synonym: "2-aminobutanedioic acid 4-methyl ester" BROAD []
synonym: "4-methyl L-2-aminosuccinic acid" BROAD []
synonym: "4-methyl L-aspartate" BROAD []
synonym: "4-methyl L-hydrogen aspartate" BROAD []
synonym: "aspartic acid 4-methyl ester" BROAD []
synonym: "aspartic acid beta-methyl ester" BROAD []
synonym: "cas: 16856-13-6" EXACT []
synonym: "mod: MOD:01181" EXACT []
synonym: "resid: AA0435" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:D ! L-aspartic acid
structure: COC(=O)C[C@H]([NH3+])C(=O)O
l_bond_atoms: N8-1
l_displaced_atoms: H8
l_displaced_atoms: H8+1
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:AA0102
name: S-farnesyl-L-cysteine
def: "Formation of S-farnesycysteine may be coupled with subsequent cleavage of a carboxy-terminal tripeptide for the CXXX motif and methyl esterification of the farnesylated cysteine. See L-cysteine methyl ester (RESID:AA0105). This modification may be found at the first position in the sequence motif CXX[SAQCMT]* where the second and third positions are usually aliphatic. Generating Enzyme: protein-cysteine farnesyltransferase (EC 2.5.1.-)." []
synonym: "(2R)-2-amino-3-([(2E,6E)-3,7,11-trimethyldodeca-2,6,10-trien-1-yl]sulfanyl)propanoic acid" BROAD []
synonym: "2-amino-3-(3,7,11-trimethyl-2,6,10-dodecatrienylthio)propanoic acid" BROAD []
synonym: "cas: 68000-92-0" EXACT []
synonym: "go: GO:0018226" EXACT []
synonym: "mod: MOD:00111" EXACT []
synonym: "pdb.ligand: FAR" EXACT []
synonym: "resid: AA0102" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: C/C(=C\CSC[C@@H](C(=O)O)[NH3+])/CC/C=C(/CCC=C(C)C)\C
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C9
r_displaced_atoms: O11
r_displaced_atoms: H11

[Term]
id: BpForms:protein:AA0032
name: L-gamma-carboxyglutamic acid
def: "The gamma-carboxylation of glutamic acid residues is performed by a vitamin K-dependent enzyme. Generating Enzyme: gamma-glutamyl carboxylase (EC 4.1.1.-)." []
synonym: "(3S)-3-aminopropane-1,1,3-tricarboxylic acid" BROAD []
synonym: "(3S)-3-azanylpropane-1,1,3-tricarboxylic acid" BROAD []
synonym: "1-carboxyglutamic acid [misnomer]" BROAD []
synonym: "3-amino-1,1,3-propanetricarboxylic acid" BROAD []
synonym: "3-azanylpropane-1,1,3-tricarboxylic acid" BROAD []
synonym: "4-carboxyglutamic acid" BROAD []
synonym: "E" BROAD []
synonym: "cas: 53861-57-7" EXACT []
synonym: "chebi: CHEBI:61939" EXACT []
synonym: "gamma-carboxy-glutamic acid" BROAD []
synonym: "go: GO:0017187" EXACT []
synonym: "mod: MOD:00041" EXACT []
synonym: "pdb-ccd: CGU" EXACT []
synonym: "pdb.ligand: CGU" EXACT []
synonym: "resid: AA0032" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: O=C[C@H](CC(C(=O)[O-])C(=O)[O-])[NH3+]
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:AA0175
name: L-3'-bromophenylalanine
synonym: "(S)-2-amino-3-(3-bromophenyl)propanoic acid" BROAD []
synonym: "cas: 82311-69-1" EXACT []
synonym: "go: GO:0018075" EXACT []
synonym: "m-bromophenylalanine" BROAD []
synonym: "meta-bromophenylalanine" BROAD []
synonym: "mod: MOD:00184" EXACT []
synonym: "resid: AA0175" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: OC(=O)[C@H](Cc1cccc(c1)Br)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0240
name: glycine oxazole-4-carboxylic acid
def: "Formed by the condensation of a serine hydroxyl with the carbonyl of the preceding residue and alpha-beta dehydrogenation. Generating Enzyme: peptidyl-serine cyclase (EC 4.2.1.-); peptidyl-oxazoline dehydrogenase (EC 1.3.-.-)." []
synonym: "2-aminomethyl-1,3-oxazole-4-carboxylic acid" BROAD []
synonym: "2-azanylmethyl-1,3-oxazole-4-carboxylic acid" BROAD []
synonym: "go: GO:0018134" EXACT []
synonym: "mod: MOD:00245" EXACT []
synonym: "resid: AA0240" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: NCc1occ(n1)C(=O)O
l_bond_atoms: N7
r_bond_atoms: C8
r_displaced_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:protein:AA0263
name: L-3',4',5'-trihydroxyphenylalanine
synonym: "(S)-2-amino-3-(3,4,5-trihydroxyphenyl)propanoic acid" BROAD []
synonym: "L-3,4,5-TOPA" BROAD []
synonym: "go: GO:0018172" EXACT []
synonym: "mod: MOD:00268" EXACT []
synonym: "resid: AA0263" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: OC(=O)[C@H](Cc1cc(O)c(c(c1)O)O)[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0609
name: omega-N-(N-acetylamino)glucosyl-L-arginine
def: "This modification is produced in host proteins by a secretion system effector of some enteropathogenic bacteria. The anomeric form of the product has not been characterized; the beta form is presented. Generating Enzyme: [protein]-L-arginine N-acetyl-D-glucosaminyl-transferase NleB (EC 2.4.1.-)." []
synonym: "(2S)-2-amino-5-[(amino[(2-N-acetylamino-2-deoxy-D-glucopyranosyl)amino]methylidene)amino]pentanoic acid" BROAD []
synonym: "N(omega)-(2-N-acetylaminoglucosyl)arginine" BROAD []
synonym: "N(omega)-(2-acetamido-2-deoxy-D-glucopyranosyl)-L-arginine" BROAD []
synonym: "N(omega)-(2-acetylamino-2-deoxy-D-glucopyranosyl)-L-arginine" BROAD []
synonym: "NG-(2-N-acetylaminoglucosyl)arginine" BROAD []
synonym: "NG-(2-acetamido-2-deoxy-D-glucopyranosyl)-L-arginine" BROAD []
synonym: "NG-(2-acetylamino-2-deoxy-D-glucopyranosyl)-L-arginine" BROAD []
synonym: "mod: MOD:01967" EXACT []
synonym: "omega-N-(2-N-acetylaminoglucosyl)arginine" BROAD []
synonym: "omega-N-(2-acetamido-2-deoxy-D-glucopyranosyl)-L-arginine" BROAD []
synonym: "omega-N-(2-acetylamino-2-deoxy-D-glucopyranosyl)-L-arginine" BROAD []
synonym: "resid: AA0609" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: OC[C@H]1O[C@@H](N/C(=[NH+]\CCC[C@@H](C(=O)O)[NH3+])/N)[C@@H]([C@H]([C@@H]1O)O)NC(=O)C
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C17
r_displaced_atoms: O19
r_displaced_atoms: H19

[Term]
id: BpForms:protein:AA0428
name: S-15,16-dihydrobiliverdin-L-cysteine
def: "15,16-dihydrobiliverdin transmits violet." []
synonym: "(16R)-18-ethenyl-8,12-bis(2-carboxyethyl)-3-[(1R)-1-(((2R)-2-amino-2-carboxy)ethylsulfanyl)ethyl]-2,7,13,17-tetramethyl-15,16-dihydrobilin-1,19(21H,24H)-dione" BROAD []
synonym: "15,16-Dhbv" BROAD []
synonym: "15,16-dihydrobiliverdin IXalpha" BROAD []
synonym: "15,16-dihydrobiliverdin cysteine adduct" BROAD []
synonym: "18-ethenyl-8,12-bis(2-carboxyethyl)-3-(2-(cysteinyl-S)-ethyl)-2,7,13,17-tetramethylbiladiene-ab-1,19(16H,21H)-dione" BROAD []
synonym: "3'-cysteinyl-15,16-dihydrobiliverdin" BROAD []
synonym: "3alpha-cysteinyl-15,16-dihydrobiliverdin" BROAD []
synonym: "DBV" BROAD []
synonym: "cas: 137429-14-2" EXACT []
synonym: "mod: MOD:01142" EXACT []
synonym: "pdb.ligand: DBV" EXACT []
synonym: "resid: AA0428" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CS[C@H](C1=C(C)C(=O)N/C/1=C\c1[nH]c(c(c1C)CCC(=O)[O-])Cc1[nH]c(c(c1CCC(=O)[O-])C)C[C@H]1NC(=O)C(=C1C)C=C)C)[NH3+]
l_bond_atoms: N14
l_displaced_atoms: H14
r_bond_atoms: C26
r_displaced_atoms: O28-1

[Term]
id: BpForms:protein:AA0149
name: 4'-(L-tryptophan)-L-tryptophyl quinone
def: "Generating Enzyme: methylamine dehydrogenase activase MauG (EC 6.-.-.-)." []
synonym: "2-amino-3-[2-[2-amino-3-(2-carboxyethyl)-6,7-dioxo-1H-indol-4-yl]-1H-indol-3-yl]propanoic acid" BROAD []
synonym: "3-[(2S)-2-amino-2-carboxyethyl]-4-(3-[(2S)-2-amino-2-carboxyethyl]-1H-indol-2-yl)-6,7-indolinedione" BROAD []
synonym: "4'-tryptophan-tryptophylquinone" BROAD []
synonym: "4-(2'-tryptophyl)tryptophan-6,7-dione" BROAD []
synonym: "TTQ" BROAD []
synonym: "alpha,alpha'-diamino-6',7'-dihydro-6',7'-dioxo-(2,4'-bi-1H-indole)-3,3'-dipropanoic acid" BROAD []
synonym: "cas: 134645-25-3" EXACT []
synonym: "chebi: CHEBI:20251" EXACT []
synonym: "go: GO:0018069" EXACT []
synonym: "mod: MOD:00158" EXACT []
synonym: "resid: AA0149" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: O=C[C@H](Cc1c[nH]c2c1C(=CC(=O)C2=O)c1[nH]c2c(c1C[C@@H](C(=O)O)[NH3+])cccc2)[NH3+]
l_bond_atoms: N30-1
l_displaced_atoms: H30
l_displaced_atoms: H30+1
r_bond_atoms: C27
r_displaced_atoms: O29
r_displaced_atoms: H29

[Term]
id: BpForms:protein:AA0545
name: N6-succinyl-L-lysine
def: "The responsible generating enzyme activity is not identified. This modification can be reversed by Sirt5." []
synonym: "(2S)-2-amino-6-[(3-carboxypropanoyl)amino]hexanoic acid" BROAD []
synonym: "2-azanyl-6-[(3-carboxypropanoyl)azanyl]hexanoic acid" BROAD []
synonym: "4-[[(5S)-5-amino-6-hydroxy-6-oxohexyl]amino]-4-oxobutanoate" BROAD []
synonym: "N(epsilon)-(succinyl)lysine" BROAD []
synonym: "mod: MOD:01819" EXACT []
synonym: "resid: AA0545" EXACT []
synonym: "succinyllysine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O=C[C@H](CCCCNC(=O)CCC(=O)[O-])[NH3+]
l_bond_atoms: N9
l_displaced_atoms: H9
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:AA0578
name: (2S,5S)-5-hydroxylysine
def: "This diastereomeric form has been found in some splicing regulatory proteins. For the (2S,5R)-diastereomer, see RESID:AA0028. The Enzyme Commission has not yet distinguished the different stereospecific enzyme activities. Generating Enzyme: peptide-lysine 5-dioxygenase JMJD6 (EC 1.14.11.-)." []
synonym: "(2S,5S)-2,6-diamino-5-hydroxyhexanoic acid" BROAD []
synonym: "2,6-bisazanyl-5-hydroxyhexanoic acid" BROAD []
synonym: "2,6-diamino-2,3,4,6-tetradeoxyhexonic acid" BROAD []
synonym: "L-allo-delta-hydroxylysine" BROAD []
synonym: "L-threo-delta-hydroxylysine" BROAD []
synonym: "alpha,epsilon-diamino-delta-hydroxycaproic acid" BROAD []
synonym: "cas: 18899-29-1" EXACT []
synonym: "mod: MOD:01918" EXACT []
synonym: "resid: AA0578" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+]C[C@H](CC[C@@H](C(=O)O)[NH3+])O
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:AA0167
name: O-(phosphoribosyl dephospho-coenzyme A)-L-serine
def: "Generating Enzyme: holo-ACP synthase (EC 2.7.7.61)." []
synonym: "O3-(phosphate-5-ribosyl-alpha-2-adenosine-5-diphosphate pantetheine)-L-serine" BROAD []
synonym: "O3-(phosphoribosyl dephospho-coenzyme A)-L-serine" BROAD []
synonym: "O3-2'-(5''-phosphoribosyl-3'-dephosphocoenzyme A)-L-serine" BROAD []
synonym: "go: GO:0018247" EXACT []
synonym: "mod: MOD:00176" EXACT []
synonym: "resid: AA0167" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: SCCNC(=O)CCNC(=O)[C@@H](C(COP(=O)(OP(=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O[C@H]1O[C@@H]([C@H]([C@H]1O)O)COP(=O)(OC[C@@H](C(=O)O)[NH3+])[O-])n1cnc2c1ncnc2N)[O-])[O-])(C)C)O
l_bond_atoms: N57-1
l_displaced_atoms: H57
l_displaced_atoms: H57+1
r_bond_atoms: C54
r_displaced_atoms: O56
r_displaced_atoms: H56

[Term]
id: BpForms:protein:S, S
name: L-serine oxazole-4-carboxylic acid
def: "Formed by the condensation of a cysteine thiol with the carbonyl of the preceding residue and alpha-beta dehydrogenation. Generating Enzyme: peptidyl-serine cyclase (EC 4.2.1.-); peptidyl-oxazoline dehydrogenase (EC 1.3.-.-)." []
synonym: "2-[(1S)-1-amino-2-hydroxyethyl]-1,3-oxazole-4-carboxylic acid" BROAD []
synonym: "2-[(1S)-1-azanyl-2-hydroxyethyl]-1,3-oxazole-4-carboxylic acid" BROAD []
synonym: "mod: MOD:01903" EXACT []
synonym: "resid: AA0574" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC[C@@H](c1occ(n1)C(=O)O)N
l_bond_atoms: N9
r_bond_atoms: C10
r_displaced_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:protein:AA0197
name: D-leucine
def: "Generating Enzyme: protein-leucine epimerase (EC 5.1.1.-)." []
synonym: "(2R)-2-amino-4-methylpentanoic acid" BROAD []
synonym: "alpha-aminoisocaproic acid" BROAD []
synonym: "cas: 328-38-1" EXACT []
synonym: "chebi: CHEBI:30005" EXACT []
synonym: "go: GO:0019129" EXACT []
synonym: "mod: MOD:00204" EXACT []
synonym: "pdb.ligand: DLE" EXACT []
synonym: "resid: AA0197" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: [NH3+][C@@H](C(=O)O)CC(C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0514
name: O-(6'-phosphomannosyl)-L-threonine
def: "The alpha anomeric form is shown. See also RESID:AA0155, RESID:AA0247, RESID:AA0399, RESID:AA0401, RESID:AA0403, and RESID:AA0405 for other O-glycosylated threonines. Generating Enzyme: protein O-mannosyl transferase (EC 2.4.1.109); protein O-mannose beta-1,4-N-acetylglucosaminyltransferase (EC 2.4.1.-); protein O-(N-acetylglucosaminyl-beta-1,4)-mannose beta-1,4-N-acetylgalactosaminyltransferase (EC 2.4.1.-); protein O-mannose 6-phosphotransferase (EC 2.7.1.-)." []
synonym: "(2S,3R)-2-amino-3-[6-phosphonooxy-alpha-D-mannopyranosyloxy]butanoic acid" BROAD []
synonym: "O3-(6-phosphomannosyl)threonine" BROAD []
synonym: "mod: MOD:01617" EXACT []
synonym: "resid: AA0514" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: [NH3+][C@@H]([C@H](O[C@H]1O[C@H](COP(=O)([O-])[O-])[C@H]([C@H]([C@@H]1O)O)O)C)C(=O)O
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C31
r_displaced_atoms: O33
r_displaced_atoms: H33

[Term]
id: BpForms:protein:AA0194
name: D-phenylalanine
def: "Generating Enzyme: protein-phenylalanine epimerase (EC 5.1.1.-)." []
synonym: "(R)-2-amino-3-phenylpropanoic acid" BROAD []
synonym: "cas: 673-06-3" EXACT []
synonym: "chebi: CHEBI:29996" EXACT []
synonym: "go: GO:0019125" EXACT []
synonym: "mod: MOD:00201" EXACT []
synonym: "pdb.ligand: DPN" EXACT []
synonym: "resid: AA0194" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [NH3+][C@@H](C(=O)O)Cc1ccccc1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0533
name: N-methyl-L-serine
def: "Polypeptides with monomethylated amino terminals can undergo premature cleavage during the coupling step of an Edman degradation. This can result in "preview" with both a residue and the following residue being seen from the first step on through a sequence. Generating Enzyme: N-terminal RCC1 methyltransferase (EC 2.1.1.-)." []
synonym: "(2S)-3-hydroxy-2-(methylamino)propanoic acid" BROAD []
synonym: "N-methylserine" BROAD []
synonym: "cas: 2480-26-4" EXACT []
synonym: "go: GO:0035570" EXACT []
synonym: "mod: MOD:01782" EXACT []
synonym: "resid: AA0533" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: C[NH2+][C@H](C(=O)O)CO
l_bond_atoms: N2-1
l_displaced_atoms: H2
l_displaced_atoms: H2+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0068
name: omega-N,omega-N-dimethyl-L-arginine
def: "This modification should not be confused with omega-N,omega-N'-dimethyl-L-arginine (see RESID:AA0067) or N2,N2-dimethyl-L-arginine (see RESID:AA0569). Generating Enzyme: histone-arginine N-methyltransferase (EC 2.1.1.125)." []
synonym: "(2S)-2-amino-5-([(dimethylamino)(imino)methyl]amino)pentanoic acid" BROAD []
synonym: "(2S)-2-azanyl-5-[(N,N-dimethylcarbamimidoyl)amino]pentanoic acid" BROAD []
synonym: "N5-[(dimethylamino)(imino)methyl]ornithine" BROAD []
synonym: "NG,NG-dimethylarginine" BROAD []
synonym: "N~5~-(N,N-dimethylcarbamimidoyl)-L-ornithine" BROAD []
synonym: "R" BROAD []
synonym: "asymmetric dimethylarginine" BROAD []
synonym: "cas: 30315-93-6" EXACT []
synonym: "chebi: CHEBI:61896" EXACT []
synonym: "go: GO:0018216" EXACT []
synonym: "mod: MOD:00077" EXACT []
synonym: "ng,ng-dimethyl-l-arginine" BROAD []
synonym: "pdb-ccd: DA2" EXACT []
synonym: "pdb.ligand: DA2" EXACT []
synonym: "resid: AA0068" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: OC(=O)[C@H](CCCNC(=[NH2])N(C)C)[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0202
name: L-isoglutamyl-polyglutamic acid
def: "This entry is for L-isoglutamyl-polyglutamic acid where there are 2 to 6 alpha-peptide linked glutamic acid residues attached to a peptide glutamyl residue by an isopeptide bond. For a single glutamic acid attached to a peptide glutamyl residue by an isopeptide bond, see 5-glutamyl glutamic acid, RESID:AA0612." []
synonym: "gamma-glutamylpolyglutamic acid" BROAD []
synonym: "go: GO:0018095" EXACT []
synonym: "mod: MOD:00207" EXACT []
synonym: "resid: AA0202" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: O=C[C@H](CCC(=O)N[C@H](C(=O)[O-])CCC(=O)[O-])[NH3+]
l_bond_atoms: N9
l_displaced_atoms: H9
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:AA0350
name: O3-(riboflavin phosphoryl)-L-serine
def: "This modification is predicted for proteins homologous to Na(+)-translocating NADH:quinone oxidoreductase B and C chains in certain organisms where the position corresponding to O3-(ribofavin phosphoryl)-threonine instead encodes serine." []
synonym: "(R)-2-amino-3-(riboflavin 5'-hydrogen phosphonoxy)propanoic acid" BROAD []
synonym: "O3-seryl FMN" BROAD []
synonym: "O3-seryl flavin mononucleotide" BROAD []
synonym: "go: GO:0050741" EXACT []
synonym: "mod: MOD:00355" EXACT []
synonym: "resid: AA0350" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: O=c1[nH]c(=O)c2c([nH]1)n(C[C@@H]([C@@H]([C@@H](CO[P@@](=O)(OC[C@@H](C(=O)O)[NH3+])[O-])O)O)O)c1=C[C@H](C(=Cc1n2)C)C
l_bond_atoms: N30-1
l_displaced_atoms: H30
l_displaced_atoms: H30+1
r_bond_atoms: C27
r_displaced_atoms: O29
r_displaced_atoms: H29

[Term]
id: BpForms:protein:AA0539
name: N-formyl-L-glutamic acid
synonym: "(2S)-2-(formylamino)pentanedioic acid" BROAD []
synonym: "2-(formylazanyl)pentanedioic acid" BROAD []
synonym: "2-formamidopentanedioic acid" BROAD []
synonym: "2-formylaminopentanedioic acid" BROAD []
synonym: "mod: MOD:01807" EXACT []
synonym: "resid: AA0539" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: O=CN[C@@H](CCC(=O)[O-])C=O
l_bond_atoms: N3
l_displaced_atoms: H3
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:AA0297
name: O-(phosphoglycosyl-D-mannose-1-phosphoryl)-L-serine
def: "Mannose oligosaccharides and short phosphoglycan chains may be attached to the mannose 1-phosphate at the 2 position. See also RESID:AA0154, RESID:AA0208, RESID:AA0209, RESID:AA0210, RESID:AA0291, RESID:AA0296, RESID:AA0397, RESID:AA0398, RESID:AA0400, RESID:AA0402, RESID:AA0404, RESID:AA0406, and RESID:AA0422 for other O-glycosylated serines. Generating Enzyme: GDP-mannose:serine-protein mannose-1-phosphotransferase (EC 2.7.8.-)." []
synonym: "O-(alpha-D-mannosyl-1-phosphoryl)-L-serine" BROAD []
synonym: "O-[alpha-D-mannopyranosyloxy(hydroxy)phosphoryl]-L-serine" BROAD []
synonym: "O3-(D-mannose-1-phosphoryl)-L-serine" BROAD []
synonym: "O3-L-serine alpha-D-mannopyranose 1-phosphodiester" BROAD []
synonym: "go: GO:0018426" EXACT []
synonym: "mod: MOD:00302" EXACT []
synonym: "resid: AA0297" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC[C@H]1O[C@H](OP(=O)(OC[C@@H](C(=O)O)[NH3+])[O-])[C@H]([C@H]([C@@H]1O)O)O
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C15
r_displaced_atoms: O17
r_displaced_atoms: H17

[Term]
id: BpForms:protein:AA0215
name: 4-hydroxy-L-arginine
def: "The stereochemistry for the second chiral center has not been resolved. The (2S,4R) diastereomer is shown." []
synonym: "(2S,4Xi)-2-amino-5-[(diaminomethylidene)amino]-4-hydroxypentanoic acid" BROAD []
synonym: "2-amino-5-(carbamimidamido)-4-hydroxypentanoic acid [tautomer]" BROAD []
synonym: "2-amino-5-[(aminoiminomethyl)amino]-4-hydroxypentanoic acid [tautomer]" BROAD []
synonym: "2-amino-5-guanidino-4-hydroxypentanoic acid" BROAD []
synonym: "C(gamma)-hydroxyarginine" BROAD []
synonym: "R" BROAD []
synonym: "[amino-[[(2R,4S)-4-amino-2,5-dihydroxy-5-oxo-pentyl]amino]methylidene]azanium" BROAD []
synonym: "amino{[(2R,4S)-4-amino-2,5-dihydroxy-5-oxopentyl]amino}methaniminium" BROAD []
synonym: "c-gamma-hydroxy arginine" BROAD []
synonym: "cas: 2524-31-4" EXACT []
synonym: "gamma-hydroxyarginine" BROAD []
synonym: "go: GO:0018102" EXACT []
synonym: "mod: MOD:00220" EXACT []
synonym: "pdb-ccd: ARO" EXACT []
synonym: "pdb.ligand: ARO" EXACT []
synonym: "resid: AA0215" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: O[C@H](C[C@@H](C(=O)O)[NH3+])C[NH+]=C(N)N
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0287
name: N6-pyruvic acid 2-iminyl-L-lysine
synonym: "(2S)-2-amino-6-([1-carboxyethylidene]amino)hexanoic acid" BROAD []
synonym: "(2S)-2-azanyl-6-[(E)-(1-oxidanyl-1-oxidanylidene-propan-2-ylidene)amino]hexanoic acid" BROAD []
synonym: "(2s)-2-amino-6-[(1-hydroxy-1-oxo-propan-2-ylidene)amino]hexanoic acid" BROAD []
synonym: "(E)-N~6~-(1-carboxyethylidene)-L-lysine" BROAD []
synonym: "K" BROAD []
synonym: "go: GO:0018308" EXACT []
synonym: "mod: MOD:00292" EXACT []
synonym: "pdb-ccd: KPI" EXACT []
synonym: "pdb.ligand: KPI" EXACT []
synonym: "resid: AA0287" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O=C[C@H](CCCC[NH2+][C@@H](C(=O)[O-])C)[NH3+]
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:AA0220
name: S-(6-FMN)-L-cysteine
def: "The keyword "phosphoprotein" is not used with flavin modifications linked through the flavin. Generating Enzyme: autocatalytic." []
synonym: "(R)-2-amino-3-[6-riboflavin 5'-dihydrogen phosphate]sulfanylpropanoic acid" BROAD []
synonym: "6-[S-cysteinyl]FMN" BROAD []
synonym: "6-[S-cysteinyl]flavin mononucleotide" BROAD []
synonym: "go: GO:0018310" EXACT []
synonym: "mod: MOD:00225" EXACT []
synonym: "pdb.ligand: FMN" EXACT []
synonym: "resid: AA0220" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C1NC(=O)[C@@H]2C(=N1)N(C[C@@H]([C@@H]([C@@H](COP(=O)([O-])[O-])O)O)O)c1c(N2)c(SC[C@@H](C(=O)O)[NH3+])c(c(c1)C)C
l_bond_atoms: N38-1
l_displaced_atoms: H38
l_displaced_atoms: H38+1
r_bond_atoms: C35
r_displaced_atoms: O37
r_displaced_atoms: H37

[Term]
id: BpForms:protein:AA0170
name: L-glutamyl 5-glycerylphosphorylethanolamine
def: "5-Glutamyl glycerylphosphorylethanolamine appears to occur uniquely in translation elongation factor eEF-1 alpha chains. It is known to be a modification of glutamic acid. The stereochemistry of the glycerol phosphate has not been determined. The sn-3 form is shown. It has been established that is possible for the glycerol group to be secondarily modified by conjugation with long chain fatty acids, but probably not with inositol-containing lipids or glycolipids. The predominant soluble form is not lipidated, and the modified protein does not appear to be membrane associated." []
synonym: "(S)-2-amino-5-[2-([([2,3-dihydroxypropyl]oxy)(hydroxy)phosphoryl]oxy)ethyl]amino-5-oxopentanoic acid" BROAD []
synonym: "L-glutamyl 5-glycerophosphoethanolamine" BROAD []
synonym: "L-glutamyl 5-glycerophosphorylethanolamine" BROAD []
synonym: "L-glutamyl 5-glycerylphosphorylethanolamine" BROAD []
synonym: "cas: 1190-00-7" EXACT []
synonym: "go: GO:0018072" EXACT []
synonym: "mod: MOD:00179" EXACT []
synonym: "resid: AA0170" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: OC[C@H](COP(=O)(OCCNC(=O)CC[C@@H](C(=O)O)[NH3+])[O-])O
l_bond_atoms: N22-1
l_displaced_atoms: H22
l_displaced_atoms: H22+1
r_bond_atoms: C19
r_displaced_atoms: O21
r_displaced_atoms: H21

[Term]
id: BpForms:protein:AA0021
name: N-formyl-L-methionine
def: "N-formylmethionine is translated for the initiator codon in bacteria, and there are different tRNA's with specific tRNA synthases for the initiator N-formylmethionine and the elongation methionine forms. In eukaryotic organelles there is only one tRNA for methionine. A portion of the Met-tRNA is N-formylated by mitochondrion specific methionyl-tRNA formyltransferase and recruited by mitochondrial translation initiation factor 2. As an aldehyde, the formyl group readily undergoes hydration. For the hydrated form N-(dihydroxymethyl)-L-methionine of this residue, see RESID:AA0493. Although appropriate, the keyword "thioether bond" normally does not appear for this amino acid. Generating Enzyme: methionine--tRNA ligase (EC 6.1.1.10); methionyl-tRNA formyltransferase (EC 2.1.2.9)." []
synonym: "(2S)-2-formamido-4-methylsulfanyl-butanoic acid" BROAD []
synonym: "(2S)-2-formylamino-4-(methylsulfanyl)butanoic acid" BROAD []
synonym: "2-formamido-4-(methylsulfanyl)butanoic acid" BROAD []
synonym: "2-formylamino-4-(methylthio)butanoic acid" BROAD []
synonym: "2-formylazanyl-4-(methylsulfanyl)butanoic acid" BROAD []
synonym: "M" BROAD []
synonym: "N-formyl-L-methionine" BROAD []
synonym: "cas: 4289-98-9" EXACT []
synonym: "chebi: CHEBI:49298" EXACT []
synonym: "mod: MOD:00030" EXACT []
synonym: "mod: MOD:00482" EXACT []
synonym: "n-formylmethionine" BROAD []
synonym: "pdb-ccd: FME" EXACT []
synonym: "pdb.ligand: FME" EXACT []
synonym: "resid: AA0021" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: CSCC[C@@H](C(=O)O)NC=O
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0462
name: 3-hydroxy-L-phenylalanine
synonym: "(2S,3S)-2-amino-3-hydroxy-3-phenylpropanoic acid" BROAD []
synonym: "3-hydoxyphenylalanine" BROAD []
synonym: "3-phenyl-L-serine" BROAD []
synonym: "L-threo-3-phenylserine" BROAD []
synonym: "beta-hydroxyphenylalanine" BROAD []
synonym: "beta-phenylserine" BROAD []
synonym: "cas: 1078-17-7" EXACT []
synonym: "chebi: CHEBI:16795" EXACT []
synonym: "mod: MOD:01385" EXACT []
synonym: "resid: AA0462" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: O[C@H]([C@@H](C(=O)O)N)c1ccccc1
l_bond_atoms: N9
l_displaced_atoms: H9
r_bond_atoms: C6
r_displaced_atoms: O8
r_displaced_atoms: H8

[Term]
id: BpForms:protein:AA0034
name: S-phospho-L-cysteine
synonym: "(2R)-2-amino-3-(phosphonosulfanyl)propanoic acid" BROAD []
synonym: "(2R)-2-amino-3-phosphonosulfanyl-propanoic acid" BROAD []
synonym: "2-azanyl-3-(phosphonosulfanyl)propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-phosphono-L-cysteine" BROAD []
synonym: "S-phosphonocysteine" BROAD []
synonym: "S3-phosphocysteine" BROAD []
synonym: "cas: 115562-30-6" EXACT []
synonym: "chebi: CHEBI:61956" EXACT []
synonym: "cysteine phosphate thioester" BROAD []
synonym: "go: GO:0018218" EXACT []
synonym: "mod: MOD:00043" EXACT []
synonym: "pdb-ccd: CSP" EXACT []
synonym: "pdb.ligand: CSP" EXACT []
synonym: "resid: AA0034" EXACT []
synonym: "s-phosphocysteine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC(=O)[C@H](CSP(=O)([O-])[O-])[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0054
name: N-acetyl-L-valine
synonym: "(2S)-2-acetamido-3-methylbutanoic acid" BROAD []
synonym: "2-acetylamino-3-methylbutanoic acid" BROAD []
synonym: "2-acetylazanyl-3-methylbutanoic acid" BROAD []
synonym: "N-acetylvaline" BROAD []
synonym: "cas: 96-81-1" EXACT []
synonym: "chebi: CHEBI:21565" EXACT []
synonym: "go: GO:0018001" EXACT []
synonym: "mod: MOD:00063" EXACT []
synonym: "resid: AA0054" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:V ! L-valine
structure: OC[C@H](C(C)C)NC(=O)C
l_bond_atoms: N8
l_displaced_atoms: H8

[Term]
id: BpForms:protein:AA0195
name: D-serine
def: "Generating Enzyme: protein-serine epimerase (EC 5.1.1.16)." []
synonym: "(R)-2-amino-3-hydroxypropanoic acid" BROAD []
synonym: "cas: 312-84-5" EXACT []
synonym: "chebi: CHEBI:29998" EXACT []
synonym: "go: GO:0019126" EXACT []
synonym: "mod: MOD:00202" EXACT []
synonym: "mod: MOD:00891" EXACT []
synonym: "pdb.ligand: DSN" EXACT []
synonym: "resid: AA0195" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC[C@H](C(=O)O)[NH3+]
l_bond_atoms: N8-1
l_displaced_atoms: H8
l_displaced_atoms: H8+1
r_bond_atoms: C5
r_displaced_atoms: O7
r_displaced_atoms: H7

[Term]
id: BpForms:protein:AA0336
name: N-methyl-L-isoleucine
def: "This modification is predicted for proteins homologous to pilin in certain organisms where the position corresponding to N-methylphenylalanine instead encodes isoleucine. Polypeptides with monomethylated amino terminals can undergo premature cleavage during the coupling step of an Edman degradation. This can result in "preview" with both a residue and the following residue being seen from the first step on through a sequence. Generating Enzyme: prepilin peptidase (EC 3.4.23.43)." []
synonym: "(2S,3S)-2-methylamino-3-methylpentanoic acid" BROAD []
synonym: "(2S,3S)-3-methyl-2-methylamino-pentanoic acid" BROAD []
synonym: "I" BROAD []
synonym: "N-methyl-L-isoleucine" BROAD []
synonym: "N-methylisoleucine" BROAD []
synonym: "cas: 4125-98-8" EXACT []
synonym: "go: GO:0046895" EXACT []
synonym: "mod: MOD:00341" EXACT []
synonym: "n-methyl-isoleucine" BROAD []
synonym: "pdb-ccd: IML" EXACT []
synonym: "pdb.ligand: IML" EXACT []
synonym: "resid: AA0336" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:I ! L-isoleucine
structure: CC[C@@H]([C@@H](C(=O)O)[NH2+]C)C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0361
name: O-sulfo-L-serine
synonym: "(2S)-2-amino-3-(sulfooxy)propanoic acid" BROAD []
synonym: "(2S)-2-amino-3-sulfooxy-propanoic acid" BROAD []
synonym: "2-amino-3-hydroxypropanoic acid 3-sulfate" BROAD []
synonym: "O-sulfo-L-serine" BROAD []
synonym: "O3-sulfonoserine" BROAD []
synonym: "O3-sulfoserine" BROAD []
synonym: "S" BROAD []
synonym: "cas: 626-69-7" EXACT []
synonym: "go: GO:0050984" EXACT []
synonym: "mod: MOD:00366" EXACT []
synonym: "o-sulfo-l-serine" BROAD []
synonym: "pdb-ccd: OSE" EXACT []
synonym: "pdb.ligand: OSE" EXACT []
synonym: "resid: AA0361" EXACT []
synonym: "serine sulfate ester" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC(=O)[C@H](COS(=O)(=O)[O-])[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0095
name: L-proline amide
def: "Generating Enzyme: peptidylglycine monooxygenase (EC 1.14.17.3)." []
synonym: "(2S)-pyrrolidine-2-carboxamide" BROAD []
synonym: "L-prolinamide" BROAD []
synonym: "P" BROAD []
synonym: "cas: 7531-52-4" EXACT []
synonym: "chebi: CHEBI:21374" EXACT []
synonym: "go: GO:0018048" EXACT []
synonym: "l-prolinamide" BROAD []
synonym: "mod: MOD:00104" EXACT []
synonym: "pdb-ccd: LPD" EXACT []
synonym: "pdb.ligand: NH2" EXACT []
synonym: "prolinamide" BROAD []
synonym: "resid: AA0095" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: NC(=O)[C@@H]1CCC[NH2+]1
l_bond_atoms: N1
l_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0477
name: L-lysyl-poly(ADP-ribose)
def: "The alpha form is presented. The keyword "phosphoprotein" is not used with ADP-ribosylation. Generating Enzyme: NAD+ ADP-ribosyltransferase (EC 2.4.2.30)." []
synonym: "cas: 26656-46-2" EXACT []
synonym: "mod: MOD:01400" EXACT []
synonym: "poly[2'-adenosine 5'-(trihydrogen diphosphate) 5'->5'-ester with 1alpha-D-ribofuranosyl] (2S)-2,6-diaminohexanoate" BROAD []
synonym: "resid: AA0477" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+]CCCC[C@@H](C(=O)O[C@H]1O[C@@H]([C@H]([C@H]1O)O)CO[P@](=O)(O[P@@](=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1NC=N[C@H]2N)[O-])[O-])[NH3+]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1

[Term]
id: BpForms:protein:AA0342
name: 2-(S-L-cysteinyl)-D-allo-threonine
def: "The D-stereoisomer of the 2-S-cysteinyl substituted threonine has S configuration. The second chiral center of the threonine is not inverted from the L-threo diastereomer (J.C. Vederas, private communication, 2003), and is thus D-allo." []
synonym: "(2R,5S,6R)-2,5-diamino-5-carboxy-6-hydroxy-4-thiaheptanoic acid" BROAD []
synonym: "(2S,3R)-2-amino-2-[(2R)-2-amino-2-carboxyethyl]sulfanyl-3-hydroxybutanoic acid" BROAD []
synonym: "alpha-(L-cystein-S-yl)-D-allo-threonine" BROAD []
synonym: "go: GO:0046926" EXACT []
synonym: "mod: MOD:00347" EXACT []
synonym: "resid: AA0342" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CS[C@](C(=O)O)([C@H](O)C)N)[NH3+]
l_bond_atoms: N15
l_displaced_atoms: H15
r_bond_atoms: C8
r_displaced_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:protein:AA0026
name: (2S,3R)-3-hydroxyasparagine
def: "This diastereomeric form has been found in the EGF domain of many proteins. For the (2S,3S)-diastereomer, see RESID:AA0478. The PDB group code includes models with both the (2S,3R) and the (2S,3S) stereoconfiguration. The Enzyme Commission has not yet distinguished the different stereospecific enzyme activities. Generating Enzyme: peptide-aspartate beta-dioxygenase (EC 1.14.11.16)." []
synonym: "(2S,3R)-2,4-diamino-3-hydroxy-4-oxobutanoic acid" BROAD []
synonym: "(2S,3R)-2-amino-3-hydroxy-4-butanediamic acid" BROAD []
synonym: "(2S,3S)-2,4-diamino-3-hydroxy-4-oxo-butanoic acid" BROAD []
synonym: "(3S)-3-hydroxy-L-asparagine" BROAD []
synonym: "2-azanyl-3-hydroxy-4-butanediamic acid" BROAD []
synonym: "L-erythro-beta-hydroxyasparagine" BROAD []
synonym: "N" BROAD []
synonym: "beta-hydroxyasparagine" BROAD []
synonym: "cas: 20790-74-3" EXACT []
synonym: "go: GO:0018376" EXACT []
synonym: "mod: MOD:00035" EXACT []
synonym: "pdb-ccd: AHB" EXACT []
synonym: "pdb.ligand: AHB" EXACT []
synonym: "resid: AA0026" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: OC(=O)[C@H]([C@H](C(=O)N)O)N
l_bond_atoms: N12
l_displaced_atoms: H12
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0535
name: N,N,N-trimethyl-L-serine
def: "Consult FAQ at http://pir.georgetown.edu/resid/faq.shtml#q12 concerning calculation of the difference formula. Generating Enzyme: N-terminal RCC1 methyltransferase (EC 2.1.1.-)." []
synonym: "(1S)-1-carboxy-2-hydroxy-N,N,N-trimethylethanaminium" BROAD []
synonym: "(1S)-1-carboxy-2-hydroxy-N,N,N-trimethylethanazanium" BROAD []
synonym: "(2S)-2-trimethylammonio-3-hydroxypropanoic acid" BROAD []
synonym: "N,N,N-trimethylserine cation" BROAD []
synonym: "N,N,N-trimethylserinium" BROAD []
synonym: "go: GO:0035570" EXACT []
synonym: "mod: MOD:01784" EXACT []
synonym: "resid: AA0535" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC[C@H]([N](C)(C)C)C(=O)O
r_bond_atoms: C9
r_displaced_atoms: O11
r_displaced_atoms: H11

[Term]
id: BpForms:protein:AA0498
name: O-cholinephosphoryl-L-serine
def: "In Neisseria this is produced as a secondary modification by methylation of O-(2-aminoethylphosphoryl)-L-serine. See RESID:AA0497." []
synonym: "2-[([(2S)-2-amino-2-carboxyethoxy][hydroxy]phosphoryl)oxy]-N,N,N-trimethylethanaminium" BROAD []
synonym: "2-[([(2S)-2-azanyl-2-carboxyethoxy][hydroxy]phosphoryl)oxy]-N,N,N-trimethylethanazanium" BROAD []
synonym: "O3-[(2-[trimethylammonio]ethyl)phosphoryl]-L-serine" BROAD []
synonym: "O3-phosphocholine-L-serine" BROAD []
synonym: "mod: MOD:01588" EXACT []
synonym: "resid: AA0498" EXACT []
synonym: "serine choline phosphate" BROAD []
synonym: "serine choline phosphodiester" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: N[C@H](C(=O)O)CO[P@@](=O)(OCC[N](C)(C)C)O
l_bond_atoms: N1
l_displaced_atoms: H1
r_bond_atoms: C4
r_displaced_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:protein:AA0053
name: N-acetyl-L-tyrosine
synonym: "(2S)-2-acetamido-3-(4-hydoxyphenyl)propanoic acid" BROAD []
synonym: "(2S)-2-acetamido-3-(4-hydroxyphenyl)propanoic acid" BROAD []
synonym: "2-acetylamino-3-(4-hydoxyphenyl)propanoic acid" BROAD []
synonym: "2-acetylazanyl-3-(4-hydoxyphenyl)propanoic acid" BROAD []
synonym: "N-acetyl-L-tyrosine" BROAD []
synonym: "N-acetyltyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "cas: 537-55-3" EXACT []
synonym: "chebi: CHEBI:21563" EXACT []
synonym: "go: GO:0018000" EXACT []
synonym: "mod: MOD:00062" EXACT []
synonym: "n-acetyl-l-tyrosine" BROAD []
synonym: "pdb-ccd: 3NF" EXACT []
synonym: "resid: AA0053" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: OC(=O)[C@H](Cc1ccc(cc1)O)NC(=O)C
l_bond_atoms: N14
l_displaced_atoms: H14
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0122
name: L-2-aminoadipic acid
def: "The oxidation of allysine to 2-aminoadipic acid is not well characterized. Generating Enzyme: protein-lysine 6-oxidase (EC 1.4.3.13)." []
synonym: "(2S)-2-aminohexanedioic acid" BROAD []
synonym: "2-amino-1,4-butanedicarboxylic acid" BROAD []
synonym: "2-aminohexanedioic acid" BROAD []
synonym: "L-alpha-aminoadipic acid" BROAD []
synonym: "X" BROAD []
synonym: "cas: 1118-90-7" EXACT []
synonym: "go: GO:0019728" EXACT []
synonym: "mod: MOD:00131" EXACT []
synonym: "pdb-ccd: UN1" EXACT []
synonym: "resid: AA0122" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O=C[C@H](CCCC(=O)[O-])[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:AA0359
name: 5-hydroxy-N6,N6,N6-trimethyl-L-lysine
def: "Hydroxylation at C-5 is assumed. Neither the position of the hydroxylation nor the stereochemistry for the second chiral center it produces have been determined. The (2S,5R) diastereomer is shown. Consult FAQ at http://pir.georgetown.edu/resid/faq.shtml#q12 concerning calculation of the difference formula." []
synonym: "(2R,5Xi)-5-amino-5-carboxy-2-hydroxy-N,N,N-trimethylpentan-1-aminium" BROAD []
synonym: "(2Xi,5S)-5-amino-5-carboxy-2-hydroxy-N,N,N-trimethylpentanaminium" BROAD []
synonym: "(2Xi,5S)-5-azanyl-5-carboxy-2-hydroxy-N,N,N-trimethylpentanazanium" BROAD []
synonym: "5-hydroxy-N(zeta)-trimethyllysine" BROAD []
synonym: "5-hydroxy-N6,N6,N6-trimethyllysin-N6-ium" BROAD []
synonym: "5-hydroxy-N6,N6,N6-trimethyllysine cation" BROAD []
synonym: "alpha-amino-epsilon-dimethylamino-delta-hydroxycaproic acid" BROAD []
synonym: "delta-hydroxy-epsilon-N,N,N-trimethyllysine" BROAD []
synonym: "go: GO:0050838" EXACT []
synonym: "lysine derivative Lys(z)" BROAD []
synonym: "mod: MOD:00364" EXACT []
synonym: "resid: AA0359" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O[C@@H](C[N](C)(C)C)CC[C@@H](C(=O)O)N
l_bond_atoms: N16
l_displaced_atoms: H16
r_bond_atoms: C13
r_displaced_atoms: O15
r_displaced_atoms: H15

[Term]
id: BpForms:protein:AA0035
name: 1'-phospho-L-histidine
def: "In the older biochemical literature this is usually called histidine-3-phosphate. See also RESID:AA0036. The crystallographic designation for the substituted nitrogen is epsilon-2, E2. Generating Enzyme: protein-histidine tele-kinase (EC 2.7.3.12)." []
synonym: "(2S)-2-amino-3-(1-phosphono-1H-imidazol-4-yl)propanoic acid" BROAD []
synonym: "(2S)-2-amino-3-(1-phosphonoimidazol-4-yl)propanoic acid" BROAD []
synonym: "1-phosphono-L-histidine" BROAD []
synonym: "2-azanyl-3-(1-phosphono-1H-imidazol-4-yl)propanoic acid" BROAD []
synonym: "H" BROAD []
synonym: "N(tau)-phosphohistidine" BROAD []
synonym: "N1-phosphonohistidine" BROAD []
synonym: "NE2-phosphonohistidine" BROAD []
synonym: "cas: 5789-14-0" EXACT []
synonym: "go: GO:0018106" EXACT []
synonym: "histidine-3-phosphate [misnomer]" BROAD []
synonym: "histidine-N(epsilon)-phosphate" BROAD []
synonym: "histidine-N1'-phosphate" BROAD []
synonym: "mod: MOD:00044" EXACT []
synonym: "n1-phosphonohistidine" BROAD []
synonym: "pdb-ccd: NEP" EXACT []
synonym: "pdb.ligand: NEP" EXACT []
synonym: "resid: AA0035" EXACT []
synonym: "tele-phosphohistidine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: OC(=O)[C@@H](Cc1ncn(c1)P(=O)([O-])[O-])[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0540
name: L-cysteine 3-hydroxypyridine-2,5-dicarboxylic acid
def: "Formed by the metathesis of two didehydroalanines made from serines, condensation with a cysteine carbonyl and dehydrogenation. This modification is currently represented in the PDB as part of the HET group for the entire molecule of nosiheptide." []
synonym: "6-[(1R)-1-amino-2-sulfanylethyl]-3-hydroxypyridine-2,5-dicarboxylic acid" BROAD []
synonym: "6-[1-azanyl-2-sulfanylethyl]-3-hydroxypyridine-2,5-dicarboxylic acid" BROAD []
synonym: "mod: MOD:01814" EXACT []
synonym: "pdb.ligand: MH6" EXACT []
synonym: "resid: AA0540" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: SC[C@H](c1nc(C(=O)O)c(cc1C=O)[O-])[NH3+]
l_bond_atoms: N6
r_bond_atoms: C8
r_displaced_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:protein:AA0510
name: 3',5'-diiodo-L-tyrosine
synonym: "(2S)-2-amino-3-(4-hydroxy-3,5-diiodo-phenyl)propanoic acid" BROAD []
synonym: "(2S)-2-amino-3-(4-hydroxy-3,5-diiodophenyl)propanoic acid" BROAD []
synonym: "3,5-diiodo-L-tyrosine" BROAD []
synonym: "3,5-diiodotyrosine" BROAD []
synonym: "DIT" BROAD []
synonym: "Y" BROAD []
synonym: "cas: 300-39-0" EXACT []
synonym: "chebi: CHEBI:15768" EXACT []
synonym: "iodogorgoic acid" BROAD []
synonym: "mod: MOD:01613" EXACT []
synonym: "pdb-ccd: TYI" EXACT []
synonym: "pdb.ligand: TYI" EXACT []
synonym: "resid: AA0510" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [NH3+][C@H](C(=O)O)Cc1cc(I)c(c(c1)I)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0097
name: L-threonine amide
def: "Generating Enzyme: peptidylglycine monooxygenase (EC 1.14.17.3)." []
synonym: "(2S,3R)-2-amino-3-hydroxy-butanamide" BROAD []
synonym: "(2S,3R)-2-amino-3-hydroxybutanamide" BROAD []
synonym: "(2s,3r)-2-amino-3-hydroxy-butanamide" BROAD []
synonym: "cas: 2280-40-2" EXACT []
synonym: "chebi: CHEBI:21404" EXACT []
synonym: "go: GO:0018050" EXACT []
synonym: "mod: MOD:00106" EXACT []
synonym: "pdb-ccd: 9AT" EXACT []
synonym: "pdb.ligand: NH2" EXACT []
synonym: "resid: AA0097" EXACT []
synonym: "threoninamide" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: C[C@H]([C@H]([NH3+])C(=O)N)O
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1

[Term]
id: BpForms:protein:AA0055
name: N6-acetyl-L-lysine
def: "Generating Enzyme: histone acetyltransferase (EC 2.3.1.48); tubulin N-acetyltransferase (EC 2.3.1.108); protein lysine N6-acetyltransferase (EC 2.3.1.-)." []
synonym: "(2S)-6-acetamido-2-amino-hexanoic acid" BROAD []
synonym: "(2S)-6-acetamido-2-aminohexanoic acid" BROAD []
synonym: "6-acetylamino-2-aminohexanoic acid" BROAD []
synonym: "6-acetylazanyl-2-aminohexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "N(zeta)-acetyllysine" BROAD []
synonym: "N~6~-acetyl-L-lysine" BROAD []
synonym: "cas: 692-04-6" EXACT []
synonym: "chebi: CHEBI:61930" EXACT []
synonym: "epsilon-acetyllysine" BROAD []
synonym: "go: GO:0018003" EXACT []
synonym: "mod: MOD:00064" EXACT []
synonym: "n(6)-acetyllysine" BROAD []
synonym: "pdb-ccd: ALY" EXACT []
synonym: "pdb.ligand: ALY" EXACT []
synonym: "resid: AA0055" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: CC(=O)NCCCC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:protein:AA0052
name: N-acetyl-L-threonine
synonym: "(2S,3R)-2-acetamido-3-hydroxy-butanoic acid" BROAD []
synonym: "(2S,3R)-2-acetamido-3-hydroxybutanoic acid" BROAD []
synonym: "2-acetylamino-3-hydroxybutanoic acid" BROAD []
synonym: "2-acetylazanyl-3-hydroxybutanoic acid" BROAD []
synonym: "N-acetyl-L-threonine" BROAD []
synonym: "N-acetylthreonine" BROAD []
synonym: "N-methylcarbonylthreonine" BROAD []
synonym: "T" BROAD []
synonym: "cas: 17093-74-2" EXACT []
synonym: "chebi: CHEBI:45826" EXACT []
synonym: "go: GO:0017199" EXACT []
synonym: "mod: MOD:00061" EXACT []
synonym: "n-methylcarbonylthreonine" BROAD []
synonym: "pdb-ccd: THC" EXACT []
synonym: "resid: AA0052" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: CC(=O)N[C@H](C(=O)O)[C@H](O)C
l_bond_atoms: N4
l_displaced_atoms: H4
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0093
name: L-methionine amide
def: "Although appropriate, the keyword "thioether bond" normally does not appear for this amino acid. Generating Enzyme: peptidylglycine monooxygenase (EC 1.14.17.3)." []
synonym: "(2S)-2-amino-4-(methylsulfanyl)butanamide" BROAD []
synonym: "2-amino-4-(methylthio)butanamide" BROAD []
synonym: "cas: 4510-08-1" EXACT []
synonym: "chebi: CHEBI:21362" EXACT []
synonym: "go: GO:0018046" EXACT []
synonym: "methioninamide" BROAD []
synonym: "mod: MOD:00102" EXACT []
synonym: "pdb.ligand: NH2" EXACT []
synonym: "resid: AA0093" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: CSCC[C@H]([NH3+])C(=O)N
l_bond_atoms: N7-1
l_displaced_atoms: H7
l_displaced_atoms: H7+1

[Term]
id: BpForms:protein:AA0499
name: O-2,4-diacetamido-2,4-dideoxyglucosyl-L-serine
def: "It is not clear whether or not there is a chemical difference in the glycosylation of the two varieties of strain MS11 used in these experiments. For O-(2,4-diacetamido-2,4,6-trideoxy-D-glucosyl)-L-serine, see RESID:AA0607." []
synonym: "(2S)-2-amino-3-[(2,4-diacetamido-2,4-dideoxy-beta-D-glucopyranosyl)oxy]propanoic acid" BROAD []
synonym: "DADDGlc" BROAD []
synonym: "O-(2,4-diacetamido-2,4-dideoxy-beta-D-glucopyranosyl)-L-serine" BROAD []
synonym: "O-[2,4-bis(acetylamino)]glucosyl-L-serine" BROAD []
synonym: "O-seryl-beta-2,4-bis(acetylamino)glucoside" BROAD []
synonym: "O3-(2,4-diacetamido-2,4-dideoxy-beta-D-glucopyranosyl)-L-serine" BROAD []
synonym: "mod: MOD:01589" EXACT []
synonym: "pdb.ligand: DT6" EXACT []
synonym: "resid: AA0499" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC[C@H]1O[C@@H](OC[C@@H](C(=O)O)[NH3+])[C@@H]([C@H]([C@@H]1NC(=O)C)O)NC(=O)C
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:AA0538
name: N,N-dimethyl-L-leucine
synonym: "(2S)-2-(dimethylamino)-4-methylpentanoic acid" BROAD []
synonym: "2-(dimethylamino)-4-methylvaleric acid" BROAD []
synonym: "2-(dimethylazanyl)-4-methylpentanoic acid" BROAD []
synonym: "N,N-dimethylleucine" BROAD []
synonym: "mod: MOD:01806" EXACT []
synonym: "resid: AA0538" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: CC(C[C@H]([NH+](C)C)C(=O)O)C
r_bond_atoms: C10
r_displaced_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:protein:AA0532
name: N6-butanoyl-L-lysine
def: "A metabolic source for butanoic acid in the nucleus is not evident, and a responsible generating enzyme activity is not identified." []
synonym: "(2S)-2-amino-6-(butanoylamino)hexanoic acid" BROAD []
synonym: "(2S)-2-azanyl-6-(butanoylamino)hexanoic acid" BROAD []
synonym: "2-amino-6-butyrylaminocaproic acid" BROAD []
synonym: "N(zeta)-butanoyllysine" BROAD []
synonym: "N6-(1-oxobutyl)-L-lysine" BROAD []
synonym: "N6-butyryllysine" BROAD []
synonym: "N~6~-butanoyl-L-lysine" BROAD []
synonym: "epsilon-butanoyl-L-lysine" BROAD []
synonym: "epsilon-butyryl-L-lysine" BROAD []
synonym: "mod: MOD:01781" EXACT []
synonym: "n~6~-butanoyl-l-lysine" BROAD []
synonym: "pdb-ccd: BTK" EXACT []
synonym: "pdb.ligand: BTK" EXACT []
synonym: "resid: AA0532" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: CCCC(=O)NCCCC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15
r_displaced_atoms: H15

[Term]
id: BpForms:protein:AA0332
name: S-carbamoyl-L-cysteine
def: "This modification can undergo dehydration to produce S-cyanocysteine. See RESID:AA0333. Carbamoylation of the sulfhydryl group can be artifactual, in particular when urea buffers are used." []
synonym: "(2R)-3-aminocarbonylsulfanyl-2-azanyl-propanoic acid" BROAD []
synonym: "(R)-2-amino-3-(carbamoylsulfanyl)propanoic acid" BROAD []
synonym: "2-amino-3-(aminocarbonyl)sulfanylpropanoic acid" BROAD []
synonym: "2-amino-3-(aminocarbonyl)thiopropanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-(aminocarbonyl)cysteine" BROAD []
synonym: "S-carbamoyl-L-cysteine" BROAD []
synonym: "S-carbamoylcysteine" BROAD []
synonym: "S-carbamylcysteine" BROAD []
synonym: "S-cysteinyl carbamate ester" BROAD []
synonym: "alpha-amino-beta-carbamylthiopropionic acid" BROAD []
synonym: "beta-carbamylthioalanine" BROAD []
synonym: "cas: 2072-71-1" EXACT []
synonym: "go: GO:0046891" EXACT []
synonym: "mod: MOD:00337" EXACT []
synonym: "pdb-ccd: QCS" EXACT []
synonym: "resid: AA0332" EXACT []
synonym: "s-carbamoyl-l-cysteine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: NC(=O)SC[C@@H](C(=O)O)N
l_bond_atoms: N11
l_displaced_atoms: H11
r_bond_atoms: C8
r_displaced_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:protein:AA0543
name: 2'-oxo-L-tryptophan
def: "This modification, which is not observed in other preparations of the same protein, is probably produced artifactually." []
synonym: "(2S)-2-amino-3-(2-hydroxy-1H-indol-3-yl)propanoic acid" BROAD []
synonym: "(2S)-2-amino-3-[(3S)-2-oxo-2,3-dihydro-1H-indol-3-yl]propanoic acid" BROAD []
synonym: "2-azanyl-3-[(3S)-2-oxo-2,3-dihydro-1H-indol-3-yl]propanoic acid" BROAD []
synonym: "2-hydroxy-L-tryptophan" BROAD []
synonym: "2-hydroxy-tryptophan" BROAD []
synonym: "2-oxo-L-tryptophan" BROAD []
synonym: "2-oxotryptophan" BROAD []
synonym: "W" BROAD []
synonym: "mod: MOD:01817" EXACT []
synonym: "pdb-ccd: TRO" EXACT []
synonym: "pdb.ligand: TRO" EXACT []
synonym: "resid: AA0543" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: OC(=O)[C@H](C[C@@H]1C(=O)Nc2c1cccc2)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0475
name: N6-propanoyl-L-lysine
def: "A metabolic source for propanoic acid in the nucleus is not evident; the modification would be isobaric with lactaldehyde adduct, an advanced glycation end product of artifactual nucleic acid degradation This modification has been shown to be produced by Gcn-5-related N-acetyltransferases in some bacterial systems. In eukaryotes, a metabolic source for propanoic acid in the nucleus is not evident, and a responsible generating enzyme activity is not identified. Generating Enzyme: lysine N6-acyltransferase, acetoin utilization protein AcuA (EC 2.3.1.-)." []
synonym: "(2S)-2-amino-6-(propanoylamino)hexanoic acid" BROAD []
synonym: "(2S)-2-azanyl-6-(propanoylamino)hexanoic acid" BROAD []
synonym: "2-amino-6-propionylaminocaproic acid" BROAD []
synonym: "N(zeta)-propanoyllysine" BROAD []
synonym: "N6-(1-oxopropyl)-L-lysine" BROAD []
synonym: "N6-propionyllysine" BROAD []
synonym: "N~6~-propanoyl-L-lysine" BROAD []
synonym: "cas: 1974-17-0" EXACT []
synonym: "epsilon-propanoyl-L-lysine" BROAD []
synonym: "epsilon-propionyl-L-lysine" BROAD []
synonym: "mod: MOD:01398" EXACT []
synonym: "n~6~-propanoyl-l-lysine" BROAD []
synonym: "pdb-ccd: PRK" EXACT []
synonym: "pdb.ligand: PRK" EXACT []
synonym: "resid: AA0475" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: CCC(=O)NCCCC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:AA0352
name: 1'-(8alpha-FMN)-L-histidine
def: "The arrangement of the attachment has not been completely established in some cases. The keyword "phosphoprotein" is not used with flavin modifications linked through the flavin. Generating Enzyme: autocatalytic." []
synonym: "(S)-2-amino-3-(1-[8alpha riboflavin 5'-dihydrogen phosphate]imidazol-4-yl)propanoic acid" BROAD []
synonym: "8alpha-(N(epsilon)-histidyl)FMN" BROAD []
synonym: "8alpha-(N1'-histidyl)FMN" BROAD []
synonym: "N(tau)-(8alpha-FMN)-histidine" BROAD []
synonym: "go: GO:0050743" EXACT []
synonym: "mod: MOD:00357" EXACT []
synonym: "resid: AA0352" EXACT []
synonym: "tele-(8alpha-FMN)-histidine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: O=c1[nH]c(=O)c2c([nH]1)n(C[C@@H]([C@@H]([C@@H](COP(=O)([O-])[O-])O)O)O)c1=C[C@H](C(=Cc1n2)C)Cn1cnc(c1)C[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N49-1
l_displaced_atoms: H49
l_displaced_atoms: H49+1
r_bond_atoms: C46
r_displaced_atoms: O48
r_displaced_atoms: H48

[Term]
id: BpForms:protein:AA0625
name: 2-(L-cystein-S-yl)-L-threonine
synonym: "(2R,3R)-2-amino-2-[(2R)-2-amino-2-carboxyethyl]sulfanyl-3-hydroxybutanoic acid" BROAD []
synonym: "(2R,5R,6R)-2,5-diamino-5-carboxy-6-hydroxy-4-thiaheptanoic acid" BROAD []
synonym: "alpha-(L-cystein-S-yl)-L-threonine" BROAD []
synonym: "mod: MOD:01988" EXACT []
synonym: "resid: AA0625" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CS[C@@](C(=O)O)([C@H](O)C)N)[NH3+]
l_bond_atoms: N15
l_displaced_atoms: H15
r_bond_atoms: C8
r_displaced_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:protein:AA0405
name: O-fucosyl-L-threonine
def: "See also RESID:AA0155, RESID:AA0247, RESID:AA0399, RESID:AA0401, RESID:AA0403, and RESID:AA0515 for other O-glycosylated threonines. Generating Enzyme: peptide-O-fucosyltransferase (EC 2.4.1.221)." []
synonym: "(2S,3R)-2-amino-3-(6-deoxy-alpha-D-galactopyranosyloxy)butanoic acid" BROAD []
synonym: "O-glycosylthreonine" BROAD []
synonym: "O3-fucosylthreonine" BROAD []
synonym: "mod: MOD:00813" EXACT []
synonym: "resid: AA0405" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: OC(=O)[C@H]([C@H](O[C@H]1O[C@H](C)[C@@H]([C@@H]([C@H]1O)O)O)C)[NH3+]
l_bond_atoms: N25-1
l_displaced_atoms: H25
l_displaced_atoms: H25+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0397
name: O-glucosyl-L-serine
def: "See also RESID:AA0154, RESID:AA0208, RESID:AA0209, RESID:AA0210, RESID:AA0291, RESID:AA0296, RESID:AA0297, RESID:AA0397, RESID:AA0398, RESID:AA0400, RESID:AA0402, RESID:AA0404, RESID:AA0406, and RESID:AA0422 for other O-glycosylated serines." []
synonym: "(2S)-2-amino-3-(beta-D-glucopyranosyloxy)propanoic acid" BROAD []
synonym: "O-glycosylserine" BROAD []
synonym: "O3-glucosylserine" BROAD []
synonym: "mod: MOD:00804" EXACT []
synonym: "resid: AA0397" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC[C@H]1O[C@H](OC[C@@H](C(=O)O)[NH3+])[C@@H]([C@H]([C@@H]1O)O)O
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:AA0121
name: L-allysine
def: "Generating Enzyme: protein-lysine 6-oxidase (EC 1.4.3.13)." []
synonym: "(2S)-2-amino-6-oxohexanoic acid" BROAD []
synonym: "2-amino-5-formylvaleric acid" BROAD []
synonym: "2-amino-adipic acid semialdahyde" BROAD []
synonym: "2-aminoadipate 6-semialdehyde" BROAD []
synonym: "5-formyl-norvaline" BROAD []
synonym: "6-oxonorleucine" BROAD []
synonym: "AASA" BROAD []
synonym: "alpha-amino-adipic acid delta-semialdahyde" BROAD []
synonym: "cas: 1962-83-0" EXACT []
synonym: "chebi: CHEBI:17917" EXACT []
synonym: "go: GO:0018057" EXACT []
synonym: "mod: MOD:00130" EXACT []
synonym: "resid: AA0121" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O=CCCC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:protein:AA0467
name: L-valine thiazole-4-carboxylic acid
def: "Formed by the condensation of a cysteine thiol with the carbonyl of the preceding residue and alpha-beta dehydrogenation. Generating Enzyme: peptidyl-cysteine cyclase (EC 4.2.1.-); peptidyl-thiazoline dehydrogenase (EC 1.3.-.-)." []
synonym: "2-[(1S)-1-amino-2-methylpropyl]-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "2-[1-azanyl-2-methylpropyl]-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "mod: MOD:01390" EXACT []
synonym: "pdb.ligand: BB9" EXACT []
synonym: "resid: AA0467" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:V ! L-valine
structure: [NH3+][C@H](c1scc(n1)C(=O)O)C(C)C
l_bond_atoms: N11
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:AA0061
name: N-methyl-L-alanine
def: "Polypeptides with monomethylated amino terminals can undergo premature cleavage during the coupling step of an Edman degradation. This can result in "preview" with both a residue and the following residue being seen from the first step on through a sequence. Generating Enzyme: N-terminal RCC1 methyltransferase (EC 2.1.1.-)." []
synonym: "(2S)-2-(methylamino)propanoic acid" BROAD []
synonym: "(2S)-2-methylaminopropanoic acid" BROAD []
synonym: "2-methylazanylpropanoic acid" BROAD []
synonym: "A" BROAD []
synonym: "N-methyl-L-alanine" BROAD []
synonym: "N-methylalanine" BROAD []
synonym: "cas: 3913-67-5" EXACT []
synonym: "chebi: CHEBI:61922" EXACT []
synonym: "go: GO:0018011" EXACT []
synonym: "mod: MOD:00070" EXACT []
synonym: "n-methyl-l-alanine" BROAD []
synonym: "pdb-ccd: MAA" EXACT []
synonym: "pdb.ligand: MAA" EXACT []
synonym: "resid: AA0061" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: C[C@H]([NH2+]C)C(=O)O
l_bond_atoms: N4-1
l_displaced_atoms: H4
l_displaced_atoms: H4+1
r_bond_atoms: C8
r_displaced_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:protein:AA0548
name: S-(2-aminovinyl)-L-cysteine
def: "This cross-link arises from the decarboxylation of the carboxyl-terminal portion of a lanthionine, either L-lanthionine (see RESID:AA0110) or meso-lanthionine (see RESID:AA0111). The stereochemistry of the (2-aminovinyl)-cysteine in cypemycin has not been determined. For the D stereoisomer, see RESID:AA0204. Generating Enzyme: peptidyl-cysteine dethiolase (EC 4.4.1.-); peptidyl-cysteine dehydroalanine/dehydrobutyrine ligase (EC 6.2.-.-)." []
synonym: "(2R)-2-amino-3-([(Z)-2-aminoethenyl]sulfanyl)propanoic acid" BROAD []
synonym: "(R,Z)-S-(2-aminovinyl)cysteine" BROAD []
synonym: "mod: MOD:01842" EXACT []
synonym: "resid: AA0548" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: N/C=C\SC[C@@H]([NH3+])C(=O)O
l_bond_atoms: N8-1
l_displaced_atoms: H8
l_displaced_atoms: H8+1
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:AA0257
name: N-(L-glutamyl)-L-tyrosine
def: "Generating Enzyme: tubulin--tyrosine ligase (EC 6.3.2.25)." []
synonym: "(S,S)-2-(2-aminopentanedio-1-yl)amino-3-(4-hydoxyphenyl)propanoic acid" BROAD []
synonym: "N-(L-glutamyl)-L-tyrosine" BROAD []
synonym: "chebi: CHEBI:21477" EXACT []
synonym: "go: GO:0018166" EXACT []
synonym: "mod: MOD:00262" EXACT []
synonym: "resid: AA0257" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: [O-]C(=O)CC[C@@H](C(=O)N[C@H](C(=O)[O-])Cc1ccc(cc1)O)[NH3+]
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:AA0173
name: L-bromohistidine
def: "The position of the bromine substitution is uncertain. The 2'-bromohistidine is shown." []
synonym: "go: GO:0018074" EXACT []
synonym: "mod: MOD:00182" EXACT []
synonym: "resid: AA0173" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: OC(=O)[C@@H]([NH3+])Cc1cnc([nH]1)Br
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0148
name: L-tryptophyl quinone
synonym: "(2S)-2-amino-3-(6,7-dioxo-1H-indol-3-yl)propanoic acid" BROAD []
synonym: "2-amino-3-(6,7-dioxo-6,7-dihydro-1H-indol-3-yl)-propionic acid" BROAD []
synonym: "2-amino-3-(6,7-dioxo-6,7-dihydro-1h-indol-3-yl)-propionic acid" BROAD []
synonym: "3-(6,7-dioxo-6,7-dihydro-1H-indol-3-yl)-L-alanine" BROAD []
synonym: "3-[(2S)-2-amino-2-carboxyethyl]-6,7-indolinedione" BROAD []
synonym: "N-(3-carboxy-1-oxopropyl)-L-tryptophan" BROAD []
synonym: "W" BROAD []
synonym: "cas: 73205-73-9" EXACT []
synonym: "go: GO:0019926" EXACT []
synonym: "mod: MOD:00157" EXACT []
synonym: "pdb-ccd: TRQ" EXACT []
synonym: "pdb.ligand: TRQ" EXACT []
synonym: "resid: AA0148" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: OC(=O)[C@H](Cc1c[nH]c2c1C=CC(=O)C2=O)[NH3+]
l_bond_atoms: N19-1
l_displaced_atoms: H19
l_displaced_atoms: H19+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0391
name: 2-(S-L-cysteinyl)pyruvic acid O-phosphothioketal
def: "Generating Enzyme: 3-phosphoshikimate 1-carboxyvinyltransferase (EC 2.5.1.19); UDP-N-acetylglucosamine 1-carboxyvinyltransferase (EC 2.5.1.7)." []
synonym: "(2R)-2-amino-3-[1-carboxy-1-(phosphonooxy)ethyl]sulfanylpropanoic acid" BROAD []
synonym: "(2S)-2-[(2R)-2-azanyl-3-oxidanyl-3-oxidanylidene-propyl]sulfanyl-2-phosphonooxy-propanoic acid" BROAD []
synonym: "2-([(2R)-2-amino-2-carboxyethyl]sulfanyl)-2-(phosphonooxy)propanoic acid" BROAD []
synonym: "2-([(2R)-2-azanyl-2-carboxyethyl]sulfanyl)-2-(phosphonooxy)propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-[(1S)-1-carboxy-1-(phosphonooxy)ethyl]-L-cysteine" BROAD []
synonym: "S-[1-carboxy-1-(phosphonooxy)ethyl]cysteine" BROAD []
synonym: "cysteinyl pyruvate O-phosphothioketal" BROAD []
synonym: "mod: MOD:00797" EXACT []
synonym: "pdb-ccd: QPA" EXACT []
synonym: "pdb.ligand: QPA" EXACT []
synonym: "phosphoenolpyruvate cysteine adduct" BROAD []
synonym: "phospholactoyl cysteine adduct" BROAD []
synonym: "resid: AA0391" EXACT []
synonym: "s-[(1s)-1-carboxy-1-(phosphonooxy)ethyl]-l-cysteine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CS[C@@](C(=O)[O-])(OP(=O)([O-])[O-])C)[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:AA0027
name: (2S,3R)-3-hydroxyaspartic acid
def: "This diastereomeric form has been found in the EGF domain of many proteins. For the (2S,3S)-diastereomer, see RESID:AA0579. The Enzyme Commission has not yet distinguished the different stereospecific enzyme activities. Generating Enzyme: peptide-aspartate beta-dioxygenase (EC 1.14.11.16)." []
synonym: "(2S,3R)-2-amino-3-hydroxybutanedioic acid" BROAD []
synonym: "(2S,3R)-2-azanyl-3-hydroxy-butanedioic acid" BROAD []
synonym: "(3R)-3-hydroxy-L-aspartic acid" BROAD []
synonym: "(3r)-3-hydroxy-l-aspartic acid" BROAD []
synonym: "2-amino-3-hydroxysuccinic acid" BROAD []
synonym: "2-azanyl-3-hydroxybutanedioic acid" BROAD []
synonym: "3-hydroxyaspartic acid" BROAD []
synonym: "D" BROAD []
synonym: "L-erythro-beta-hydroxyaspartic acid" BROAD []
synonym: "go: GO:0019715" EXACT []
synonym: "mod: MOD:00036" EXACT []
synonym: "pdb-ccd: BH2" EXACT []
synonym: "pdb.ligand: BH2" EXACT []
synonym: "resid: AA0027" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:D ! L-aspartic acid
structure: O=C[C@H]([C@H](C(=O)[O-])O)[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:AA0459
name: 5'-(L-tyros-5'-yl)amino-L-tyrosine
def: "This structure represents the cross-linked tyrosine portion of a four residue bis(lysine tyrosylquinone) structure which is itself part of a zinc binding complex with two histidine residues. This modification in the modeled protein has not been chemically confirmed." []
synonym: "(2S)-2-amino-3-(3-amino-4-hydroxy-phenyl)propanoic acid" BROAD []
synonym: "(2S,2'S)-3,3'-[iminobis(4-hydroxybenzene-3,1-diyl)]bis(2-aminopropanoic acid)" BROAD []
synonym: "3-amino-L-tyrosine" BROAD []
synonym: "3-amino-l-tyrosine" BROAD []
synonym: "5'-[(tyros-5'-yl)amino]tyrosine" BROAD []
synonym: "5'-tyrosyl-5'-aminotyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "bis(LTQ) linkage" BROAD []
synonym: "mod: MOD:01787" EXACT []
synonym: "pdb-ccd: TY2" EXACT []
synonym: "pdb.ligand: TY2" EXACT []
synonym: "resid: AA0459" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: OC[C@H](Cc1ccc(c(c1)Nc1cc(C[C@@H](CO)[NH3+])ccc1O)O)[NH3+]
l_bond_atoms: N12
l_displaced_atoms: H12

[Term]
id: BpForms:protein:AA0456
name: N,N,N-trimethyl-L-methionine
def: "Although appropriate, the keyword "thioether bond" normally does not appear for this amino acid. Consult FAQ at http://pir.georgetown.edu/resid/faq.shtml#q12 concerning calculation of the difference formula. Generating Enzyme: ribosomal protein L11 methyltransferase (EC 2.1.1.-)." []
synonym: "(1S)-1-carboxy-N,N,N-trimethyl-3-(methylsulfanyl)propan-1-aminium" BROAD []
synonym: "(1S)-1-carboxy-N,N,N-trimethyl-3-(methylsulfanyl)propanaminium" BROAD []
synonym: "(1S)-1-carboxy-N,N,N-trimethyl-3-(methylsulfanyl)propanazanium" BROAD []
synonym: "2-trimethylammonio-4-(methylthio)butanoic acid" BROAD []
synonym: "N,N,N-trimethylmethionine cation" BROAD []
synonym: "N,N,N-trimethylmethioninium" BROAD []
synonym: "go: GO:0018014" EXACT []
synonym: "mod: MOD:01382" EXACT []
synonym: "n,n,n-trimethylmethionine" BROAD []
synonym: "pdb-ccd: 4MM" EXACT []
synonym: "pdb.ligand: 4MM" EXACT []
synonym: "resid: AA0456" EXACT []
synonym: "trimethyl-[(2S)-4-methylsulfanyl-1-oxidanyl-1-oxidanylidene-butan-2-yl]azanium" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: CSCC[C@H]([N](C)(C)C)C(=O)O
r_bond_atoms: C11
r_displaced_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:protein:AA0192
name: D-allo-isoleucine
def: "Generating Enzyme: protein-isoleucine 2-epimerase (EC 5.1.1.-)." []
synonym: "(2R,3S)-2-amino-3-methylpentanoic acid" BROAD []
synonym: "2-azanyl-3-methylpentanoic acid" BROAD []
synonym: "3-methyl-norvaline" BROAD []
synonym: "D-threo-isoleucine" BROAD []
synonym: "allo-D-isoleucine" BROAD []
synonym: "alpha-amino-beta-methylvaleric acid" BROAD []
synonym: "cas: 1509-35-9" EXACT []
synonym: "chebi: CHEBI:30007" EXACT []
synonym: "go: GO:0019124" EXACT []
synonym: "mod: MOD:00199" EXACT []
synonym: "pdb.ligand: DIL" EXACT []
synonym: "resid: AA0192" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:I ! L-isoleucine
structure: CC[C@@H]([C@H](C(=O)O)[NH3+])C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0596
name: O-(L-isoglutamyl)-L-threonine
def: "Generating Enzyme: protein-glutamine gamma-glutamyltransferase (EC 2.3.2.13)." []
synonym: "(2S)-2-amino-5-([2-(1H-imidazol-5-yl)ethyl]amino)-5-oxopentanoic acid" BROAD []
synonym: "(gamma-glutamyl)histamine" BROAD []
synonym: "mod: MOD:01950" EXACT []
synonym: "resid: AA0596" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Q ! L-glutamine
structure: O=C(CC[C@@H](C(=O)O)[NH3+])NCCc1cnc[nH]1
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0207
name: S-4-hydroxycinnamyl-L-cysteine
synonym: "(2R)-2-amino-3-([(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]sulfanyl)propanoic acid" BROAD []
synonym: "S-para-coumaryl-L-cysteine" BROAD []
synonym: "cinnamate cysteine thioester" BROAD []
synonym: "go: GO:0018097" EXACT []
synonym: "mod: MOD:00212" EXACT []
synonym: "pdb.ligand: HC4" EXACT []
synonym: "resid: AA0207" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C(/C=C/c1ccc(cc1)O)SC[C@@H](C(=O)O)N
l_bond_atoms: N19
l_displaced_atoms: H19
r_bond_atoms: C16
r_displaced_atoms: O18
r_displaced_atoms: H18

[Term]
id: BpForms:protein:AA0085
name: L-cysteine amide
def: "Generating Enzyme: peptidylglycine monooxygenase (EC 1.14.17.3)." []
synonym: "(2R)-2-amino-3-sulfanyl-propanamide" BROAD []
synonym: "(2R)-2-amino-3-sulfanylpropanamide" BROAD []
synonym: "2-amino-3-mercapto-propionamide" BROAD []
synonym: "2-amino-3-mercaptopropanamide" BROAD []
synonym: "C" BROAD []
synonym: "L-cysteinamide" BROAD []
synonym: "cas: 74401-72-2" EXACT []
synonym: "chebi: CHEBI:21262" EXACT []
synonym: "cysteinamide" BROAD []
synonym: "go: GO:0018038" EXACT []
synonym: "mod: MOD:00094" EXACT []
synonym: "pdb-ccd: CY3" EXACT []
synonym: "pdb.ligand: CY3" EXACT []
synonym: "resid: AA0085" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: NC(=O)[C@@H]([NH3+])CS
l_bond_atoms: N1
l_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0422
name: O-(N-acetylamino)fucosyl-L-serine
def: "See also RESID:AA0154, RESID:AA0208, RESID:AA0209, RESID:AA0210, RESID:AA0291, RESID:AA0296, RESID:AA0297, RESID:AA0397, RESID:AA0398, RESID:AA0400, RESID:AA0402, RESID:AA0404, and RESID:AA0406 for other O-glycosylated serines." []
synonym: "(2S)-2-amino-3-(2-acetamido-2-deoxy-beta-D-fucopyranosyloxy)propanoic acid" BROAD []
synonym: "O-(2-acetylamino-2-deoxy-beta-D-fucopyranosyl)-L-serine" BROAD []
synonym: "O-(N-acetylfucosaminyl)serine" BROAD []
synonym: "O-seryl-beta-N-acetylfucosaminide" BROAD []
synonym: "O3-(2-acetamido-2-deoxy-beta-D-fucopyranosyl)-L-serine" BROAD []
synonym: "O3-(N-acetylfucosaminyl)serine" BROAD []
synonym: "mod: MOD:00834" EXACT []
synonym: "resid: AA0422" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: CC(=O)N[C@H]1[C@H](OC[C@@H](C(=O)O)[NH3+])O[C@@H]([C@@H]([C@@H]1O)O)C
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15
r_displaced_atoms: H15

[Term]
id: BpForms:protein:AA0450
name: 2'-methylsulfonyl-L-tryptophan
def: "In virotoxin this modified tryptophan is formed after a 2'-(S-cysteinyl)tryptophan crosslink is broken." []
synonym: "2-methylsulfonyl-3-((2S)-2-amino-2-carboxyethyl)-1H-indole" BROAD []
synonym: "mod: MOD:01379" EXACT []
synonym: "resid: AA0450" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: OC(=O)[C@H](Cc1c2ccccc2[nH]c1S(=O)(=O)C)[NH3+]
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0077
name: N6-palmitoyl-L-lysine
def: "Generating Enzyme: peptidyl-lysine N6-palmitoyltransferase (EC 2.3.1.-)." []
synonym: "(2S)-2-amino-6-(hexadecanoylamino)hexanoic acid" BROAD []
synonym: "2-amino-6-(hexadecanamido)hexanoic acid" BROAD []
synonym: "N(zeta)-palmitoyllysine" BROAD []
synonym: "N6-(1-oxohexadecyl)-L-lysine" BROAD []
synonym: "cas: 559012-43-0" EXACT []
synonym: "chebi: CHEBI:21895" EXACT []
synonym: "epsilon-palmitoyllysine" BROAD []
synonym: "go: GO:0018029" EXACT []
synonym: "mod: MOD:00086" EXACT []
synonym: "resid: AA0077" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: CCCCCCCCCCCCCCCC(=O)NCCCC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N28-1
l_displaced_atoms: H28
l_displaced_atoms: H28+1
r_bond_atoms: C25
r_displaced_atoms: O27
r_displaced_atoms: H27

[Term]
id: BpForms:protein:K, Y
name: 2'-(L-lys-N6-yl)-L-4',5'-topaquinone
def: "The linkage between the two components has not been established with certainty. The relation of this cofactor to the copper binding site has not been established." []
synonym: "1-[(S)-5-amino-5-carboxypentyl]amino-2-[(S)-2-amino-2-carboxyethyl]-2,6-cyclohexadien-4,5-dione" BROAD []
synonym: "2'-(L-lysine)-L-tyrosyl-4',5'-quinone" BROAD []
synonym: "LTQ" BROAD []
synonym: "go: GO:0018124" EXACT []
synonym: "lysyl oxidase cofactor" BROAD []
synonym: "mod: MOD:00238" EXACT []
synonym: "resid: AA0233" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: O=C[C@H](CCCCNC1=CC(=O)C(=O)C=C1C[C@@H](C(=O)O)[NH3+])[NH3+]
l_bond_atoms: N24-1
l_displaced_atoms: H24
l_displaced_atoms: H24+1
r_bond_atoms: C21
r_displaced_atoms: O23
r_displaced_atoms: H23

[Term]
id: BpForms:protein:AA0094
name: L-phenylalanine amide
def: "Generating Enzyme: peptidylglycine monooxygenase (EC 1.14.17.3)." []
synonym: "(2S)-2-amino-3-phenyl-propanamide" BROAD []
synonym: "(2S)-2-amino-3-phenylpropanamide" BROAD []
synonym: "F" BROAD []
synonym: "L-phenylalaninamide" BROAD []
synonym: "cas: 5241-58-7" EXACT []
synonym: "chebi: CHEBI:21371" EXACT []
synonym: "go: GO:0018047" EXACT []
synonym: "mod: MOD:00103" EXACT []
synonym: "pdb-ccd: NFA" EXACT []
synonym: "pdb.ligand: NFA" EXACT []
synonym: "phenylalaninamide" BROAD []
synonym: "phenylalanine amide" BROAD []
synonym: "resid: AA0094" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [NH3+][C@H](C(=O)N)Cc1ccccc1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1

[Term]
id: BpForms:protein:A, N
name: alanine isoaspartyl cyclopeptide
def: "This is a proposed cyclization between asparagine and the free amino group of the preceding amino acid in a peptide. It is more probable that asparagine cyclizes with the amino group of the following glycine, see RESID:AA0441." []
synonym: "(2S,5S)-2-methyl-3,7-dioxo-1,4-diazepane-5-carboxylic acid" BROAD []
synonym: "1,4.2-anhydro(L-alanyl-L-aspartic acid)" BROAD []
synonym: "mod: MOD:01618" EXACT []
synonym: "resid: AA0515" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: OC[C@@H]1CC(=O)N[C@H](C(=O)N1)C
l_bond_atoms: N8
l_displaced_atoms: H8

[Term]
id: BpForms:protein:I, T
name: 4-(1-hydroxyethyl)-7-isoleucino-2-(threonin-O3-ylcarbonyl)-7,8-dihydroquinolin-8-ol
synonym: "(7R,8S)-7-[(1S,2S)-1-carboxy-2-methylbutyl]amino-2-([(1S,2R)-1-amino-1-carboxypropan-2-yl]oxy)carbonyl-8-hydroxy-4-[(1S)-1-hydroxyethyl]-7,8-dihydroquinoline" BROAD []
synonym: "mod: MOD:01395" EXACT []
synonym: "pdb.ligand: QUA" EXACT []
synonym: "resid: AA0472" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: CC[C@@H]([C@@H](C(=O)O)N[C@@H]1C=Cc2c([C@H]1O)nc(cc2[C@@H](O)C)C(=O)O[C@@H]([C@@H](C=O)[NH3+])C)C
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0618
name: O3-(poly-3-hydroxybutyrate)-L-serine
def: "The mechanism for transfer of the polymer from the synthase is uncertain. The modification with two polymeric units is presented." []
synonym: "(2S)-2-amino-3-[([(3R)-3-hydroxybutanoyl]oxy)-poly([(3R)-3-methyl-1-oxopropane-1,3-diyl]oxy)]propanoic acid" BROAD []
synonym: "O3-poly(3-hydroxybutanoate)serine" BROAD []
synonym: "O3-poly(3-hydroxybutanoic acid)serine" BROAD []
synonym: "O3-poly(3-hydroxybutyrate)serine" BROAD []
synonym: "O3-poly(3-hydroxybutyric acid)serine" BROAD []
synonym: "O3-poly(beta-hydroxybutyrate)serine" BROAD []
synonym: "O3-poly[(R)-3-hydroxybutyrate]serine" BROAD []
synonym: "cas: 29435-48-1" EXACT []
synonym: "mod: MOD:01976" EXACT []
synonym: "resid: AA0618" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: C[C@H](CC(=O)O[C@@H](CC(=O)OC[C@@H](C(=O)O)[NH3+])C)O
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C17
r_displaced_atoms: O19
r_displaced_atoms: H19

[Term]
id: BpForms:protein:C, K
name: L-lysine thiazole-4-carboxylic acid
def: "Lysine is now thought not to be encoded in the peptide sequence modified to produce GE2270. See RESID:AA0470." []
synonym: "2-[(1S)-1,5-diaminopentyl]-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "2-[1,5-bis(azanyl)pentyl]-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "go: GO:0018141" EXACT []
synonym: "mod: MOD:00250" EXACT []
synonym: "resid: AA0245" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC(=O)c1csc(n1)[C@@H]([NH3+])CCCC[NH3+]
l_bond_atoms: N8
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0092
name: L-lysine amide
def: "Generating Enzyme: peptidylglycine monooxygenase (EC 1.14.17.3)." []
synonym: "(2S)-2,6-diaminohexanamide" BROAD []
synonym: "2,6-diamino-hexanoic acid amide" BROAD []
synonym: "6-ammonio-L-norleucinamide" BROAD []
synonym: "K" BROAD []
synonym: "[(5S)-5,6-diamino-6-oxo-hexyl]azanium" BROAD []
synonym: "cas: 32388-19-5" EXACT []
synonym: "chebi: CHEBI:21353" EXACT []
synonym: "go: GO:0018045" EXACT []
synonym: "lysinamide" BROAD []
synonym: "mod: MOD:00101" EXACT []
synonym: "pdb-ccd: LYN" EXACT []
synonym: "pdb.ligand: NH2" EXACT []
synonym: "resid: AA0092" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+]CCCC[C@@H](C(=O)N)[NH3+]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1

[Term]
id: BpForms:protein:AA0036
name: 3'-phospho-L-histidine
def: "In the older biochemical literature this is usually called histidine-1-phosphate. See also RESID:AA0035. The crystallographic designation for the substituted nitrogen is delta-1, D1. Generating Enzyme: protein-histidine pros-kinase (EC 2.7.3.11)." []
synonym: "(2S)-2-amino-3-(3-phosphono-3H-imidazol-4-yl)propanoic acid" BROAD []
synonym: "(2S)-2-amino-3-(3-phosphonoimidazol-1-ium-4-yl)propanoic acid" BROAD []
synonym: "2-azanyl-3-(3-phosphono-3H-imidazol-4-yl)propanoic acid" BROAD []
synonym: "3-(1-phosphono-1H-imidazol-3-ium-5-yl)-L-alanine" BROAD []
synonym: "H" BROAD []
synonym: "N(pi)-phosphohistidine" BROAD []
synonym: "N3-phosphonohistidine" BROAD []
synonym: "ND1-phosphonohistidine" BROAD []
synonym: "cas: 5789-15-1" EXACT []
synonym: "go: GO:0018106" EXACT []
synonym: "histidine-1-phosphate [misnomer]" BROAD []
synonym: "histidine-N(delta)-phosphate" BROAD []
synonym: "histidine-N3'-phosphate" BROAD []
synonym: "mod: MOD:00045" EXACT []
synonym: "nd1-phosphonohistidine" BROAD []
synonym: "pdb-ccd: HIP" EXACT []
synonym: "pdb.ligand: HIP" EXACT []
synonym: "pros-phosphohistidine" BROAD []
synonym: "resid: AA0036" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: OC(=O)[C@H](Cc1cncn1P(=O)([O-])[O-])[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0502
name: 5-glutamyl 2-aminoadipic acid
def: "Generating Enzyme: alpha-aminoadipate--LysW ligase, LysX (EC 6.3.2.-)." []
synonym: "(2S)-2-([(4S)-4-amino-4-carboxybutanoyl]amino)hexanedioic acid" BROAD []
synonym: "N2-(gamma-glutamyl)-2-aminoadipic acid" BROAD []
synonym: "N2-(isoglutamyl)-2-aminoadipic acid" BROAD []
synonym: "mod: MOD:01605" EXACT []
synonym: "resid: AA0502" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: O=C[C@H](CCC(=O)N[C@H](C(=O)[O-])CCCC(=O)[O-])[NH3+]
l_bond_atoms: N9
l_displaced_atoms: H9
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:AA0086
name: L-glutamine amide
def: "Generating Enzyme: peptidylglycine monooxygenase (EC 1.14.17.3)." []
synonym: "(2S)-2-aminopentanediamide" BROAD []
synonym: "(2~{S})-2-azanylpentanediamide" BROAD []
synonym: "L-glutamamide" BROAD []
synonym: "cas: 2013-17-4" EXACT []
synonym: "chebi: CHEBI:21309" EXACT []
synonym: "glutaminamide" BROAD []
synonym: "go: GO:0018039" EXACT []
synonym: "l-glutamamide" BROAD []
synonym: "mod: MOD:00095" EXACT []
synonym: "pdb-ccd: 6E4" EXACT []
synonym: "pdb.ligand: NH2" EXACT []
synonym: "resid: AA0086" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Q ! L-glutamine
structure: NC(=O)CC[C@@H](C(=O)N)[NH3+]
l_bond_atoms: N1
l_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0351
name: S-(4a-FMN)-L-cysteine
def: "This modification forms as an intermediate in light transduction and some redox reactions. The keyword "phosphoprotein" is not used with flavin modifications linked through the flavin. Generating Enzyme: autocatalytic." []
synonym: "(R)-2-amino-3-(4a-riboflavin 5'-dihydrogen phosphate)sulfanylpropanoic acid" BROAD []
synonym: "4a-(S-cysteinyl)FMN" BROAD []
synonym: "4a-(S-cysteinyl)flavin mononucleotide" BROAD []
synonym: "go: GO:0050742" EXACT []
synonym: "mod: MOD:00356" EXACT []
synonym: "pdb.ligand: FMN" EXACT []
synonym: "resid: AA0351" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C1NC(=O)[C@]2(C(=N1)N(C[C@@H]([C@@H]([C@@H](COP(=O)([O-])[O-])O)O)O)c1c(N2)cc(c(c1)C)C)SC[C@@H](C(=O)O)N
l_bond_atoms: N42
l_displaced_atoms: H42
r_bond_atoms: C39
r_displaced_atoms: O41
r_displaced_atoms: H41

[Term]
id: BpForms:protein:AA0076
name: N6-methyl-L-lysine
def: "Generating Enzyme: histone-lysine N-methyltransferase (EC 2.1.1.43); cytochrome-c-lysine N-methyltransferase (EC 2.1.1.59); calmodulin-lysine N-methyltransferase (EC 2.1.1.60)." []
synonym: "(2S)-2-amino-6-methylamino-hexanoic acid" BROAD []
synonym: "(2S)-2-amino-6-methylaminohexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "N(zeta)-methyllysine" BROAD []
synonym: "N~6~-methyl-L-lysine" BROAD []
synonym: "cas: 1188-07-4" EXACT []
synonym: "chebi: CHEBI:61928" EXACT []
synonym: "epsilon-methyllysine" BROAD []
synonym: "go: GO:0018024" EXACT []
synonym: "mod: MOD:00085" EXACT []
synonym: "n-methyl-lysine" BROAD []
synonym: "pdb-ccd: MLZ" EXACT []
synonym: "pdb.ligand: MLZ" EXACT []
synonym: "resid: AA0076" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: C[NH2+]CCCC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:protein:AA0304
name: L-beta-carboxyaspartic acid
def: "This extremely acid labile modification has been detected but not located by sequencing in proteins." []
synonym: "(2S)-2-aminoethane-1,1,2-tricarboxylic acid" BROAD []
synonym: "2-amino-3-carboxybutanedioic acid" BROAD []
synonym: "3-carboxyaspartic acid" BROAD []
synonym: "beta-carboxyaspartic acid" BROAD []
synonym: "cas: 75898-26-9" EXACT []
synonym: "go: GO:0019803" EXACT []
synonym: "mod: MOD:00309" EXACT []
synonym: "resid: AA0304" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:D ! L-aspartic acid
structure: O=C[C@H](C(C(=O)[O-])C(=O)[O-])[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:AA0265
name: 1-thioglycine
def: "As a peptide this may exist predominantly in the iminyl-thiol [-C(SH)=N-] tautomeric form. See also RESID:AA0206." []
synonym: "2-amino-1-sulfanylethanone" BROAD []
synonym: "2-aminoethanethioic S-acid" BROAD []
synonym: "G" BROAD []
synonym: "aminoethanethioic O-acid #link INT" BROAD []
synonym: "aminoethanethioic S-acid #link CTER" BROAD []
synonym: "aminoethanethioic S-acid" BROAD []
synonym: "aminoethanethioic acid" BROAD []
synonym: "aminoethanethiolic acid #link CTER" BROAD []
synonym: "aminoethanethionic acid #link INT" BROAD []
synonym: "aminothioacetic acid" BROAD []
synonym: "cas: 758-10-1" EXACT []
synonym: "go: GO:0018173" EXACT []
synonym: "mod: MOD:00270" EXACT []
synonym: "mod: MOD:01623" EXACT []
synonym: "pdb-ccd: GL3" EXACT []
synonym: "pdb.ligand: GL3" EXACT []
synonym: "resid: AA0265" EXACT []
synonym: "thioglycin" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:G ! glycine
structure: C([NH3+])C=S
l_bond_atoms: N2-1
l_displaced_atoms: H2
l_displaced_atoms: H2+1

[Term]
id: BpForms:protein:AA0601
name: (3R)-3-hydroxy-L-arginine
def: "The diastereomer (2S,3S)-3-hydroxyarginine is produced in non-ribosomal antibiotic peptides of Streptomyces vinaceus. Generating Enzyme: ribosomal protein L16 arginine hydroxylase ycfD (EC 1.14.11.-)." []
synonym: "(2S,3R)-2-amino-5-[(diaminomethylidene)amino]-3-hydroxypentanoic acid" BROAD []
synonym: "2-amino-5-(carbamimidamido)-3-hydroxypentanoic acid [tautomer]" BROAD []
synonym: "2-amino-5-[(aminoiminomethyl)amino]-3-hydroxypentanoic acid [tautomer]" BROAD []
synonym: "2-amino-5-guanidino-3-hydroxypentanoic acid" BROAD []
synonym: "C(beta)-hydroxyarginine" BROAD []
synonym: "beta-hydroxyarginine" BROAD []
synonym: "mod: MOD:01956" EXACT []
synonym: "resid: AA0601" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: O[C@@H]([C@@H](C(=O)O)[NH3+])CC[NH+]=C(N)N
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8
r_displaced_atoms: H8

[Term]
id: BpForms:protein:AA0372
name: 1'-(phospho-5'-uridine)-L-histidine
synonym: "(S)-2-amino-3-[1-(5'-uridine phosphono)imidazol-4-yl]propanoic acid" BROAD []
synonym: "L-histidine 5'-uridine phosphoramidester" BROAD []
synonym: "L-histidine monoanhydride with 5'-uridylic acid" BROAD []
synonym: "N(tau)-5'-uridylic-L-histidine" BROAD []
synonym: "N1'-uridylylated histidine" BROAD []
synonym: "go: GO:0051110" EXACT []
synonym: "mod: MOD:00377" EXACT []
synonym: "pdb.ligand: U5P" EXACT []
synonym: "resid: AA0372" EXACT []
synonym: "tele-5'-uridylic-L-histidine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: OC(=O)[C@@H](Cc1ncn(c1)[P@@](=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1ccc(=O)[nH]c1=O)[O-])[NH3+]
l_bond_atoms: N37-1
l_displaced_atoms: H37
l_displaced_atoms: H37+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0528
name: 5-glutamyl serotonin
def: "The structure shown in PubChem for this name is incorrect being instead alpha-glutamyl serotonin, which is not the product of transamidation. Generating Enzyme: protein-glutamine gamma-glutamyltransferase (EC 2.3.2.13)." []
synonym: "(2S)-2-amino-5-([2-(5-hydroxy-1H-indol-3-yl)ethyl]amino)-5-oxopentanoic acid" BROAD []
synonym: "N2-(gamma-glutamyl)-5-hydoxytryptamine" BROAD []
synonym: "N5-[2-(5-hydroxy-3-indolyl)ethyl]glutamine" BROAD []
synonym: "cas: 61059-62-9" EXACT []
synonym: "mod: MOD:01775" EXACT []
synonym: "resid: AA0528" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Q ! L-glutamine
structure: O=C(CC[C@@H](C(=O)O)[NH3+])NCCc1c[nH]c2c1cc(O)cc2
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0275
name: N-pyruvic acid 2-iminyl-L-valine
synonym: "(S)-2-(1-carboxy-2-methylpropanimino)propanoic acid" BROAD []
synonym: "go: GO:0018388" EXACT []
synonym: "mod: MOD:00280" EXACT []
synonym: "resid: AA0275" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:V ! L-valine
structure: O=C[C@H](C(C)C)[NH2+][C@H](C(=O)[O-])C
l_bond_atoms: N8-1
l_displaced_atoms: H8
l_displaced_atoms: H8+1
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:AA0178
name: L-thyroxine
synonym: "(S)-2-amino-3-[4-(4-hydroxy-3,5-diiodophenoxy)-3,5-diiodophenyl]propanoic acid" BROAD []
synonym: "3',3'',5',5''-tetraiodo-L-thyronine" BROAD []
synonym: "3,3',5,5'-tetraiodo-L-thyronine" BROAD []
synonym: "3,5,3',5'-tetraiodo-L-thyronine" BROAD []
synonym: "4-(4-hydroxy-3,5-diiodophenoxy)-3,5-diiodo-L-phenylalanine" BROAD []
synonym: "O-(4-hydroxy-3,5-diiodophenyl)-3,5-diiodo-L-tyrosine" BROAD []
synonym: "T4" BROAD []
synonym: "cas: 51-48-9" EXACT []
synonym: "chebi: CHEBI:18332" EXACT []
synonym: "go: GO:0018078" EXACT []
synonym: "mod: MOD:00187" EXACT []
synonym: "pdb.ligand: T44" EXACT []
synonym: "resid: AA0178" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: OC(=O)[C@H](Cc1cc(I)c(c(c1)I)Oc1cc(I)c(c(c1)I)O)[NH3+]
l_bond_atoms: N25-1
l_displaced_atoms: H25
l_displaced_atoms: H25+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:C, R
name: 2-(4-guanidinobutanoyl)-5-hydroxy-imidazole-4-carbothionic
def: "The amino group of the following amino acid forms a thiopeptide bond. This is an amino(sulfanyl)methylidene in the tautomeric form, which is shown in the diagram and model." []
synonym: "(4Z)-2-(4-guanidinobutanoyl)-5-oxo-4-(sulfanylmethylidene)-4,5-dihydro-1H-imidazole" BROAD []
synonym: "2-(4-guanidinobutanoyl)-5-hydroxy-1H-imidazole-4-carbothioic O-acid" BROAD []
synonym: "2-(4-guanidinobutanoyl)-5-hydroxy-4-thioformyl-1H-imidazole [tautomer]" BROAD []
synonym: "mod: MOD:01877" EXACT []
synonym: "resid: AA0553" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [S-]/C=C/1\N=C(NC1=O)C(=O)CCC[NH+]=C(N)N
l_bond_atoms: N4

[Term]
id: BpForms:protein:AA0620
name: N,N-dimethylglyine
def: "This modification is a minor post-translational modification in the incomplete trimethylation of N-terminal glycine. See also RESID:AA0063 and RESID:AA0619. This modification is readily formed artifactually from N-terminal glycine by reductive methylation using formaldehyde. It is not clear whether "N-terminal methyltransferase" defined in EC 2.1.1.244 is intended to exclude an enzyme activity that methylates N-terminal glycine, or whether there are distinguishable enzyme activities. Generating Enzyme: protein N-terminal methyltransferase (EC 2.1.1.244)." []
synonym: "(dimethylamino)ethanoic acid" BROAD []
synonym: "1-carboxy-N,N-dimethylaminomethane" BROAD []
synonym: "2-(dimethylamino)acetic acid" BROAD []
synonym: "cas: 1118-68-9" EXACT []
synonym: "chebi: CHEBI:17724" EXACT []
synonym: "mod: MOD:01983" EXACT []
synonym: "pdb.ligand: DMG" EXACT []
synonym: "resid: AA0620" EXACT []
synonym: "vitamin B16" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:G ! glycine
structure: OC(=O)C[NH+](C)C
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0253
name: S-(2-aminovinyl)-3-methyl-D-cysteine
def: "This cross-link arises from the decarboxylation of the carboxyl-terminal portion of 3-methyllanthionine. Generating Enzyme: peptidyl-phosphoserine/phosphothreonine dehydratase (EC 4.2.1.-); peptidyl-cysteine dehydroalanine/dehydrobutyrine ligase (EC 6.2.-.-)." []
synonym: "(2S)-2-aminobutanoic acid" BROAD []
synonym: "(2S)-2-azanylbutanoic acid" BROAD []
synonym: "(2S,3S)-2-amino-3-[((Z)-2-aminoethenyl)sulfanyl]butanoic acid" BROAD []
synonym: "2-amino-3-[(2-aminovinyl)sulfanyl]butanoic acid" BROAD []
synonym: "A" BROAD []
synonym: "alpha-aminobutyric acid" BROAD []
synonym: "decarboxylated methyllanthionine" BROAD []
synonym: "go: GO:0018162" EXACT []
synonym: "mod: MOD:00258" EXACT []
synonym: "pdb-ccd: ABA" EXACT []
synonym: "pdb.ligand: ABA" EXACT []
synonym: "resid: AA0253" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: C[C@@H]([C@H]([NH3+])C(=O)O)S/C=C\N
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C10
r_displaced_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:protein:AA0186
name: lactic acid
def: "The stereochemistry has not been determined in all the peptides with this modification. Generating Enzyme: protein-serine dehydratase ElxB (EC 4.2.1.-); D-lactoyl-protein dehydrogenase ElxO (EC 1.1.1.-)." []
synonym: "(2R)-2-hydroxypropanoic acid" BROAD []
synonym: "2-hydroxypropionic acid" BROAD []
synonym: "alpha-hydroxypropionic acid" BROAD []
synonym: "cas: 10326-41-7" EXACT []
synonym: "chebi: CHEBI:42111" EXACT []
synonym: "go: GO:0018084" EXACT []
synonym: "mod: MOD:00194" EXACT []
synonym: "pdb.ligand: LAC" EXACT []
synonym: "resid: AA0186" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC(=O)[C@@H](O)C
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0585
name: N6-phospho-L-lysine
def: "N6-phospho-L-lysine hydrolyzes rapidly at acidic pH, but is more stable at neutral pH and below freezing. Although N6-phospho-L-lysine has been proposed to occur in histone H1, its occurrence has not been reported in a sequenced peptide." []
synonym: "(2S)-2-amino-6-(phosphonoamino)hexanoic acid" BROAD []
synonym: "(2S)-2-azanyl-6-(phosphonoamino)hexanoic acid" BROAD []
synonym: "6-phospholysine" BROAD []
synonym: "N(6)-phosphonolysine" BROAD []
synonym: "N(epsilon)-phospholysine" BROAD []
synonym: "N(epsilon)-phosphonolysine" BROAD []
synonym: "N(epsilon)-phosphonyllysine" BROAD []
synonym: "N(epsilon)-phosphoryllysine" BROAD []
synonym: "cas: 14721-74-5" EXACT []
synonym: "mod: MOD:01931" EXACT []
synonym: "resid: AA0585" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+][C@H](C(=O)O)CCCCNP(=O)([O-])[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0110
name: L-lanthionine
def: "This diastereomeric form, which retains the conformation of the R chiral center of L-cysteine, does occur naturally but is not common. See RESID:AA0111." []
synonym: "(2R,2'R)-3,3'-sulfanediylbis(2-aminopropanoic acid)" BROAD []
synonym: "(R)-S-(2-amino-2-carboxyethyl)-L-cysteine" BROAD []
synonym: "(R,R)-2,6-diamino-4-thiaheptanedioic acid" BROAD []
synonym: "(R,R)-3,3'-thiobis-(2-aminopropanoic acid)" BROAD []
synonym: "(R,R)-bis(2-amino-2-carboxyethyl)sulfide" BROAD []
synonym: "2-amino-3-(2-amino-2-carboxyethyl)sulfanylpropanoic acid" BROAD []
synonym: "3,3'-thiobis-L-alanine" BROAD []
synonym: "cas: 922-55-4" EXACT []
synonym: "chebi: CHEBI:21347" EXACT []
synonym: "go: GO:0018081" EXACT []
synonym: "mod: MOD:00119" EXACT []
synonym: "mod: MOD:01837" EXACT []
synonym: "resid: AA0110" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CSC[C@@H](C(=O)O)[NH3+])[NH3+]
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C10
r_displaced_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:protein:AA0315
name: 4-(S-L-cysteinyl)-L-glutamic acid
synonym: "(2S,3S,7R)-2,7-diamino-4-carboxy-5-thiaoctanedioic acid" BROAD []
synonym: "(2S,4S)-2-amino-4-[(R)-2-amino-2-carboxyethyl]sulfanylpentanedioic acid" BROAD []
synonym: "chebi: CHEBI:20293" EXACT []
synonym: "go: GO:0019929" EXACT []
synonym: "mod: MOD:00320" EXACT []
synonym: "resid: AA0315" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CS[C@H](C(=O)[O-])C[C@@H](C=O)[NH3+])[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:C, I
name: L-isoleucine thiazole-4-carboxylic acid
def: "Formed by the condensation of a cysteine thiol with the carbonyl of the preceding residue and alpha-beta dehydrogenation. Generating Enzyme: peptidyl-cysteine cyclase (EC 4.2.1.-); peptidyl-thiazoline dehydrogenase (EC 1.3.-.-)." []
synonym: "2-[(1S,2S)-1-amino-2-methylbutyl]-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "2-[1-zanyl-2-methylbutyl]-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "mod: MOD:01389" EXACT []
synonym: "pdb.ligand: BB9" EXACT []
synonym: "resid: AA0466" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: C[C@H]([C@H]([NH3+])c1nc(cs1)C(=O)O)CC
l_bond_atoms: N11
r_bond_atoms: C15
r_displaced_atoms: O17
r_displaced_atoms: H17

[Term]
id: BpForms:protein:AA0111
name: meso-lanthionine
def: "This diastereomeric form, despite the appearance of the same stereochemical designator, inverts the conformation of the S chiral center of L-serine to a D-alanine skeleton with S chiralty because of the altered prority of the beta-carbon. The stereosymmetry of the meso-form is broken within a peptide chain. Generating Enzyme: peptidyl-phosphoserine/phosphothreonine dehydratase (EC 4.2.1.-); peptidyl-cysteine dehydroalanine/dehydrobutyrine ligase (EC 6.2.-.-)." []
synonym: "(2R,2'S)-3,3'-sulfanediylbis(2-aminopropanoic acid)" BROAD []
synonym: "(2R,2'S)-3,3'-thiobis-(2-aminopropanoic acid)" BROAD []
synonym: "(2R,6S)-2,6-diamino-4-thiaheptanedioic acid" BROAD []
synonym: "(2R,6S)-meso-lanthionine" BROAD []
synonym: "(2S)-2-amino-3-[[(2R)-2-amino-2-carboxyethyl]sulfanyl]propanoic acid" BROAD []
synonym: "(2S,6R)-meso-lanthionine [misnomer]" BROAD []
synonym: "(R)-S-(2-amino-2-carboxyethyl)-D-cysteine" BROAD []
synonym: "(R,S)-bis(2-amino-2-carboxyethyl)sulfide" BROAD []
synonym: "3,3'-thiobis-meso-alanine" BROAD []
synonym: "cas: 922-56-5" EXACT []
synonym: "chebi: CHEBI:25013" EXACT []
synonym: "cysteine-3-D-alanine thioether" BROAD []
synonym: "go: GO:0018081" EXACT []
synonym: "mod: MOD:00120" EXACT []
synonym: "pdb.ligand: DAL" EXACT []
synonym: "resid: AA0111" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CSC[C@H](C(=O)O)[NH3+])[NH3+]
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C10
r_displaced_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:protein:AA0072
name: L-glutamic acid 5-methyl ester
def: "Glutamate methylesterase can also act as a glutamine amidohydrolase. Generating Enzyme: protein-glutamate O-methyltransferase (EC 2.1.1.80)." []
synonym: "(2S)-2-amino-5-methoxy-5-oxopentanoic acid" BROAD []
synonym: "(5)-methyl L-hydrogen glutamate" BROAD []
synonym: "2-aminopentanedioic acid 5-methyl ester" BROAD []
synonym: "5-methyl L-2-aminoglutarate" BROAD []
synonym: "5-methyl L-glutamate" BROAD []
synonym: "cas: 1499-55-4" EXACT []
synonym: "glutamic acid 5-methyl ester" BROAD []
synonym: "glutamic acid gamma-methyl ester" BROAD []
synonym: "go: GO:0008983" EXACT []
synonym: "go: GO:0018390" EXACT []
synonym: "mod: MOD:00081" EXACT []
synonym: "mod: MOD:00657" EXACT []
synonym: "resid: AA0072" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Q ! L-glutamine
structure: COC(=O)CC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C9
r_displaced_atoms: O11
r_displaced_atoms: H11

[Term]
id: BpForms:protein:AA0404
name: O-fucosyl-L-serine
def: "See also RESID:AA0154, RESID:AA0208, RESID:AA0209, RESID:AA0210, RESID:AA0291, RESID:AA0296, RESID:AA0297, RESID:AA0397, RESID:AA0398, RESID:AA0400, RESID:AA0402, RESID:AA0406, and RESID:AA0422 for other O-glycosylated serines. Generating Enzyme: peptide-O-fucosyltransferase (EC 2.4.1.221)." []
synonym: "(2S)-2-amino-3-(6-deoxy-alpha-D-galactopyranosyloxy)propanoic acid" BROAD []
synonym: "O-glycosylserine" BROAD []
synonym: "O3-fucosylserine" BROAD []
synonym: "mod: MOD:00812" EXACT []
synonym: "resid: AA0404" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC(=O)[C@H](CO[C@H]1O[C@H](C)[C@@H]([C@@H]([C@H]1O)O)O)[NH3+]
l_bond_atoms: N23-1
l_displaced_atoms: H23
l_displaced_atoms: H23+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0232
name: L-beta-methylthioaspartic acid
def: "The stereochemistry for the second chiral center has not been resolved. The (2R,3S) form is shown. beta-Methylthioaspartic acid probably occurs uniquely in ribosomal protein S12. Althouh the aspartic acid is invariant, the modification is not required for activity. Generating Enzyme: ribosomal protein S12 methylthiotransferase RimO (EC 2.-.-.-)." []
synonym: "(2R,3Xi)-2-amino-3-(methylsulfanyl)butanedioic acid" BROAD []
synonym: "3-carboxy-S-methyl-cysteine" BROAD []
synonym: "3-methylthio-aspartic acid" BROAD []
synonym: "beta-methylthio-aspartic acid" BROAD []
synonym: "cas: 180420-54-6" EXACT []
synonym: "go: GO:0018339" EXACT []
synonym: "mod: MOD:00237" EXACT []
synonym: "resid: AA0232" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:D ! L-aspartic acid
structure: CS[C@@H]([C@@H](C=O)[NH3+])C(=O)[O-]
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:AA0071
name: N5-methyl-L-glutamine
synonym: "(2S)-2-amino-5-methylamino-5-oxo-pentanoic acid" BROAD []
synonym: "(2S)-2-amino-5-methylamino-5-oxopentanoic acid" BROAD []
synonym: "2-amino-N5-methylpentanediamic acid" BROAD []
synonym: "N(delta)-methylglutamine" BROAD []
synonym: "N-methyl-L-glutamine" BROAD []
synonym: "N-methylglutamine" BROAD []
synonym: "Q" BROAD []
synonym: "cas: 3031-62-7" EXACT []
synonym: "chebi: CHEBI:61891" EXACT []
synonym: "gamma-methylglutamine" BROAD []
synonym: "go: GO:0018019" EXACT []
synonym: "mod: MOD:00080" EXACT []
synonym: "n5-methylglutamine" BROAD []
synonym: "pdb-ccd: MEQ" EXACT []
synonym: "pdb.ligand: MEQ" EXACT []
synonym: "resid: AA0071" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Q ! L-glutamine
structure: CNC(=O)CC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C9
r_displaced_atoms: O11
r_displaced_atoms: H11

[Term]
id: BpForms:protein:AA0303
name: L-glutamimide
def: "This modification is autocatalytically produced from the carboxyl-terminal glutamine of spliced inteins." []
synonym: "(3S)-3-aminopiperidine-2,6-dione" BROAD []
synonym: "2-aminopentanimide" BROAD []
synonym: "3-amino-2,6-piperidinedione" BROAD []
synonym: "alpha-aminoglutarimide" BROAD []
synonym: "cas: 2353-44-8" EXACT []
synonym: "go: GO:0019802" EXACT []
synonym: "mod: MOD:00308" EXACT []
synonym: "resid: AA0303" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Q ! L-glutamine
structure: N[C@H]1CCC(=O)NC1=O
l_bond_atoms: N1
l_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0504
name: 5-glutamyl allysine
synonym: "(2S)-2-([(4S)-4-amino-4-carboxybutanoyl]amino)-6-oxohexanoic acid" BROAD []
synonym: "2-(5-glutamyl)amino-6-oxohexanoic acid" BROAD []
synonym: "N2-(gamma-glutamyl)allysine" BROAD []
synonym: "N2-(isoglutamyl)allysine" BROAD []
synonym: "alpha-(gamma-glutamyl)allysine" BROAD []
synonym: "mod: MOD:01607" EXACT []
synonym: "resid: AA0504" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: O=CCCC[C@@H](C(=O)[O-])NC(=O)CC[C@@H](C=O)[NH3+]
l_bond_atoms: N11
l_displaced_atoms: H11
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:AA0322
name: 3-hydroxy-L-tryptophan
synonym: "(2S,3S)-2-amino-3-hydroxy-3-(1H-indol-3-yl)propanoic acid" BROAD []
synonym: "(betaS)-beta-hydroxy-L-tryptophan" BROAD []
synonym: "3-hydroxytryptophan" BROAD []
synonym: "W" BROAD []
synonym: "beta-hydroxytryptophan" BROAD []
synonym: "beta-hydroxytryptophane" BROAD []
synonym: "go: GO:0045325" EXACT []
synonym: "mod: MOD:00327" EXACT []
synonym: "pdb-ccd: HTR" EXACT []
synonym: "pdb.ligand: HTR" EXACT []
synonym: "resid: AA0322" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: OC(=O)[C@H]([C@H](c1c[nH]c2c1cccc2)O)N
l_bond_atoms: N19
l_displaced_atoms: H19
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0089
name: L-histidine amide
def: "Generating Enzyme: peptidylglycine monooxygenase (EC 1.14.17.3)." []
synonym: "(2S)-2-amino-3-(1H-imidazol-4-yl)propanamide" BROAD []
synonym: "(2S)-2-amino-3-(3H-imidazol-4-yl)propanamide" BROAD []
synonym: "H" BROAD []
synonym: "L-histidinamide" BROAD []
synonym: "cas: 7621-14-9" EXACT []
synonym: "chebi: CHEBI:43042" EXACT []
synonym: "go: GO:0018042" EXACT []
synonym: "histidinamide" BROAD []
synonym: "l-histidine amide" BROAD []
synonym: "mod: MOD:00098" EXACT []
synonym: "pdb-ccd: HIA" EXACT []
synonym: "pdb.ligand: HIA" EXACT []
synonym: "resid: AA0089" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: NC(=O)[C@@H]([NH3+])Cc1cnc[nH]1
l_bond_atoms: N1
l_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0363
name: N-carboxy-L-methionine
def: "At least three protein crystallographic structures have been reported with this modification. However, no chemical evidence for this modification is provided, there were no reports of this modification before these crystallographic reports, and there is no metabolic explanation for the conversion of a formyl group to a carboxy group. There is confusion in its description, and misnaming is common. This modification is probably a misidentification of N-(dihydroxymethyl)methionine, the hydrated form of N-formylmethionine. See RESID:AA0493." []
synonym: "(2S)-2-(carboxyamino)-4-methylsulfanyl-butanoic acid" BROAD []
synonym: "(S)-2-carboxyamino-4-(methylsulfanyl)butanoic acid" BROAD []
synonym: "2-carbamic-4-(methylsulfanyl)butanoic acid" BROAD []
synonym: "2-carbamic-4-(methylthio)butanoic acid" BROAD []
synonym: "M" BROAD []
synonym: "N-carboxy-L-methionine" BROAD []
synonym: "N-carboxymethionine" BROAD []
synonym: "chebi: CHEBI:61924" EXACT []
synonym: "go: GO:0050988" EXACT []
synonym: "mod: MOD:00368" EXACT []
synonym: "n-carboxymethionine" BROAD []
synonym: "pdb-ccd: CXM" EXACT []
synonym: "pdb.ligand: CXM" EXACT []
synonym: "resid: AA0363" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: [O-]C(=O)N[C@H](C(=O)O)CCSC
l_bond_atoms: N4
l_displaced_atoms: H4
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0063
name: N-methylglycine
def: "Sarcosine occurs internally in some nonencoded peptides. It has been observed as a minor post-translational modification arising from the incomplete trimethylation of N-terminal glycine.  See RESID:AA0619 and RESID:AA0620. Polypeptides with monomethylated amino terminals can undergo premature cleavage during the coupling step of an Edman degradation. This can result in "preview" with both a residue and the following residue being seen from the first step on through a sequence. It is not clear whether "N-terminal methyltransferase" defined in EC 2.1.1.244 is intended to exclude an enzyme activity that methylates N-terminal glycine, or whether there are distinguishable enzyme activities. Generating Enzyme: protein N-terminal methyltransferase (EC 2.1.1.244)." []
synonym: "L-sarcosine" BROAD []
synonym: "cas: 107-97-1" EXACT []
synonym: "chebi: CHEBI:15611" EXACT []
synonym: "go: GO:0018013" EXACT []
synonym: "methylaminoacetic acid" BROAD []
synonym: "methylaminoethanoic acid" BROAD []
synonym: "mod: MOD:00072" EXACT []
synonym: "pdb.ligand: SAR" EXACT []
synonym: "resid: AA0063" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:G ! glycine
structure: C[NH2+]CC(=O)O
l_bond_atoms: N2-1
l_displaced_atoms: H2
l_displaced_atoms: H2+1
r_bond_atoms: C6
r_displaced_atoms: O8
r_displaced_atoms: H8

[Term]
id: BpForms:protein:AA0519
name: O-(ADP-ribosyl)-L-threonine
def: "It is not known whether Photorhabdus luminescens toxin catalyzes formation of the alpha or beta isomer. The alpha form is presented. The keyword "phosphoprotein" is not used with toxin modification. Generating Enzyme: NAD(P)+--threonine ADP-ribosyltransferase TccC3 (EC 2.4.2.-)." []
synonym: "(S)-2-amino-3-([adenosine 5'-(trihydrogen diphosphate) 5'->5'-ester with alpha-D-ribofuranosyl]oxy)-butanoic acid" BROAD []
synonym: "O3-(ADP-ribosyl)-L-threonine" BROAD []
synonym: "O3-[alpha-D-ribofuranoside 5'->5'-ester with adenosine 5'-(trihydrogen diphosphate)]-L-threonine" BROAD []
synonym: "O3-alpha-D-ribofuranosyl-L-threonine 5'->5'-ester with adenosine 5'-(trihydrogen diphosphate)" BROAD []
synonym: "mod: MOD:01663" EXACT []
synonym: "resid: AA0519" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: OC(=O)[C@H]([C@H](O[C@H]1O[C@H]([C@H]([C@H]1O)O)CO[P@@](=O)(O[P@](=O)(OC[C@@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1NC=N[C@H]2N)[O-])[O-])C)[NH3+]
l_bond_atoms: N54-1
l_displaced_atoms: H54
l_displaced_atoms: H54+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0311
name: N4,N4-dimethyl-L-asparagine
def: "This structure has not been confirmed." []
synonym: "(2S)-2-amino-4-(dimethylamino)-4-oxobutanoic acid" BROAD []
synonym: "(2S)-2-amino-4-dimethylamino-4-oxo-butanoic acid" BROAD []
synonym: "2-amino-N4,N4-dimethylbutanediamic acid" BROAD []
synonym: "N" BROAD []
synonym: "N(gamma),N(gamma)-dimethylasparagine" BROAD []
synonym: "N,N-dimethyl-L-asparagine" BROAD []
synonym: "beta-dimethylasparagine [misnomer]" BROAD []
synonym: "go: GO:0019710" EXACT []
synonym: "mod: MOD:00316" EXACT []
synonym: "n4,n4-dimethyl-asparagine" BROAD []
synonym: "pdb-ccd: DMH" EXACT []
synonym: "pdb.ligand: DMH" EXACT []
synonym: "resid: AA0311" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: N[C@H](C(=O)O)CC(=O)N(C)C
l_bond_atoms: N1
l_displaced_atoms: H1
r_bond_atoms: C4
r_displaced_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:protein:AA0316
name: cis-14-hydroxy-10,13-dioxo-7-heptadecenoic acid L-aspartate ester
def: "The stereochemistry for the second chiral center has not been resolved. The (14S) form is shown." []
synonym: "(7Z,14Xi)-14-[(S)-3-amino-3-carboxy-propanoyl]oxy-10,13-dioxo-7-heptadecenoic acid" BROAD []
synonym: "barley lipid transfer protein modification" BROAD []
synonym: "go: GO:0019930" EXACT []
synonym: "mod: MOD:00321" EXACT []
synonym: "resid: AA0316" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:D ! L-aspartic acid
structure: CCC[C@@H](C(=O)CCC(=O)C/C=C\CCCCCC(=O)[O-])OC(=O)C[C@@H](C=O)[NH3+]
l_bond_atoms: N31-1
l_displaced_atoms: H31
l_displaced_atoms: H31+1
r_bond_atoms: C20
r_displaced_atoms: O22-1

[Term]
id: BpForms:protein:AA0042
name: N-acetyl-L-aspartic acid
def: "Generating Enzyme: aspartate N-acetyltransferase (EC 2.3.1.17)." []
synonym: "(2S)-2-(acetamido)butanedioic acid" BROAD []
synonym: "2-(acetylamino)butanedioic acid" BROAD []
synonym: "2-(acetylazanyl)butanedioic acid" BROAD []
synonym: "acetylaspartic acid" BROAD []
synonym: "cas: 997-55-7" EXACT []
synonym: "chebi: CHEBI:21547" EXACT []
synonym: "go: GO:0017190" EXACT []
synonym: "mod: MOD:00051" EXACT []
synonym: "resid: AA0042" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:D ! L-aspartic acid
structure: O=C[C@@H](NC(=O)C)CC(=O)[O-]
l_bond_atoms: N5
l_displaced_atoms: H5
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:AA0156
name: 1'-mannosyl-L-tryptophan
def: "In 1992, the hexose was not identified and it was proposed, but not established, that this modification had an N-linked glycosidic bond. After C-linked 2'-mannosyltryptophan was found in vertebrate proteins, it was generally assumed that the tryptophan N-glycoside structure was wrong. See RESID:AA0217 for 2'-mannosyltryptophan. The alpha anomeric form is shown." []
synonym: "(2S)-2-amino-3-(1-D-mannopyranosyloxy-1H-indol-3-yl)propanoic acid" BROAD []
synonym: "1'-glycosyl-L-tryptophan" BROAD []
synonym: "N-mannosyl-tryptophan" BROAD []
synonym: "N1-mannosyl-tryptophan" BROAD []
synonym: "go: GO:0006487" EXACT []
synonym: "mod: MOD:00165" EXACT []
synonym: "resid: AA0156" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: OC[C@H]1O[C@@H]([C@H]([C@H]([C@@H]1O)O)O)n1cc(c2c1cccc2)C[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N32-1
l_displaced_atoms: H32
l_displaced_atoms: H32+1
r_bond_atoms: C29
r_displaced_atoms: O31
r_displaced_atoms: H31

[Term]
id: BpForms:protein:AA0364
name: O-acetyl-L-serine
synonym: "(2S)-3-(acetyloxy)-2-aminopropanoic acid" BROAD []
synonym: "(2S)-3-acetyloxy-2-amino-propanoic acid" BROAD []
synonym: "O-acetyl-L-serine" BROAD []
synonym: "O-acetylserine" BROAD []
synonym: "S" BROAD []
synonym: "cas: 4985-36-8" EXACT []
synonym: "chebi: CHEBI:17981" EXACT []
synonym: "go: GO:0030919" EXACT []
synonym: "mod: MOD:00369" EXACT []
synonym: "o-acetylserine" BROAD []
synonym: "pdb-ccd: OAS" EXACT []
synonym: "pdb.ligand: OAS" EXACT []
synonym: "resid: AA0364" EXACT []
synonym: "serine acetate ester" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: CC(=O)OC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:protein:AA0091
name: L-leucine amide
def: "Generating Enzyme: peptidylglycine monooxygenase (EC 1.14.17.3)." []
synonym: "(2S)-2-amino-4-methylpentanamide" BROAD []
synonym: "(2~{S})-2-azanyl-4-methyl-pentanamide" BROAD []
synonym: "2-amino-4-methylvaleramide" BROAD []
synonym: "2-azanyl-4-methylpentanamide" BROAD []
synonym: "L" BROAD []
synonym: "L-leucinamide" BROAD []
synonym: "alpha-aminoisocaproamide" BROAD []
synonym: "cas: 687-51-4" EXACT []
synonym: "chebi: CHEBI:21349" EXACT []
synonym: "go: GO:0018044" EXACT []
synonym: "l-leucinamide" BROAD []
synonym: "leucinamide" BROAD []
synonym: "mod: MOD:00100" EXACT []
synonym: "pdb-ccd: NLW" EXACT []
synonym: "pdb.ligand: NH2" EXACT []
synonym: "resid: AA0091" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: [NH3+][C@H](C(=O)N)CC(C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1

[Term]
id: BpForms:protein:AA0065
name: N-methyl-L-phenylalanine
def: "Polypeptides with monomethylated amino terminals can undergo premature cleavage during the coupling step of an Edman degradation. This can result in "preview" with both a residue and the following residue being seen from the first step on through a sequence. Generating Enzyme: prepilin peptidase (EC 3.4.23.43)." []
synonym: "(2S)-2-(methylamino)-3-phenyl-propanoic acid" BROAD []
synonym: "(2S)-2-methylamino-3-phenylpropanoic acid" BROAD []
synonym: "F" BROAD []
synonym: "N-methyl-L-phenylalanine" BROAD []
synonym: "N-methylphenylalanine" BROAD []
synonym: "cas: 2566-30-5" EXACT []
synonym: "chebi: CHEBI:61884" EXACT []
synonym: "go: GO:0018015" EXACT []
synonym: "mod: MOD:00074" EXACT []
synonym: "n-methylphenylalanine" BROAD []
synonym: "pdb-ccd: MEA" EXACT []
synonym: "pdb.ligand: MEA" EXACT []
synonym: "resid: AA0065" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: OC(=O)[C@H](Cc1ccccc1)[NH2+]C
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0144
name: 3'-(8alpha-FAD)-L-histidine
def: "The arrangement of the attachment has not been completely established in some cases. The keyword "phosphoprotein" is not used with flavin modifications linked through the flavin. Generating Enzyme: autocatalytic." []
synonym: "(2S)-2-amino-3-(3-[8alpha-riboflavin 5'-(trihydrogen diphosphate) 5'->5'-ester with adenosine]imidazol-4-yl)propanoic acid" BROAD []
synonym: "8alpha-(N(delta)-histidyl)FAD" BROAD []
synonym: "8alpha-(N3'-histidyl)FAD" BROAD []
synonym: "8alpha-N1-histidyl FAD [misnomer]" BROAD []
synonym: "N(pi)-(8alpha-FAD)-histidine" BROAD []
synonym: "go: GO:0018295" EXACT []
synonym: "mod: MOD:00153" EXACT []
synonym: "pdb.ligand: FAD" EXACT []
synonym: "pros-(8alpha-FAD)-histidine" BROAD []
synonym: "resid: AA0144" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: O=C1[N-]C(=O)C2C(N1)N(C[C@@H]([C@@H]([C@@H](CO[P@](=O)(O[P@@](=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc3c1ncnc3N)[O-])[O-])O)O)O)C1C(N2)CC(C(C1)Cn1cncc1C[C@@H](C(=O)O)[NH3+])C
l_bond_atoms: N71-1
l_displaced_atoms: H71
l_displaced_atoms: H71+1
r_bond_atoms: C68
r_displaced_atoms: O70
r_displaced_atoms: H70

[Term]
id: BpForms:protein:AA0277
name: S-selenyl-L-cysteine
synonym: "(2R)-2-amino-3-selanylsulfanyl-propanoic acid" BROAD []
synonym: "(R)-2-amino-3-(selanylsulfanyl)propanoic acid" BROAD []
synonym: "2-amino-3-hydroselenosulfidopropanoic acid" BROAD []
synonym: "2-amino-3-hydroselenylsulfidopropanoic acid" BROAD []
synonym: "2-amino-3-hydroselenylthiopropanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-selanyl-L-cysteine" BROAD []
synonym: "S-selanylcysteine" BROAD []
synonym: "S-selenylcysteine" BROAD []
synonym: "cysteine perselenide [misnomer]" BROAD []
synonym: "go: GO:0018183" EXACT []
synonym: "mod: MOD:00282" EXACT []
synonym: "pdb-ccd: CSZ" EXACT []
synonym: "pdb.ligand: CSZ" EXACT []
synonym: "resid: AA0277" EXACT []
synonym: "s-selanyl cysteine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC(=O)[C@@H]([NH3+])CS[SeH]
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0624
name: 2-(L-cystein-S-yl)-D-serine
synonym: "(2R,5S)-2,5-diamino-5-carboxy-6-hydroxy-4-thiahexanoic acid" BROAD []
synonym: "(2S)-2-amino-2-([(2R)-2-amino-2-carboxyethyl]sulfanyl)-3-hydroxypropanoic acid" BROAD []
synonym: "mod: MOD:01987" EXACT []
synonym: "pdb.ligand: DSN" EXACT []
synonym: "resid: AA0624" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CS[C@](C(=O)O)(CO)N)[NH3+]
l_bond_atoms: N13
l_displaced_atoms: H13
r_bond_atoms: C8
r_displaced_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:protein:AA0616
name: S-methyl-L-methionine
def: "Generating Enzyme: autocatalytic." []
synonym: "(2S)-2-amino-4-(dimethylsulfonio)butanoate" BROAD []
synonym: "(3S)-(3-amino-3-carboxypropyl)dimethylsulfanium" BROAD []
synonym: "S-methylmethionine" BROAD []
synonym: "S-methylmethioninium" BROAD []
synonym: "[(3S)-3-amino-3-carboxypropyl](dimethyl)sulfonium" BROAD []
synonym: "cas: 4727-40-6" EXACT []
synonym: "chebi: CHEBI:17728" EXACT []
synonym: "mod: MOD:01974" EXACT []
synonym: "resid: AA0616" EXACT []
synonym: "vitamin U" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: [NH3+][C@H](C(=O)O)CC[S](C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0132
name: S-phycoerythrobilin-L-cysteine
def: "See the comment for S-phycocyanobilin-L-cysteine (RESID:AA0131). There is an additional chiral center at C-16. The phytochromobilins and phycoerythrobilins transmit red." []
synonym: "(2S,3R,16R)-18-ethenyl-3-[(1R)-1-(((2R)-2-amino-2-carboxy)ethylsulfanyl)ethyl]-8,12-bis(2-carboxyethyl)-2,7,13,17-tetramethyl-2,3,15,16-tetrahydrobilin-1,19(21H,22H,24H)-dione" BROAD []
synonym: "18-ethenyl-3-[1-((2-amino-2-carboxy)ethylsulfanyl)ethyl]-2,3,15,16-tetrahydro-2,7,13,17-tetramethyl-1,19-dioxo-(21H,22H,24H)-bilin-8,12-dipropanoic acid" BROAD []
synonym: "PEB" BROAD []
synonym: "cas: 18097-67-1" EXACT []
synonym: "chebi: CHEBI:15618" EXACT []
synonym: "go: GO:0017011" EXACT []
synonym: "mod: MOD:00141" EXACT []
synonym: "pdb.ligand: PEB" EXACT []
synonym: "phycoerythrobilin cysteine adduct" BROAD []
synonym: "resid: AA0132" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CS[C@@H]([C@H]1/C(=C/[C@@H]2[NH2+]/C(=C\c3[nH]c(c(c3CCC(=O)[O-])C)C[C@H]3NC(=O)C(=C3C)C=C)/C(=C2C)CCC(=O)[O-])/NC(=O)[C@H]1C)C)[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C28
r_displaced_atoms: O30-1

[Term]
id: BpForms:protein:AA0046
name: N-acetylglycine
synonym: "(acetylamino)acetic acid" BROAD []
synonym: "(acetylazanyl)ethanoic acid" BROAD []
synonym: "2-(acetamido)ethanoic acid" BROAD []
synonym: "2-(acetylamino)ethanoic acid" BROAD []
synonym: "aceturic acid" BROAD []
synonym: "cas: 543-24-8" EXACT []
synonym: "chebi: CHEBI:61888" EXACT []
synonym: "go: GO:0017193" EXACT []
synonym: "mod: MOD:00055" EXACT []
synonym: "resid: AA0046" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:G ! glycine
structure: CC(=O)NCC(=O)O
l_bond_atoms: N4
l_displaced_atoms: H4
r_bond_atoms: C6
r_displaced_atoms: O8
r_displaced_atoms: H8

[Term]
id: BpForms:protein:AA0179
name: 6'-bromo-L-tryptophan
synonym: "(2S)-2-amino-3-(6-bromo-1H-indol-3-yl)propanoic acid" BROAD []
synonym: "6-bromo-L-tryptophan" BROAD []
synonym: "6-bromo-tryptophan" BROAD []
synonym: "W" BROAD []
synonym: "cas: 52448-17-6" EXACT []
synonym: "chebi: CHEBI:61899" EXACT []
synonym: "go: GO:0018080" EXACT []
synonym: "mod: MOD:00188" EXACT []
synonym: "pdb-ccd: BTR" EXACT []
synonym: "pdb.ligand: BTR" EXACT []
synonym: "resid: AA0179" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: OC(=O)[C@H](Cc1c[nH]c2c1ccc(c2)Br)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0182
name: (Z)-dehydrobutyrine
def: "In some cases it has not been firmly established whether the natural form is the Z or the E isomer. For the E isomer, see RESID:AA0547. A 2,3-didehydro amino acid blocks Edman degradation. Generating Enzyme: protein-threonine dehydratase (EC 4.2.1.-); phosphothreonine lyase (EC 4.3.2.-)." []
synonym: "(2Z)-2-aminobut-2-enoic acid" BROAD []
synonym: "(Z)-2-amino-2-butenoic acid" BROAD []
synonym: "(Z)-2-aminobutenoic acid" BROAD []
synonym: "2,3-didehydrobutyrine" BROAD []
synonym: "3-methyldehydroalanine" BROAD []
synonym: "Dhb" BROAD []
synonym: "alpha,beta-dehydroaminobutyric acid" BROAD []
synonym: "anhydrothreonine" BROAD []
synonym: "cas: 71018-10-5" EXACT []
synonym: "go: GO:0018082" EXACT []
synonym: "methyl-dehydroalanine" BROAD []
synonym: "mod: MOD:00190" EXACT []
synonym: "pdb.ligand: DBU" EXACT []
synonym: "resid: AA0182" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: C/C=C(/C(=O)O)\N
l_bond_atoms: N7
l_displaced_atoms: H7
r_bond_atoms: C4
r_displaced_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:protein:AA0222
name: omega-N-phospho-L-arginine
def: "Generating Enzyme: histone-arginine kinase (EC 2.7.3.-); protein-arginine kinase (EC 2.7.3.-)." []
synonym: "(2S)-2-amino-5-(N'-phosphonocarbamimidamido)pentanoic acid" BROAD []
synonym: "(2S)-2-amino-5-([amino(phosphonoamino)methylidene]amino)pentanoic acid" BROAD []
synonym: "N(gamma)-phosphoarginine" BROAD []
synonym: "N(omega)-phosphono-L-arginine" BROAD []
synonym: "N5-[imino(phosphonoamino)methyl]-L-ornithine" BROAD []
synonym: "alpha-amino-delta-phosphonoguanidinovaleric acid" BROAD []
synonym: "cas: 1189-11-3" EXACT []
synonym: "go: GO:0018109" EXACT []
synonym: "mod: MOD:00227" EXACT []
synonym: "phosphoarginine" BROAD []
synonym: "resid: AA0222" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: OC(=O)[C@H](CCC/[NH+]=C(\NP(=O)([O-])[O-])/N)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0196
name: D-asparagine
def: "Generating Enzyme: protein-asparagine epimerase (EC 5.1.1.-)." []
synonym: "(R)-2-amino-4-butanediamic acid" BROAD []
synonym: "D-alpha-aminosuccinamic acid" BROAD []
synonym: "D-aspartic acid beta-amide" BROAD []
synonym: "cas: 2058-58-4" EXACT []
synonym: "chebi: CHEBI:29957" EXACT []
synonym: "go: GO:0018091" EXACT []
synonym: "mod: MOD:00203" EXACT []
synonym: "pdb.ligand: DSG" EXACT []
synonym: "resid: AA0196" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: NC(=O)C[C@H](C(=O)O)N
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C7
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:protein:AA0131
name: S-phycocyanobilin-L-cysteine
def: "A second linkage, an ester between a serine and one of the propanoic acid groups, was reported at one time but was not confirmed. A second cysteine linkage has also been reported to a moiety thought to be phycocyanobilin. The phycocyanobilins transmit blue. Generating Enzyme: phycocyanobilin lyase (EC 4.4.1.-)." []
synonym: "(2R,3R)-3-[(1R)-1-(((2R)-2-amino-2-carboxy)ethylsulfanyl)ethyl]-18-ethyl-1,2,3,19,21,22,24-heptahydro-2,7,13,17-tetramethyl-1,19-dioxo-(21H,22H,24H)-bilin-8,12-dipropanoic acid" BROAD []
synonym: "(2R,3R)-3-[(1R)-1-(((2R)-2-amino-2-carboxy)ethylsulfanyl)ethyl]-8,12-bis(2-carboxyethyl)-18-ethyl-2,7,13,17-tetramethyl-1,2,3,19,21,22,24-heptahydrobilin-1,19(21H,22H,24H)-dione" BROAD []
synonym: "PCB" BROAD []
synonym: "cas: 20298-86-6" EXACT []
synonym: "chebi: CHEBI:15617" EXACT []
synonym: "go: GO:0017009" EXACT []
synonym: "mod: MOD:00140" EXACT []
synonym: "pdb.ligand: CYC" EXACT []
synonym: "phycobilin cysteine" BROAD []
synonym: "phycocyanobilin cysteine adduct" BROAD []
synonym: "resid: AA0131" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CS[C@@H]([C@H]1/C(=C/C2=C(C)[C@@H](/C(=C/c3[nH]c(c(c3CCC(=O)[O-])C)/C=C/3\NC(=O)C(=C3C)CC)/[NH2+]2)CCC(=O)[O-])/NC(=O)[C@H]1C)C)[NH3+]
l_bond_atoms: N21
l_displaced_atoms: H21
r_bond_atoms: C28
r_displaced_atoms: O30-1

[Term]
id: BpForms:protein:AA0570
name: L-arginine thiazole-4-carboxylic acid
def: "Formed by the condensation of a cysteine thiol with the carbonyl of the preceding residue and alpha-beta dehydrogenation. Generating Enzyme: peptidyl-cysteine cyclase (EC 4.2.1.-); peptidyl-thiazoline dehydrogenase (EC 1.3.-.-)." []
synonym: "2-[(1S)-1-amino-4-([diaminomethylidene]amino)butyl]-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "mod: MOD:01899" EXACT []
synonym: "resid: AA0570" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC(=O)c1csc(n1)[C@H](CCC[NH+]=C(N)N)[NH3+]
l_bond_atoms: N8
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0507
name: L-threonine methyl ester
synonym: "cas: 3373-59-9" EXACT []
synonym: "go: GO:0044608" EXACT []
synonym: "methyl (2S,3R)-2-amino-3-hydroxybutanoate" BROAD []
synonym: "methyl L-threoninate" BROAD []
synonym: "mod: MOD:01610" EXACT []
synonym: "resid: AA0507" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: COC(=O)[C@H]([C@H](O)C)N
l_bond_atoms: N11
l_displaced_atoms: H11

[Term]
id: BpForms:protein:AA0241
name: glycine thiazole-4-carboxylic acid
def: "Formed by the condensation of a cysteine thiol with the carbonyl of the preceding residue and alpha-beta dehydrogenation. Generating Enzyme: peptidyl-cysteine cyclase (EC 4.2.1.-); peptidyl-thiazoline dehydrogenase (EC 1.3.-.-)." []
synonym: "2-(aminomethyl)-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "2-(azanylmethyl)-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "cas: 25438-22-6" EXACT []
synonym: "chebi: CHEBI:21276" EXACT []
synonym: "go: GO:0018137" EXACT []
synonym: "mod: MOD:00246" EXACT []
synonym: "pdb.ligand: BB9" EXACT []
synonym: "resid: AA0241" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [NH3+]Cc1scc(n1)C(=O)O
l_bond_atoms: N10
r_bond_atoms: C11
r_displaced_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:protein:AA0492
name: 3,3-dihydroxy-L-alanine
def: "This active site residue is formed by the spontaneous hydration of the aldehyde, 2-amino-3oxopropanoic acid. See RESID:AA0185. The PDB hetgroup FGL was originally designated as the "C(alpha)-formyl glycine" active site residue L-3-oxoalanine observed in its hydrated form. That structure, a gem-diol with an sp(3) carbon, was misinterpreted as a carboxyl with an sp(2) carbon, and assigned to aminomalonic acid (see RESID:AA0458) instead. The hetgroup DDZ is being introduced for 3,3-dihydroxyalanine. Generating Enzyme: sulfatase maturing enzyme (sulfatase modifying factor, C-alpha-formylglycine-generating enzyme) (EC 1.1.99.-) #link SER; sulfatase maturing enzyme (sulfatase modifying factor, C-alpha-formylglycine-generating enzyme) (EC 1.8.99.-) #link CYS." []
synonym: "(2S)-2-amino-3,3-dihydroxy-propanoic acid" BROAD []
synonym: "(S)-2-amino-3,3-dihydroxypropanoic acid" BROAD []
synonym: "2-(dihydroxymethyl)glycine" BROAD []
synonym: "3,3-dihydroxy l-alanine" BROAD []
synonym: "3,3-dihydroxyalanine" BROAD []
synonym: "3-hydroxy-L-serine" BROAD []
synonym: "3-oxoalanine hydrate" BROAD []
synonym: "A" BROAD []
synonym: "C(alpha)-formylglycine hydrate [misnomer]" BROAD []
synonym: "mod: MOD:01444" EXACT []
synonym: "mod: MOD:01445" EXACT []
synonym: "pdb-ccd: DDZ" EXACT []
synonym: "pdb.ligand: DDZ" EXACT []
synonym: "resid: AA0492" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC([C@@H](C(=O)O)N)O
l_bond_atoms: N8
l_displaced_atoms: H8
r_bond_atoms: C5
r_displaced_atoms: O7
r_displaced_atoms: H7

[Term]
id: BpForms:protein:AA0151
name: N4-(N-acetylamino)glucosyl-L-asparagine
def: "This modification typically occurs in extracellar peptides with an NX[ST] motif. Partial modification has been observed to occur with cysteine, rather than serine or threonine, in the third position. Secondary structure features are important, and proline in the second or fourth positions inhibits modification. See also RESID:AA0420 and RESID:AA0421 for other N4-glycosylated asparagines. The PDB has some entries with asparagine apparently alpha-glycosylated with N-acetylglucosamine, those with PDBHET:NDG. These are low resolution structures and appear to be erroneous. Generating Enzyme: dolichyl-diphosphooligosaccharide-protein glycotransferase (EC 2.4.1.119); protein N-acetylglucosaminyltransferase (EC 2.4.1.94)." []
synonym: "(2S)-2-amino-4-(2-acetamido-2-deoxy-beta-D-glucopyranosyl)amino-4-oxobutanoic acid" BROAD []
synonym: "N4-(2-acetamido-2-deoxy-beta-D-glucopyranosyl)-L-asparagine" BROAD []
synonym: "N4-(2-acetylamino-2-deoxy-beta-D-glucopyranosyl)-L-asparagine" BROAD []
synonym: "N4-(N-acetylglucosaminyl)asparagine" BROAD []
synonym: "N4-asparagine-beta-N-acetylglucosaminide" BROAD []
synonym: "N4-glycosyl-L-asparagine" BROAD []
synonym: "N4-glycosylasparagine" BROAD []
synonym: "cas: 10036-64-3" EXACT []
synonym: "chebi: CHEBI:17261" EXACT []
synonym: "go: GO:0006487" EXACT []
synonym: "mod: MOD:00831" EXACT []
synonym: "pdb.ligand: NAG" EXACT []
synonym: "resid: AA0151" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: OC[C@H]1O[C@@H](NC(=O)C[C@@H](C(=O)O)N)[C@@H]([C@H]([C@@H]1O)O)NC(=O)C
l_bond_atoms: N17
l_displaced_atoms: H17
r_bond_atoms: C14
r_displaced_atoms: O16
r_displaced_atoms: H16

[Term]
id: BpForms:protein:AA0100
name: L-valine amide
def: "Generating Enzyme: peptidylglycine monooxygenase (EC 1.14.17.3)." []
synonym: "(2S)-2-amino-3-methyl-butanamide" BROAD []
synonym: "(2S)-2-amino-3-methylbutanamide" BROAD []
synonym: "L-valinamide" BROAD []
synonym: "X" BROAD []
synonym: "cas: 4540-60-7" EXACT []
synonym: "chebi: CHEBI:21418" EXACT []
synonym: "go: GO:0018053" EXACT []
synonym: "mod: MOD:00109" EXACT []
synonym: "pdb-ccd: VLM" EXACT []
synonym: "pdb.ligand: NH2" EXACT []
synonym: "resid: AA0100" EXACT []
synonym: "valinamide" BROAD []
synonym: "valinylamine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:V ! L-valine
structure: [NH3+][C@H](C(=O)N)C(C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1

[Term]
id: BpForms:protein:AA0474
name: L-serine 5-methyloxazole-4-carboxylic acid
def: "Formed by the condensation of a threonine hydroxyl with the carbonyl of the preceding residue and alpha-beta dehydrogenation. Generating Enzyme: peptidyl-threonine cyclase (EC 4.2.1.-); peptidyl-oxazoline dehydrogenase (EC 1.3.-.-)." []
synonym: "2-[(1S)-1-amino-2-hydroxyethyl]-5-methyl-1,3-oxazole-4-carboxylic acid" BROAD []
synonym: "2-[1-azanyl-2-hydroxyethyl]-5-methyl-1,3-oxazole-4-carboxylic acid" BROAD []
synonym: "mod: MOD:01397" EXACT []
synonym: "resid: AA0474" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: OC[C@@H](c1oc(c(n1)C(=O)O)C)N
l_bond_atoms: N9
r_bond_atoms: C10
r_displaced_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:protein:AA0369
name: 3,4-dihydroxy-L-arginine
def: "Hydroxylations at C-3 and C-4 are assumed. Neither the positions of the hydroxylations nor the stereochemistry for the chiral centers they produce have been determined. The (2S,3R,4R) stereoisomer is shown." []
synonym: "(2S,3Xi,4Xi)-2-amino-5-carbamimidamido-3,4-dihydroxypentanoic acid" BROAD []
synonym: "2-amino-5-guanidino-3,4-dihydroxypentanoic acid" BROAD []
synonym: "beta,gamma-dihydroxyarginine" BROAD []
synonym: "go: GO:0030961" EXACT []
synonym: "mod: MOD:00374" EXACT []
synonym: "resid: AA0369" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: O[C@@H]([C@@H]([C@@H](C(=O)O)N)O)C[NH+]=C(N)N
l_bond_atoms: N11
l_displaced_atoms: H11
r_bond_atoms: C8
r_displaced_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:protein:AA0562
name: L-cysteinyl L-phenylalanine sulfenamide
def: "This cross-link is formed by the condensation of a cysteine residue sulfhydryl with the alpha-amido of the following residue. Generating Enzyme: autocatalytic." []
synonym: "(2S)-2-[(4R)-4-amino-3-oxo-1,2-thiazolidin-2-yl]-3-phenylpropanoic acid" BROAD []
synonym: "2-(4-amino-3-oxo-isothiazolidin-2-yl)-3-phenylpropanoic acid" BROAD []
synonym: "4-amino-3-isothiazolidinone-L-phenylalanine" BROAD []
synonym: "cysteinyl phenylalanine sulfenamide" BROAD []
synonym: "mod: MOD:01859" EXACT []
synonym: "phenylalanine-cysteine sulfenyl amide cross-link" BROAD []
synonym: "phenylalanine-cysteine sulphenyl amide cross-link" BROAD []
synonym: "resid: AA0562" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [NH3+][C@H]1CSN(C1=O)[C@H](C(=O)O)Cc1ccccc1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C14
r_displaced_atoms: O16
r_displaced_atoms: H16

[Term]
id: BpForms:protein:AA0267
name: O-(phospho-5'-adenosine)-L-threonine
synonym: "(2S,3R)-2-amino-3-(5'-adenosine phosphonoxy)butanoic acid" BROAD []
synonym: "5'-adenylic-O3-L-threonine" BROAD []
synonym: "L-threonine monoanhydride with 5'-adenylic acid" BROAD []
synonym: "O(gamma)-5'-adenylic-L-threonine" BROAD []
synonym: "O3-(phospho-5'-adenosine)-L-threonine" BROAD []
synonym: "O3-L-threonine 5'-adenosine phosphodiester" BROAD []
synonym: "beta-5'-adenylic-L-threonine" BROAD []
synonym: "go: GO:0018178" EXACT []
synonym: "mod: MOD:00272" EXACT []
synonym: "resid: AA0267" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: OC(=O)[C@H]([C@H](OP(=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1ncnc2N)[O-])C)[NH3+]
l_bond_atoms: N36-1
l_displaced_atoms: H36
l_displaced_atoms: H36+1
r_bond_atoms: C2
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:protein:AA0340
name: 2-(S-L-cysteinyl)-L-phenylalanine
def: "The L-stereoisomer of the 2-S-cysteinyl substituted phenylalanine has R configuration." []
synonym: "(2R)-2-amino-2-[(2R)-2-amino-2-carboxyethyl]sulfanyl-3-phenylpropanoic acid" BROAD []
synonym: "(2R,5R)-2,5-diamino-3-thia-2-phenylmethylhexanedioic acid" BROAD []
synonym: "alpha-(L-cystein-S-yl)-L-phenylalanine" BROAD []
synonym: "go: GO:0046924" EXACT []
synonym: "mod: MOD:00345" EXACT []
synonym: "resid: AA0340" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@@](Cc1ccccc1)(SC[C@@H](C(=O)O)[NH3+])N
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C15
r_displaced_atoms: O17
r_displaced_atoms: H17

[Term]
id: BpForms:protein:AA0569
name: N,N-dimethyl-L-arginine
def: "This modification should not be confused with omega-N,omega-N'-dimethyl-L-arginine (see RESID:AA0067) or omega-N,omega-N-dimethyl-L-arginine (see RESID:AA0068)." []
synonym: "(2S)-5-[(diaminomethylidene)amino]-2-(dimethylamino)pentanoic acid" BROAD []
synonym: "(2S)-5-carbamimidamido-2-(dimethylamino)pentanoic acid [tautomer]" BROAD []
synonym: "N(alpha),N(alpha)-dimethylarginine" BROAD []
synonym: "N2,N2-dimethylarginine" BROAD []
synonym: "cas: 190784-00-0" EXACT []
synonym: "mod: MOD:01898" EXACT []
synonym: "resid: AA0569" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: C[NH+]([C@H](C(=O)O)CCC[NH+]=C(N)N)C
l_bond_atoms: N15
l_displaced_atoms: H15
r_bond_atoms: C6
r_displaced_atoms: O8
r_displaced_atoms: H8

[Term]
id: BpForms:protein:AA0107
name: S-diacylglycerol-L-cysteine
def: "The oleate and palmitate actually represent mixtures of saturated (generally at 3') and unsaturated (generally at 2') fatty acids. The signal peptide that is cleaved immediately before the modified cysteine typically ends in the motif [ILMV]X[AGS]C. Cleavage and formation of this modification may occur without N-palmitoylation, see RESID:AA0060." []
synonym: "(2R)-2-amino-3-[(2S)-2-((9Z)-9-octadecenoyloxy)-3-(hexadecanoyloxy)propyl]sulfanylpropanoic acid" BROAD []
synonym: "2-amino-3-[(S)-2-((Z)-9-octadecenoyloxy)-3-(hexadecanoyloxy)propyl]thiopropanoic acid" BROAD []
synonym: "S-(1-2'-oleoyl-3'-palmitoyl-glycerol)cysteine" BROAD []
synonym: "go: GO:0018231" EXACT []
synonym: "mod: MOD:00116" EXACT []
synonym: "pdb.ligand: DGA" EXACT []
synonym: "resid: AA0107" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: CCCCCCCCCCCCCCCC(=O)OC[C@H](OC(=O)CCCCCCC/C=C\CCCCCCCC)CSC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N50-1
l_displaced_atoms: H50
l_displaced_atoms: H50+1
r_bond_atoms: C47
r_displaced_atoms: O49
r_displaced_atoms: H49

[Term]
id: BpForms:protein:AA0073
name: 3'-methyl-L-histidine
def: "In the older biochemical literature this is usually called 1-methylhistidine. See also RESID:AA0317. The crystallographic designation for the substituted nitrogen is delta-1, D1. Generating Enzyme: protein-histidine N(pi)-methyltransferase (EC 2.1.1.-)." []
synonym: "(2S)-2-amino-3-(3-methyl-3H-imidazol-4-yl)propanoic acid" BROAD []
synonym: "(2S)-2-amino-3-(3-methylimidazol-4-yl)propanoic acid" BROAD []
synonym: "1-methylhistidine [misnomer]" BROAD []
synonym: "3-methyl-L-histidine" BROAD []
synonym: "H" BROAD []
synonym: "N(delta)-methylhistidine" BROAD []
synonym: "N(pi)-methylhistidine" BROAD []
synonym: "cas: 368-16-1" EXACT []
synonym: "chebi: CHEBI:43903" EXACT []
synonym: "go: GO:0018021" EXACT []
synonym: "mod: MOD:00082" EXACT []
synonym: "n1-methylated histidine" BROAD []
synonym: "pdb-ccd: MHS" EXACT []
synonym: "pdb.ligand: MHS" EXACT []
synonym: "pros-methylhistidine" BROAD []
synonym: "resid: AA0073" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: Cn1cncc1C[C@H]([NH3+])C(=O)O
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C14
r_displaced_atoms: O16
r_displaced_atoms: H16

[Term]
id: BpForms:protein:AA0029
name: 3-hydroxy-L-proline
def: "There are at least three different genes for procollagen-proline 3-dioxygenase in mammals with different specificities and patterns of tissue expression. Usually proline 3-hydroxylation occurs at the second position of specific GPP sequences in collagen chains and is preceded by proline 4-hydroxylation of the proline in the third position. See RESID:AA0030. Generating Enzyme: procollagen-proline 3-dioxygenase (EC 1.14.11.7)." []
synonym: "(2S,3S)-3-hydroxypyrrolidine-2-carboxylic acid" BROAD []
synonym: "(3S)-3-hydroxy-L-proline" BROAD []
synonym: "3-hydroxyproline" BROAD []
synonym: "3-trans-hydroxy-L-proline" BROAD []
synonym: "L-threo-3-hydroxyproline" BROAD []
synonym: "P" BROAD []
synonym: "beta-hydroxypyrrolidine-alpha-carboxylic acid" BROAD []
synonym: "cas: 4298-08-2" EXACT []
synonym: "chebi: CHEBI:16889" EXACT []
synonym: "go: GO:0018400" EXACT []
synonym: "mod: MOD:00038" EXACT []
synonym: "pdb-ccd: HY3" EXACT []
synonym: "pdb.ligand: HY3" EXACT []
synonym: "resid: AA0029" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: O[C@H]1CC[NH2+][C@@H]1C(=O)O
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C11
r_displaced_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:protein:AA0513
name: trithiocystine
synonym: "(2R,2'R)-3,3'-pentasulfane-1,5-diylbis(2-aminopropanoic acid)" BROAD []
synonym: "3,3'-pentathiobisalanine" BROAD []
synonym: "bis(2-amino-2-carboxyethyl)pentasulfide" BROAD []
synonym: "mod: MOD:01616" EXACT []
synonym: "pdb.ligand: S3H" EXACT []
synonym: "resid: AA0513" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C[C@H](CSSSSSC[C@@H](C(=O)O)[NH3+])[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C14
r_displaced_atoms: O16
r_displaced_atoms: H16

[Term]
id: BpForms:protein:AA0070
name: N4-methyl-L-asparagine
synonym: "(2S)-2-amino-4-methylamino-4-oxo-butanoic acid" BROAD []
synonym: "(2S)-2-amino-N4-methylbutanediamic acid" BROAD []
synonym: "N" BROAD []
synonym: "N(gamma)-methylasparagine" BROAD []
synonym: "N-methyl-L-asparagine" BROAD []
synonym: "N-methylasparagine" BROAD []
synonym: "beta-aspartyl methylamide" BROAD []
synonym: "beta-methylasparagine [misnomer]" BROAD []
synonym: "cas: 7175-34-0" EXACT []
synonym: "chebi: CHEBI:61960" EXACT []
synonym: "go: GO:0019710" EXACT []
synonym: "mod: MOD:00079" EXACT []
synonym: "n-methyl asparagine" BROAD []
synonym: "pdb-ccd: MEN" EXACT []
synonym: "pdb.ligand: MEN" EXACT []
synonym: "resid: AA0070" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: CNC(=O)C[C@@H](C(=O)O)N
l_bond_atoms: N11
l_displaced_atoms: H11
r_bond_atoms: C8
r_displaced_atoms: O10
r_displaced_atoms: H10

[Term]
id: BpForms:protein:AA0043
name: N-acetyl-L-cysteine
def: "See also RESID:AA0044." []
synonym: "(2R)-2-acetamido-3-sulfanylpropanoic acid" BROAD []
synonym: "2-acetylamino-3-mercaptopropanoic acid" BROAD []
synonym: "2-acetylamino-3-sulfanylpropanoic acid" BROAD []
synonym: "2-acetylazanyl-3-sulfanylpropanoic acid" BROAD []
synonym: "N-acetylcysteine" BROAD []
synonym: "cas: 616-91-1" EXACT []
synonym: "chebi: CHEBI:28939" EXACT []
synonym: "go: GO:0018275" EXACT []
synonym: "mod: MOD:00052" EXACT []
synonym: "resid: AA0043" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: SC[C@@H](C(=O)O)NC(=O)C
l_bond_atoms: N8
l_displaced_atoms: H8
r_bond_atoms: C5
r_displaced_atoms: O7
r_displaced_atoms: H7

[Term]
id: BpForms:protein:AA0183
name: (Z)-2,3-didehydrotyrosine
synonym: "(2Z)-2-amino-3-(4-hydroxyphenyl)prop-2-enoic acid" BROAD []
synonym: "2-[(4Z)-2-[(1S)-1-amino-3-methylsulfanyl-propyl]-4-[(4-hydroxyphenyl)methylidene]-5-oxo-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "MYG" BROAD []
synonym: "amino-(para-hydroxybenzylidenyl)acetic acid" BROAD []
synonym: "cis-dehydrotyrosine" BROAD []
synonym: "go: GO:0018251" EXACT []
synonym: "green fluorescent protein chromophore" BROAD []
synonym: "mod: MOD:00191" EXACT []
synonym: "para-hydroxybenzylidene-imidazolidinone chromophore" BROAD []
synonym: "pdb-ccd: CH6" EXACT []
synonym: "pdb.ligand: CH6" EXACT []
synonym: "red fluorescent protein chromophore" BROAD []
synonym: "resid: AA0183" EXACT []
synonym: "{(4Z)-2-[(1S)-1-amino-3-(methylsulfanyl)propyl]-4-[(4-hydroxyphenyl)methylidene]-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic acid" BROAD []
synonym: "{(4z)-2-[(1s)-1-amino-3-(methylsulfanyl)propyl]-4-[(4-hydroxyphenyl)methylidene]-5-oxo-4,5-dihydro-1h-imidazol-1-yl}acetic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: Oc1ccc(cc1)/C=C(/C(=O)O)\N
l_bond_atoms: N13
l_displaced_atoms: H13
r_bond_atoms: C10
r_displaced_atoms: O12
r_displaced_atoms: H12

[Term]
id: BpForms:protein:AA0339
name: N-palmitoyl-glycine
def: "This modification should not be confused with N-myristoyl-glycine (see RESID:AA0059). Generating Enzyme: glycylpeptide N-palmitoyltransferase (EC 2.3.1.-)." []
synonym: "(hexadecanamido)acetic acid" BROAD []
synonym: "(hexadecanoylamino)acetic acid" BROAD []
synonym: "(hexadecanoylamino)ethanoic acid" BROAD []
synonym: "N-(1-oxohexadecyl)glycine" BROAD []
synonym: "cas: 2441-41-0" EXACT []
synonym: "go: GO:0046918" EXACT []
synonym: "mod: MOD:00344" EXACT []
synonym: "pdb.ligand: 140" EXACT []
synonym: "resid: AA0339" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:G ! glycine
structure: CCCCCCCCCCCCCCCC(=O)NCC(=O)O
l_bond_atoms: N18
l_displaced_atoms: H18
r_bond_atoms: C20
r_displaced_atoms: O22
r_displaced_atoms: H22

[Term]
id: BpForms:protein:AA0547
name: (E)-dehydrobutyrine
def: "In some cases it has not been firmly established whether the natural form is the Z or the E isomer. For the Z isomer, see RESID:AA0182. A 2,3-didehydro amino acid blocks Edman degradation. Generating Enzyme: protein-threonine dehydratase (EC 4.2.1.-)." []
synonym: "(2E)-2-aminobut-2-enoic acid" BROAD []
synonym: "(E)-2-amino-2-butenoic acid" BROAD []
synonym: "(E)-2-aminobutenoic acid" BROAD []
synonym: "2,3-didehydrobutyrine" BROAD []
synonym: "3-methyldehydroalanine" BROAD []
synonym: "Dhb" BROAD []
synonym: "alpha,beta-dehydroaminobutyric acid" BROAD []
synonym: "anhydrothreonine" BROAD []
synonym: "methyl-dehydroalanine" BROAD []
synonym: "mod: MOD:00190" EXACT []
synonym: "resid: AA0547" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: C/C=C(\C(=O)O)/N
l_bond_atoms: N7
l_displaced_atoms: H7
r_bond_atoms: C4
r_displaced_atoms: O6
r_displaced_atoms: H6

[Term]
id: BpForms:protein:AA0587
name: Desmosine
def: "After the oxidation of three of the four lysines to allysine (see RESID:AA0121), this cross-link forms spontaneously with a Schiff-base reaction, and a series of one aldimine and two aldol condensation reactions. In this aleatoric modification up to four peptide chains may be crosslinked, with each peptide contributing a lysine potentially in any of the four biosynthetic positions. Isodesmosine is a structural isomer (see RESID:AA0588). Up to two of the lysines forming the cross-link may also be hydroxylated and glycosylated (see RESID:AA0028 and RESID:AA0153). Generating Enzyme: lysyl oxidase (EC 1.4.3.13)." []
synonym: "4-[(4S)-4-amino-4-carboxybutyl]-1-[(5S)-5-amino-5-carboxypentyl]-3,5-bis[(3S)-3-amino-3-carboxypropyl]pyridinium" BROAD []
synonym: "6-[4-(4-amino-4-carboxybutyl)-3,5-bis(3-amino-3-carboxypropyl)pyridinio]norleucine" BROAD []
synonym: "cas: 11003-57-9" EXACT []
synonym: "chebi: CHEBI:37629" EXACT []
synonym: "mod: MOD:01933" EXACT []
synonym: "resid: AA0587" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O=C[C@H](CCC1=C[NH+](CCCC[C@@H](C(=O)O)[NH3+])C=C([C@H]1CCC[C@@H](C=O)[NH3+])CC[C@@H](C=O)[NH3+])[NH3+]
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C17
r_displaced_atoms: O19
r_displaced_atoms: H19

[Term]
id: BpForms:protein:AA0419
name: N-methyl-L-proline
def: "Generating Enzyme: N-terminal RCC1 methyltransferase (EC 2.1.1.-)." []
synonym: "(S)-1-methylpyrrolidine-2-carboxylic acid" BROAD []
synonym: "1-methylpyrrolidine-2-carboxylic acid" BROAD []
synonym: "cas: 475-11-6" EXACT []
synonym: "go: GO:0035568" EXACT []
synonym: "hygric acid" BROAD []
synonym: "mod: MOD:00830" EXACT []
synonym: "resid: AA0419" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: C[NH+]1CCC[C@H]1C(=O)O
r_bond_atoms: C9
r_displaced_atoms: O11
r_displaced_atoms: H11

[Term]
id: BpForms:protein:AA0473
name: 5-hydroxy-3-methyl-L-proline
def: "The stereochemistry at C3 and C5 has not been resolved, but (3S) can be assumed by derivation from L-isoleucine. The (3S,5S) form is shown." []
synonym: "(2S,3S,5Xi)-5-hydroxy-3-methylpyrrolidine-2-carboxylic acid" BROAD []
synonym: "5-hydroxy-3-methylproline" BROAD []
synonym: "beta-methyl-delta-hydroxyproline" BROAD []
synonym: "mod: MOD:01897" EXACT []
synonym: "resid: AA0473" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:I ! L-isoleucine
structure: C[C@H]1C[C@@H]([NH2+][C@@H]1C(=O)O)O
l_bond_atoms: N7-1
l_displaced_atoms: H7
l_displaced_atoms: H7+1
r_bond_atoms: C12
r_displaced_atoms: O14
r_displaced_atoms: H14

[Term]
id: BpForms:protein:AA0143
name: S-(8alpha-FAD)-L-cysteine
def: "The arrangement of the attachment has not been completely established in some cases. The keyword "phosphoprotein" is not used with flavin modifications linked through the flavin. Generating Enzyme: autocatalytic." []
synonym: "(2R)-2-amino-3-[8alpha-riboflavin 5'-(trihydrogen diphosphate) 5'->5'-ester with adenosine]sulfanylpropanoic acid" BROAD []
synonym: "8alpha-(S-cysteinyl)FAD" BROAD []
synonym: "go: GO:0018294" EXACT []
synonym: "mod: MOD:00152" EXACT []
synonym: "pdb.ligand: FAD" EXACT []
synonym: "resid: AA0143" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C1[N-]C(=O)C2C(N1)N(C[C@@H]([C@@H]([C@@H](CO[P@@](=O)(O[P@](=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc3c1ncnc3N)[O-])[O-])O)O)O)C1C(N2)CC(C(C1)CSC[C@@H](C(=O)O)[NH3+])C
l_bond_atoms: N67-1
l_displaced_atoms: H67
l_displaced_atoms: H67+1
r_bond_atoms: C64
r_displaced_atoms: O66
r_displaced_atoms: H66

[Term]
id: BpForms:protein:AA0564
name: N6-(4-aminobutyl)-L-lysine
def: "Deoxyhypusine is generated as an intermediate modification of initiation factor 5A, eIF5A, and as a modified lysine reaction intermediate in deoxyhypusine synthase before transfer of the 4-aminobutyl group. Generating Enzyme: autocatalytic; deoxyhypusine synthase (EC 2.5.1.46)." []
synonym: "(2S)-2-amino-6-[(4-aminobutyl)amino]hexanoic acid" BROAD []
synonym: "(2S)-2-azanyl-6-(4-azanylbutylamino)hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "N6-(4-aminobutyl)lysine" BROAD []
synonym: "N~6~-(4-aminobutyl)-L-lysine" BROAD []
synonym: "cas: 82543-85-9" EXACT []
synonym: "chebi: CHEBI:50038" EXACT []
synonym: "deoxyhypusine" BROAD []
synonym: "go: GO:0034038" EXACT []
synonym: "mod: MOD:01880" EXACT []
synonym: "pdb-ccd: 5GG" EXACT []
synonym: "resid: AA0564" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+]CCCC[NH2+]CCCC[C@@H](C(=O)O)[NH3+]
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C18
r_displaced_atoms: O20
r_displaced_atoms: H20

[Term]
id: BpForms:protein:AA0101
name: L-cysteine methyl disulfide
synonym: "(2R)-2-amino-3-(methyldisulfanediyl)propanoic acid" BROAD []
synonym: "(2R)-2-azanyl-3-methyldisulfanyl-propanoic acid" BROAD []
synonym: "2-amino-3-(methyldisulfanediyl)propanoic acid" BROAD []
synonym: "2-amino-3-(methyldithio)propanoic acid" BROAD []
synonym: "2-amino-3-methyldisulfanylpropanoic acid" BROAD []
synonym: "2-azanyl-3-(methyldisulfanediyl)-propanoic acid" BROAD []
synonym: "3-(methyldisulfanyl)-L-alanine" BROAD []
synonym: "C" BROAD []
synonym: "L-3-(methyldithio)alanine" BROAD []
synonym: "S-methylthio-L-cysteine" BROAD []
synonym: "S-methylthiocysteine" BROAD []
synonym: "cas: 33784-54-2" EXACT []
synonym: "go: GO:0018222" EXACT []
synonym: "mod: MOD:00110" EXACT []
synonym: "pdb-ccd: SCH" EXACT []
synonym: "pdb.ligand: SCH" EXACT []
synonym: "resid: AA0101" EXACT []
synonym: "s-methyl-thio-cysteine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: CSSC[C@H]([NH3+])C(=O)O
l_bond_atoms: N7-1
l_displaced_atoms: H7
l_displaced_atoms: H7+1
r_bond_atoms: C11
r_displaced_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:protein:AA0353
name: 3'-(8alpha-FMN)-L-histidine
def: "In a later publication the authors changed the enzyme activity, the connection from a histidine nitrogen to a cysteine sulfur, and the identity of the flavin from FMN to FAD. They now believe the modification is S-(8alpha-FAD)-L-cysteine, see RESID:AA0143. The keyword "phosphoprotein" is not used with flavin modifications linked through the flavin." []
synonym: "(S)-2-amino-3-(3-[8alpha riboflavin 5'-dihydrogen phosphate]imidazol-4-yl)propanoic acid" BROAD []
synonym: "8alpha-(N(delta)-histidyl)FMN" BROAD []
synonym: "8alpha-(N3'-histidyl)FMN" BROAD []
synonym: "N(pi)-(8alpha-FMN)-histidine" BROAD []
synonym: "go: GO:0050744" EXACT []
synonym: "mod: MOD:00358" EXACT []
synonym: "pros-(8alpha-FMN)-histidine" BROAD []
synonym: "resid: AA0353" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: O=C1[N-]C(=O)C2C(N1)N(C[C@@H]([C@@H]([C@@H](COP(=O)([O-])[O-])O)O)O)C1C(N2)CC(C(C1)Cn1cncc1C[C@@H](C(=O)O)[NH3+])C
l_bond_atoms: N45-1
l_displaced_atoms: H45
l_displaced_atoms: H45+1
r_bond_atoms: C42
r_displaced_atoms: O44
r_displaced_atoms: H44

[Term]
id: BpForms:protein:AA0291
name: O-D-glucuronosyl-L-serine
def: "The beta glucuronosyl form is shown. See also RESID:AA0154, RESID:AA0208, RESID:AA0209, RESID:AA0210, RESID:AA0296, RESID:AA0297, RESID:AA0397, RESID:AA0398, RESID:AA0400, RESID:AA0402, RESID:AA0404, RESID:AA0406, and RESID:AA0422 for other O-glycosylated serines. Generating Enzyme: UDP-glucuronate beta-D-glucuronosyltransferase (acceptor-unspecific) (EC 2.4.1.17)." []
synonym: "(2S)-2-amino-3-(beta-D-glucopyranuronosyl)propanoic acid" BROAD []
synonym: "O3-D-glucuronosyl-L-serine" BROAD []
synonym: "cas: 528-16-5" EXACT []
synonym: "go: GO:0018413" EXACT []
synonym: "mod: MOD:00296" EXACT []
synonym: "resid: AA0291" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: O=C[C@H](CO[C@H]1O[C@H](C(=O)[O-])[C@H]([C@@H]([C@H]1O)O)O)[NH3+]
l_bond_atoms: N24-1
l_displaced_atoms: H24
l_displaced_atoms: H24+1
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:004
name: (2s)-amino(phenyl)ethanoic acid
synonym: "(2S)-2-azanyl-2-phenyl-ethanoic acid" BROAD []
synonym: "(2S)-amino(phenyl)ethanoic acid" BROAD []
synonym: "pdb-ccd: 004" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@@H](c1ccccc1)C(=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:00B
name: (4r)-5,5-dimethyl-1,3-thiazolidine-4-carboxylic acid
synonym: "(4R)-5,5-dimethyl-1,3-thiazolidine-4-carboxylic acid" BROAD []
synonym: "pdb-ccd: 00B" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H]1[NH2+]CSC1(C)C
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:01W
name: (2s)-2-ammonio-4-[(2,4-dinitrophenyl)amino]butanoate
synonym: "(2S)-2-ammonio-4-[(2,4-dinitrophenyl)amino]butanoate" BROAD []
synonym: "(2S)-2-azaniumyl-4-[(2,4-dinitrophenyl)amino]butanoate" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: 01W" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](CCNc1ccc(cc1[N+](=O)[O-])[N+](=O)[O-])[NH3+]
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:02A
name: (2s)-azetidine-2-carboxylic acid
synonym: "(2S)-azetidine-2-carboxylic acid" BROAD []
synonym: "pdb-ccd: 02A" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]1CC[NH2+]1
l_bond_atoms: N8-1
l_displaced_atoms: H8
l_displaced_atoms: H8+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:02L
name: n-(2,2-dimethylpropyl)-l-asparagine
synonym: "(2S)-2-azanyl-4-(2,2-dimethylpropylamino)-4-oxidanylidene-butanoic acid" BROAD []
synonym: "N" BROAD []
synonym: "N-(2,2-dimethylpropyl)-L-asparagine" BROAD []
synonym: "pdb-ccd: 02L" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: [NH3+][C@H](C(=O)[O-])CC(=O)NCC(C)(C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:02O
name: 3-(3-tert-butyl-1,2,4-oxadiazol-5-yl)-l-alanine
synonym: "(2S)-2-azanyl-3-(3-tert-butyl-1,2,4-oxadiazol-5-yl)propanoic acid" BROAD []
synonym: "3-(3-tert-butyl-1,2,4-oxadiazol-5-yl)-L-alanine" BROAD []
synonym: "pdb-ccd: 02O" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [NH3+][C@H](C(=O)[O-])Cc1onc(n1)C(C)(C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:02V
name: (2s)-(3,4-dihydroxyphenyl)(methylamino)ethanoic acid
synonym: "(2S)-(3,4-dihydroxyphenyl)(methylamino)ethanoic acid" BROAD []
synonym: "(2S)-2-[3,4-bis(oxidanyl)phenyl]-2-(methylamino)ethanoic acid" BROAD []
synonym: "pdb-ccd: 02V" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: C[NH2+][C@@H](c1ccc(c(c1)O)O)C(=O)[O-]
l_bond_atoms: N2-1
l_displaced_atoms: H2
l_displaced_atoms: H2+1
r_bond_atoms: C15
r_displaced_atoms: O17-1

[Term]
id: BpForms:protein:02Y
name: 6-diazonio-5-oxo-l-norleucine
synonym: "(5S)-5-azanyl-6-oxidanyl-2,6-bis(oxidanylidene)hexane-1-diazonium" BROAD []
synonym: "6-diazonio-5-oxo-L-norleucine" BROAD []
synonym: "pdb-ccd: 02Y" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@@H]([NH3+])CCC(=O)C[N+]#N
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:037
name: (1s,3ar,6as)-octahydrocyclopenta[c]pyrrole-1-carboxylic acid
synonym: "(1S,3aR,6aS)-octahydrocyclopenta[c]pyrrole-1-carboxylic acid" BROAD []
synonym: "(3S,3aS,6aR)-1,2,3,3a,4,5,6,6a-octahydrocyclopenta[c]pyrrole-3-carboxylic acid" BROAD []
synonym: "pdb-ccd: 037" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [O-]C(=O)[C@H]1[NH2+]C[C@H]2[C@@H]1CCC2
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:03Y
name: 2-methyl-l-cysteine
synonym: "(2R)-2-azanyl-2-methyl-3-sulfanyl-propanoic acid" BROAD []
synonym: "2-methyl-L-cysteine" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: 03Y" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@@]([NH3+])(CS)C
l_bond_atoms: N5-1
l_displaced_atoms: H5
l_displaced_atoms: H5+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:04U
name: azanylidene-[(3s,5s)-5-carboxypyrrolidin-3-yl]imino-azanium
synonym: "(4S)-4-triaza-1,2-dien-2-ium-1-yl-L-proline" BROAD []
synonym: "P" BROAD []
synonym: "azanylidene-[(3S,5S)-5-carboxypyrrolidin-3-yl]imino-azanium" BROAD []
synonym: "pdb-ccd: 04U" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [N-]=[N+]=N[C@@H]1C[NH2+][C@@H](C1)C(=O)[O-]
l_bond_atoms: N7-1
l_displaced_atoms: H7
l_displaced_atoms: H7+1
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:04V
name: (2s)-pyrrolidine-2-carboximidic acid
synonym: "(2S)-pyrrolidine-2-carboximidic acid" BROAD []
synonym: "P" BROAD []
synonym: "pdb-ccd: 04V" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [O-]C(=[NH2+])[C@@H]1CCC[NH2+]1
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1

[Term]
id: BpForms:protein:04X
name: (2s)-5-(morpholin-4-ylmethyl)-1,2,3,6-tetrahydropyridine-2-carboxylic acid
synonym: "(2S)-5-(morpholin-4-ylmethyl)-1,2,3,6-tetrahydropyridine-2-carboxylic acid" BROAD []
synonym: "pdb-ccd: 04X" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H]1[NH2+]CC(=CC1)CN1CCOCC1
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:05N
name: (3r,4r)-4-hydroxy-3-methyl-l-proline
synonym: "(2S,3R,4R)-3-methyl-4-oxidanyl-pyrrolidine-2-carboxylic acid" BROAD []
synonym: "(3R,4R)-4-hydroxy-3-methyl-L-proline" BROAD []
synonym: "P" BROAD []
synonym: "pdb-ccd: 05N" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: O[C@H]1C[NH2+][C@@H]([C@H]1C)C(=O)[O-]
l_bond_atoms: N5-1
l_displaced_atoms: H5
l_displaced_atoms: H5+1
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:07O
name: s-[(2s)-2-phenylpropanoyl]-l-cysteine
synonym: "(2R)-2-azanyl-3-[(2S)-2-phenylpropanoyl]sulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-[(2S)-2-phenylpropanoyl]-L-cysteine" BROAD []
synonym: "pdb-ccd: 07O" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: C[C@@H](c1ccccc1)C(=O)SC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N19-1
l_displaced_atoms: H19
l_displaced_atoms: H19+1
r_bond_atoms: C16
r_displaced_atoms: O18-1

[Term]
id: BpForms:protein:08M
name: n~5~-(pyrazin-2-ylcarbonyl)-l-ornithine
synonym: "(2S)-2-azanyl-5-(pyrazin-2-ylcarbonylamino)pentanoic acid" BROAD []
synonym: "N~5~-(pyrazin-2-ylcarbonyl)-L-ornithine" BROAD []
synonym: "pdb-ccd: 08M" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])CCCNC(=O)c1cnccn1
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:0A0
name: 2-methyl-l-aspartic acid
synonym: "(2S)-2-amino-2-methyl-butanedioic acid" BROAD []
synonym: "2-methyl-L-aspartic acid" BROAD []
synonym: "D" BROAD []
synonym: "pdb-ccd: 0A0" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:D ! L-aspartic acid
structure: [O-]C(=O)C[C@@](C(=O)[O-])([NH3+])C
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:0A1
name: o-methyl-l-tyrosine
synonym: "(2S)-2-amino-3-(4-methoxyphenyl)propanoic acid" BROAD []
synonym: "O-methyl-L-tyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: 0A1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: COc1ccc(cc1)C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:0A2
name: [(1r)-1,5-diaminopentyl][bis(ethanolato)]hydroxyborate(1-)
synonym: "K" BROAD []
synonym: "[(1R)-1,5-diaminopentyl]-diethoxy-hydroxy-boron" BROAD []
synonym: "[(1R)-1,5-diaminopentyl][bis(ethanolato)]hydroxyborate(1-)" BROAD []
synonym: "pdb-ccd: 0A2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: CCO[B-]([C@H](CCCC[NH3+])[NH3+])(OCC)O
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1

[Term]
id: BpForms:protein:0A8
name: s-[(2-chloroethyl)carbamoyl]-l-cysteine
synonym: "(2R)-2-amino-3-(2-chloroethylcarbamoylsulfanyl)propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-[(2-chloroethyl)carbamoyl]-L-cysteine" BROAD []
synonym: "pdb-ccd: 0A8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@@H]([NH3+])CSC(=O)NCCCl
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:0A9
name: methyl l-phenylalaninate
synonym: "methyl (2S)-2-azanyl-3-phenyl-propanoate" BROAD []
synonym: "methyl L-phenylalaninate" BROAD []
synonym: "pdb-ccd: 0A9" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: COC(=O)[C@H](Cc1ccccc1)N
l_bond_atoms: N14
l_displaced_atoms: H14

[Term]
id: BpForms:protein:0AB
name: (3s,4s)-3-amino-4-methyl-3,4-dihydro-2h-pyran-2-one
synonym: "(3S,4S)-3-amino-4-methyl-3,4-dihydro-2H-pyran-2-one" BROAD []
synonym: "(3S,4S)-3-amino-4-methyl-3,4-dihydropyran-2-one" BROAD []
synonym: "V" BROAD []
synonym: "pdb-ccd: 0AB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:V ! L-valine
structure: O=C1OC=C[C@@H]([C@@H]1[NH3+])C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1

[Term]
id: BpForms:protein:0AH
name: o-(bromoacetyl)-l-serine
synonym: "(2S)-2-amino-3-(2-bromoethanoyloxy)propanoic acid" BROAD []
synonym: "O-(bromoacetyl)-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: 0AH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [O-]C(=O)[C@@H]([NH3+])COC(=O)CBr
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:0AK
name: (2s)-2-amino-4-(2-chloroethoxy)-4-oxobutanoic acid
synonym: "(2S)-2-amino-4-(2-chloroethoxy)-4-oxo-butanoic acid" BROAD []
synonym: "(2S)-2-amino-4-(2-chloroethoxy)-4-oxobutanoic acid (non-preferred name)" BROAD []
synonym: "D" BROAD []
synonym: "pdb-ccd: 0AK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:D ! L-aspartic acid
structure: [O-]C(=O)[C@@H]([NH3+])CC(=O)OCCCl
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:0AR
name: n-[n-[(4s)-4-azanyl-5-hydroxy-5-oxo-pentyl]carbamimidoyl]ethanamide
synonym: "(2S)-2-azanyl-5-[(N-ethanoylcarbamimidoyl)amino]pentanoic acid" BROAD []
synonym: "N~5~-(N-acetylcarbamimidoyl)-L-ornithine" BROAD []
synonym: "R" BROAD []
synonym: "pdb-ccd: 0AR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: CC(=O)NC(=[NH2+])NCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C15
r_displaced_atoms: O17-1

[Term]
id: BpForms:protein:0BN
name: 4-carbamimidoyl-l-phenylalanine
synonym: "(2S)-2-azanyl-3-(4-carbamimidoylphenyl)propanoic acid" BROAD []
synonym: "4-carbamimidoyl-L-phenylalanine" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: 0BN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [O-]C(=O)[C@H](Cc1ccc(cc1)C(=[NH2+])N)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:0CS
name: 3-[(s)-hydroperoxysulfinyl]-l-alanine
synonym: "(2R)-2-amino-3-[(S)-hydroperoxysulfinyl]propanoic acid" BROAD []
synonym: "3-[(S)-hydroperoxysulfinyl]-L-alanine" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: 0CS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@@H]([NH3+])C[S@@](=O)OO
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:0E5
name: (2s,3r)-2-azanyl-3-methyl-3-oxidanyl-pentanoic acid
synonym: "(2S,3R)-2-azanyl-3-methyl-3-oxidanyl-pentanoic acid" BROAD []
synonym: "(2S,3S)-2-amino-3-hydroxy-3-methylpentanoic acid (non-preferred name)" BROAD []
synonym: "T" BROAD []
synonym: "pdb-ccd: 0E5" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: [O-]C(=O)[C@@H]([NH3+])[C@@](CC)(O)C
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:0EA
name: (betar)-beta,3-dihydroxy-n-methyl-l-tyrosine
synonym: "(2S,3R)-3-[3,4-bis(oxidanyl)phenyl]-2-(methylamino)-3-oxidanyl-propanoic acid" BROAD []
synonym: "(betaR)-beta,3-dihydroxy-N-methyl-L-tyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: 0EA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: C[NH2+][C@@H]([C@@H](c1ccc(c(c1)O)O)O)C(=O)[O-]
l_bond_atoms: N2-1
l_displaced_atoms: H2
l_displaced_atoms: H2+1
r_bond_atoms: C18
r_displaced_atoms: O20-1

[Term]
id: BpForms:protein:0FL
name: 3-amino-n-formyl-l-alanine
synonym: "(2S)-3-azanyl-2-formamido-propanoic acid" BROAD []
synonym: "3-amino-N-formyl-L-alanine" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: 0FL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: O=CN[C@H](C(=O)[O-])C[NH3+]
l_bond_atoms: N3
l_displaced_atoms: H3
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:0G5
name: n~5~-(3-iodobenzoyl)-l-ornithine
synonym: "(2S)-2-azanyl-5-[(3-iodanylphenyl)carbonylamino]pentanoic acid" BROAD []
synonym: "N~5~-(3-iodobenzoyl)-L-ornithine" BROAD []
synonym: "pdb-ccd: 0G5" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](CCCNC(=O)c1cccc(c1)I)[NH3+]
l_bond_atoms: N19-1
l_displaced_atoms: H19
l_displaced_atoms: H19+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:0LF
name: (4r)-4-(4-phenylbutoxy)-l-proline
synonym: "(2S,4R)-4-(4-phenylbutoxy)pyrrolidine-2-carboxylic acid" BROAD []
synonym: "(4R)-4-(4-phenylbutoxy)-L-proline" BROAD []
synonym: "pdb-ccd: 0LF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [O-]C(=O)[C@H]1[NH2+]C[C@@H](C1)OCCCCc1ccccc1
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:0NC
name: n-methyl-l-alaninamide
synonym: "(2S)-2-amino-N-methyl-propanamide" BROAD []
synonym: "A" BROAD []
synonym: "N-methyl-L-alaninamide" BROAD []
synonym: "pdb-ccd: 0NC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: CNC(=O)[C@@H]([NH3+])C
l_bond_atoms: N2
l_displaced_atoms: H2

[Term]
id: BpForms:protein:0PR
name: n-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)-l-tyrosine
synonym: "(2S)-2-[[3-hydroxy-2-methyl-5-(phosphonooxymethyl)pyridin-4-yl]methylamino]-3-(4-hydroxyphenyl)propanoic acid" BROAD []
synonym: "N-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)-L-tyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: 0PR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@H](Cc1ccc(cc1)O)[NH2+]Cc1c(cnc(c1O)C)COP(=O)([O-])[O-]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:0QL
name: 3-[(2-aminoethyl)disulfanyl]-l-alanine
synonym: "(2R)-2-azanyl-3-(2-azanylethyldisulfanyl)propanoic acid" BROAD []
synonym: "3-[(2-aminoethyl)disulfanyl]-L-alanine" BROAD []
synonym: "pdb-ccd: 0QL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@@H]([NH3+])CSSCC[NH3+]
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:0RJ
name: 3-(formylamino)-l-alanine
synonym: "(2S)-2-azanyl-3-formamido-propanoic acid" BROAD []
synonym: "3-(formylamino)-L-alanine" BROAD []
synonym: "pdb-ccd: 0RJ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: O=CNC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:0TD
name: (3s)-3-(methylsulfanyl)-l-aspartic acid
synonym: "(2R,3S)-2-azanyl-3-methylsulfanyl-butanedioic acid" BROAD []
synonym: "(3S)-3-(methylsulfanyl)-L-aspartic acid" BROAD []
synonym: "pdb-ccd: 0TD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:D ! L-aspartic acid
structure: CS[C@@H]([C@@H](C(=O)[O-])[NH3+])C(=O)[O-]
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:0W6
name: (4s)-4-aminopentanoic acid
synonym: "(4S)-4-aminopentanoic acid" BROAD []
synonym: "(4S)-4-azanylpentanoic acid" BROAD []
synonym: "pdb-ccd: 0W6" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CC[C@@H]([NH3+])C
l_bond_atoms: N8-1
l_displaced_atoms: H8
l_displaced_atoms: H8+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:0WZ
name: 3-(1h-pyrazol-1-yl)-l-tyrosine
synonym: "(2S)-2-azanyl-3-(4-oxidanyl-3-pyrazol-1-yl-phenyl)propanoic acid" BROAD []
synonym: "3-(1H-pyrazol-1-yl)-L-tyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: 0WZ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@H](Cc1ccc(c(c1)n1cccn1)O)[NH3+]
l_bond_atoms: N19-1
l_displaced_atoms: H19
l_displaced_atoms: H19+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:0X9
name: n~2~-sulfamoyl-l-arginine
synonym: "(2S)-5-carbamimidamido-2-(sulfamoylamino)pentanoic acid" BROAD []
synonym: "N~2~-sulfamoyl-L-arginine" BROAD []
synonym: "pdb-ccd: 0X9" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: [O-]C(=O)[C@@H](NS(=O)(=O)N)CCCNC(=[NH2+])N
l_bond_atoms: N6
l_displaced_atoms: H6
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:0Y8
name: (4r)-4-[(7-bromoisoquinolin-1-yl)oxy]-l-proline
synonym: "(2S,4R)-4-(7-bromanylisoquinolin-1-yl)oxypyrrolidine-2-carboxylic acid" BROAD []
synonym: "(4R)-4-[(7-bromoisoquinolin-1-yl)oxy]-L-proline" BROAD []
synonym: "P" BROAD []
synonym: "pdb-ccd: 0Y8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [O-]C(=O)[C@H]1[NH2+]C[C@@H](C1)Oc1nccc2c1cc(Br)cc2
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:0YG
name: n-[(2z)-2-amino-3-(4-hydroxyphenyl)prop-2-enoyl]glycine
synonym: "2-[[(Z)-2-azanyl-3-(4-hydroxyphenyl)prop-2-enoyl]amino]ethanoic acid" BROAD []
synonym: "YG" BROAD []
synonym: "pdb-ccd: 0YG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: N/C(=C\c1ccc(cc1)O)/C(=O)NCC(=O)[O-]
l_bond_atoms: N13
l_displaced_atoms: H13
r_bond_atoms: C15
r_displaced_atoms: O17-1

[Term]
id: BpForms:protein:11Q
name: 1-(cyclohexylmethyl)-l-proline
synonym: "(2S)-1-(cyclohexylmethyl)pyrrolidine-2-carboxylic acid" BROAD []
synonym: "1-(cyclohexylmethyl)-L-proline" BROAD []
synonym: "pdb-ccd: 11Q" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [O-]C(=O)[C@@H]1CCC[NH+]1CC1CCCCC1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:11W
name: (4r)-4-[(2e)-3-{4-[(e)-phenyldiazenyl]phenyl}prop-2-en-1-yl]-l-glutamic acid
synonym: "(2S,4R)-2-azanyl-4-[(E)-3-[4-[(E)-phenyldiazenyl]phenyl]prop-2-enyl]pentanedioic acid" BROAD []
synonym: "(4R)-4-[(2E)-3-{4-[(E)-phenyldiazenyl]phenyl}prop-2-en-1-yl]-L-glutamic acid" BROAD []
synonym: "pdb-ccd: 11W" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: [NH3+][C@H](C(=O)[O-])C[C@H](C(=O)[O-])C/C=C/c1ccc(cc1)/N=N/c1ccccc1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:12L
name: (1r,2s,5s)-6,6-dimethyl-3-azabicyclo[3.1.0]hexane-2-carboxylic acid
synonym: "(1R,2S,5S)-6,6-dimethyl-3-azabicyclo[3.1.0]hexane-2-carboxylic acid" BROAD []
synonym: "(1S,4S,5R)-6,6-dimethyl-3-azabicyclo[3.1.0]hexane-4-carboxylic acid" BROAD []
synonym: "pdb-ccd: 12L" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [O-]C(=O)[C@H]1[NH2+]C[C@H]2[C@@H]1C2(C)C
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:12X
name: (4r)-4-[(8-bromo-7-methoxy-2-{2-[(2-methylpropanoyl)amino]-1,3-thiazol-4-yl}quinolin-4-yl)oxy]-l-proline
synonym: "(2S,4R)-4-[8-bromanyl-7-methoxy-2-[2-(2-methylpropanoylamino)-1,3-thiazol-4-yl]quinolin-4-yl]oxypyrrolidine-2-carboxylic acid" BROAD []
synonym: "(4R)-4-[(8-bromo-7-methoxy-2-{2-[(2-methylpropanoyl)amino]-1,3-thiazol-4-yl}quinolin-4-yl)oxy]-L-proline" BROAD []
synonym: "pdb-ccd: 12X" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: COc1ccc2c(c1Br)nc(cc2O[C@H]1C[NH2+][C@@H](C1)C(=O)[O-])c1csc(n1)NC(=O)C(C)C
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C24
r_displaced_atoms: O26-1

[Term]
id: BpForms:protein:12Y
name: (4r)-4-[(7-methoxy-2-{2-[(2-methylpropanoyl)amino]-1,3-thiazol-4-yl}quinolin-4-yl)oxy]-l-proline
synonym: "(2S,4R)-4-[7-methoxy-2-[2-(2-methylpropanoylamino)-1,3-thiazol-4-yl]quinolin-4-yl]oxypyrrolidine-2-carboxylic acid" BROAD []
synonym: "(4R)-4-[(7-methoxy-2-{2-[(2-methylpropanoyl)amino]-1,3-thiazol-4-yl}quinolin-4-yl)oxy]-L-proline" BROAD []
synonym: "pdb-ccd: 12Y" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: COc1ccc2c(c1)nc(cc2O[C@H]1C[NH2+][C@@H](C1)C(=O)[O-])c1csc(n1)NC(=O)C(C)C
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C23
r_displaced_atoms: O25-1

[Term]
id: BpForms:protein:13E
name: n-[(2s)-2-amino-3-phenylpropyl]-l-methionine
synonym: "(2S)-2-[[(2S)-2-azanyl-3-phenyl-propyl]amino]-4-methylsulfanyl-butanoic acid" BROAD []
synonym: "N-[(2S)-2-amino-3-phenylpropyl]-L-methionine" BROAD []
synonym: "pdb-ccd: 13E" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CSCC[C@@H](C(=O)[O-])[NH2+]C[C@H](Cc1ccccc1)[NH3+]
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:143
name: s-2,3-dihydro-5-glycin-2-yl-isoxazol-3-yl-cysteine
synonym: "(2R)-2-amino-3-[[(3R)-5-[(1S)-1-amino-2-hydroxy-2-oxo-ethyl]-2,3-dihydro-1,2-oxazol-3-yl]sulfanyl]propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-{(3R)-5-[(S)-amino(carboxy)methyl]-2,3-dihydroisoxazol-3-yl}-L-cysteine" BROAD []
synonym: "pdb-ccd: 143" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@H](CS[C@H]1NOC(=C1)[C@@H](C(=O)[O-])[NH3+])[NH3+]
l_bond_atoms: N19-1
l_displaced_atoms: H19
l_displaced_atoms: H19+1
r_bond_atoms: C16
r_displaced_atoms: O18-1

[Term]
id: BpForms:protein:175
name: 3,5-dihydro-5-methylidene-4h-imidazol-4-on
synonym: "2-[2-[(1S)-1-aminoethyl]-4-(aminomethyl)-5-oxo-imidazolidin-1-yl]ethanoic acid" BROAD []
synonym: "ASG" BROAD []
synonym: "[(2S,4S)-2-[(1S)-1-aminoethyl]-4-(aminomethyl)-5-oxoimidazolidin-1-yl]acetic acid" BROAD []
synonym: "pdb-ccd: 175" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(NC(C1=O)C[NH3+])[C@@H]([NH3+])C
l_bond_atoms: N7
l_displaced_atoms: H7
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:193
name: (2s)-4-(beta-alanylamino)-2-aminobutanoic acid
synonym: "(2S)-2-amino-4-(3-aminopropanoylamino)butanoic acid" BROAD []
synonym: "(2S)-4-(beta-alanylamino)-2-aminobutanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: 193" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])CCNC(=O)CC[NH3+]
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:19W
name: 5-(aminooxy)-l-norvaline
synonym: "(2S)-2-azanyl-5-azanyloxy-pentanoic acid" BROAD []
synonym: "5-(aminooxy)-L-norvaline" BROAD []
synonym: "pdb-ccd: 19W" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: NOCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:1C3
name: 1-(3,4,5-trimethoxybenzyl)-l-proline
synonym: "(2S)-1-[(3,4,5-trimethoxyphenyl)methyl]pyrrolidine-2-carboxylic acid" BROAD []
synonym: "1-(3,4,5-trimethoxybenzyl)-L-proline" BROAD []
synonym: "pdb-ccd: 1C3" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: COc1cc(CN2CCC[C@H]2C(=O)[O-])cc(c1OC)OC
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:1E3
name: (2s)-2,9-diaminononanoic acid
synonym: "(2S)-2,9-bis(azanyl)nonanoic acid" BROAD []
synonym: "(2S)-2,9-diaminononanoic acid" BROAD []
synonym: "pdb-ccd: 1E3" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]CCCCCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:1G2
name: (2s)-2-azido-3-phenylpropanoic acid
synonym: "(2S)-2-azido-3-phenyl-propanoic acid" BROAD []
synonym: "(2S)-2-azido-3-phenylpropanoic acid" BROAD []
synonym: "pdb-ccd: 1G2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H](N=[N+]=[N-])Cc1ccccc1
l_bond_atoms: N6
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:1G3
name: (2s)-1-[4-(aminomethyl)phenyl]-4-(methylsulfonyl)butan-2-amine
synonym: "(2S)-1-[4-(aminomethyl)phenyl]-4-(methylsulfonyl)butan-2-amine" BROAD []
synonym: "(2S)-1-[4-(aminomethyl)phenyl]-4-methylsulfonyl-butan-2-amine" BROAD []
synonym: "pdb-ccd: 1G3" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]Cc1ccc(cc1)C[C@@H](CCS(=O)(=O)C)[NH3+]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1

[Term]
id: BpForms:protein:1ME
name: (2s)-2-amino-3-methylsulfanyl-butanoic acid
synonym: "(2S)-2-amino-3-methylsulfanyl-butanoic acid" BROAD []
synonym: "pdb-ccd: 1ME" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CSC([C@H](C(=O)[O-])[NH3+])C
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:1MH
name: 3-pyridin-3-yl-l-alanine
synonym: "(2S)-2-azanyl-3-pyridin-3-yl-propanoic acid" BROAD []
synonym: "3-pyridin-3-yl-L-alanine" BROAD []
synonym: "pdb-ccd: 1MH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](Cc1cccnc1)[NH3+]
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:1OP
name: o-(5-hydroxypentyl)-l-tyrosine
synonym: "(2S)-2-azanyl-3-[4-(5-oxidanylpentoxy)phenyl]propanoic acid" BROAD []
synonym: "O-(5-hydroxypentyl)-L-tyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: 1OP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: OCCCCCOc1ccc(cc1)C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C17
r_displaced_atoms: O19-1

[Term]
id: BpForms:protein:1PA
name: 4-(carboxymethyl)-l-phenylalanine
synonym: "(2S)-2-azanyl-3-[4-(carboxymethyl)phenyl]propanoic acid" BROAD []
synonym: "4-(carboxymethyl)-L-phenylalanine" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: 1PA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [O-]C(=O)Cc1ccc(cc1)C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:1PI
name: (3r)-3-[(2s)-2-amino-3-oxopropyl]piperidine-1-carboximidamide
synonym: "(3R)-3-[(2S)-2-amino-3-oxopropyl]piperidine-1-carboximidamide" BROAD []
synonym: "(3R)-3-[(2S)-2-azanyl-3-oxo-propyl]piperidine-1-carboximidamide" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: 1PI" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@H](C[C@H]1CCCN(C1)C(=[NH2+])N)[NH3+]
l_bond_atoms: N19-1
l_displaced_atoms: H19
l_displaced_atoms: H19+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:1TQ
name: 6-(formylamino)-7-hydroxy-l-tryptophan
synonym: "(2S)-2-amino-3-(6-formamido-7-hydroxy-1H-indol-3-yl)propanoic acid" BROAD []
synonym: "6-(formylamino)-7-hydroxy-L-tryptophan" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: 1TQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: O=CNc1ccc2c(c1O)[nH]cc2C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C18
r_displaced_atoms: O20-1

[Term]
id: BpForms:protein:1TX
name: (2s)-2-amino-7-methoxy-7-oxoheptanoic acid
synonym: "(2S)-2-amino-7-methoxy-7-oxoheptanoic acid" BROAD []
synonym: "(2S)-2-azanyl-7-methoxy-7-oxidanylidene-heptanoic acid" BROAD []
synonym: "pdb-ccd: 1TX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: COC(=O)CCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:1TY
name: 3-{(3e)-4-hydroxy-6-oxo-3-[(2-phenylethyl)imino]cyclohexa-1,4-dien-1-yl}alanine
synonym: "(2S)-2-amino-3-[(3E)-4-hydroxy-6-oxo-3-phenethylimino-1-cyclohexa-1,4-dienyl]propanoic acid" BROAD []
synonym: "3-{(3E)-4-hydroxy-6-oxo-3-[(2-phenylethyl)imino]cyclohexa-1,4-dien-1-yl}-L-alanine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: 1TY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [NH3+][C@H](C(=O)[O-])CC1=C/C(=N\CCc2ccccc2)/C(=CC1=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:1U8
name: (3s)-3-amino-5-[(2,6-dimethylbenzoyl)oxy]-4-oxopentanoic acid
synonym: "(3S)-3-amino-5-[(2,6-dimethylbenzoyl)oxy]-4-oxopentanoic acid" BROAD []
synonym: "(3S)-3-azanyl-5-(2,6-dimethylphenyl)carbonyloxy-4-oxidanylidene-pentanoic acid" BROAD []
synonym: "pdb-ccd: 1U8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)C[C@@H](C(=O)COC(=O)c1c(C)cccc1C)[NH3+]
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:1VR
name: (3r)-3-amino-4-methylpentanoic acid
synonym: "(3R)-3-amino-4-methylpentanoic acid" BROAD []
synonym: "(3R)-3-azanyl-4-methyl-pentanoic acid" BROAD []
synonym: "pdb-ccd: 1VR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@@H](C(C)C)CC(=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:1X6
name: o-[(2e)-3-aminoprop-2-enoyl]-l-serine
synonym: "(2S)-2-azanyl-3-[(E)-3-azanylprop-2-enoyl]oxy-propanoic acid" BROAD []
synonym: "O-[(2E)-3-aminoprop-2-enoyl]-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: 1X6" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [O-]C(=O)[C@@H]([NH3+])COC(=O)/C=C/N
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:1XW
name: (1as,4s,6ar,7as)-octahydro-1h-cyclopropa[4,5]pyrrolo[1,2-a]pyrazine-4-carboxylic acid
synonym: "(1aS,4S,6aR,7aS)-1a,3,4,5,6,6a,7,7a-octahydro-1H-cyclopropa[3,4]pyrrolo[3,5-b]pyrazine-4-carboxylic acid" BROAD []
synonym: "(1aS,4S,6aR,7aS)-octahydro-1H-cyclopropa[4,5]pyrrolo[1,2-a]pyrazine-4-carboxylic acid" BROAD []
synonym: "pdb-ccd: 1XW" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H]1NC[C@@H]2[NH+](C1)[C@H]1C[C@H]1C2
l_bond_atoms: N6
l_displaced_atoms: H6
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:200
name: 4-chloro-l-phenylalanine
synonym: "(2S)-2-amino-3-(4-chlorophenyl)propanoic acid" BROAD []
synonym: "4-chloro-L-phenylalanine" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: 200" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [NH3+][C@H](C(=O)[O-])Cc1ccc(cc1)Cl
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:22G
name: n-[(2s)-2-amino-3-phenylpropyl]-l-tyrosine
synonym: "(2S)-2-[[(2S)-2-azanyl-3-phenyl-propyl]amino]-3-(4-hydroxyphenyl)propanoic acid" BROAD []
synonym: "N-[(2S)-2-amino-3-phenylpropyl]-L-tyrosine" BROAD []
synonym: "pdb-ccd: 22G" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](Cc1ccc(cc1)O)[NH2+]C[C@H](Cc1ccccc1)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:23P
name: 3-(propanoylamino)-l-alanine
synonym: "(2S)-2-azanyl-3-(propanoylamino)propanoic acid" BROAD []
synonym: "3-(propanoylamino)-L-alanine" BROAD []
synonym: "pdb-ccd: 23P" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@@H]([NH3+])CNC(=O)CC
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:23S
name: (s)-2-amino-3-(6h-selenolo[2,3-b]-pyrrol-4-yl)-propionic acid
synonym: "(2S)-2-amino-3-(6H-selenopheno[3,2-d]pyrrol-4-yl)propanoic acid" BROAD []
synonym: "3-(6H-selenopheno[2,3-b]pyrrol-4-yl)-L-alanine" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: 23S" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])Cc1c[nH]c2c1cc[se]2
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:26B
name: o-tert-butyl-n-[(3-{[(2,4,6-trimethylphenyl)carbamoyl]amino}naphthalen-2-yl)carbonyl]-l-threonine
synonym: "(2S,3R)-3-[(2-methylpropan-2-yl)oxy]-2-[[3-[(2,4,6-trimethylphenyl)carbamoylamino]naphthalen-2-yl]carbonylamino]butanoic acid" BROAD []
synonym: "O-tert-butyl-N-[(3-{[(2,4,6-trimethylphenyl)carbamoyl]amino}naphthalen-2-yl)carbonyl]-L-threonine" BROAD []
synonym: "T" BROAD []
synonym: "pdb-ccd: 26B" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: O=C(Nc1c(C)cc(cc1C)C)Nc1cc2ccccc2cc1C(=O)N[C@@H]([C@H](OC(C)(C)C)C)C(=O)[O-]
l_bond_atoms: N26
l_displaced_atoms: H26
r_bond_atoms: C37
r_displaced_atoms: O39-1

[Term]
id: BpForms:protein:28X
name: o-[(r)-{[(3r)-3,4-dihydroxybutyl]oxy}(hydroxy)phosphoryl]-l-threonine
synonym: "(2S,3R)-2-azanyl-3-[[(3R)-3,4-bis(oxidanyl)butoxy]-oxidanyl-phosphoryl]oxy-butanoic acid" BROAD []
synonym: "O-[(R)-{[(3R)-3,4-dihydroxybutyl]oxy}(hydroxy)phosphoryl]-L-threonine" BROAD []
synonym: "pdb-ccd: 28X" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: OC[C@@H](CCOP(=O)(O[C@@H]([C@@H](C(=O)[O-])[NH3+])C)[O-])O
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C15
r_displaced_atoms: O17-1

[Term]
id: BpForms:protein:2AD
name: 2'-amino-2'-deoxyadenosine
synonym: "(2R,3S,4R,5R)-4-amino-5-(6-aminopurin-9-yl)-2-(hydroxymethyl)oxolan-3-ol" BROAD []
synonym: "2'-amino-2'-deoxyadenosine" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: 2AD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: OC[C@H]1O[C@H]([C@@H]([C@@H]1O)[NH3+])n1cnc2c1ncnc2N
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1

[Term]
id: BpForms:protein:2AG
name: (2s)-2-aminopent-4-enoic acid
synonym: "(2S)-2-aminopent-4-enoic acid" BROAD []
synonym: "(2S)-2-azanylpent-4-enoic acid" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: 2AG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@@H]([NH3+])CC=C
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:2AS
name: (2s,3s)-3-methyl-aspartic acid
synonym: "(2S,3S)-2-azanyl-1,4-dihydroxy-3-methyl-butane-1,1-dione" BROAD []
synonym: "(3S)-3-methyl-L-aspartic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: 2AS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: O[C][C@H]([C@@H]([C](=O)(=O)O)N)C
l_bond_atoms: N11
l_displaced_atoms: H11

[Term]
id: BpForms:protein:2CO
name: s-hydroperoxycysteine
synonym: "(2R)-2-amino-3-hydroperoxysulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-hydroperoxy-L-cysteine" BROAD []
synonym: "pdb-ccd: 2CO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@@H]([NH3+])CSOO
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:2DO
name: (2s)-2-aminohexane-1,1-diol
synonym: "(2S)-2-aminohexane-1,1-diol" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: 2DO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CCCC[C@@H](C(O)O)[NH3+]
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1

[Term]
id: BpForms:protein:2FM
name: s-(difluoromethyl)homocysteine
synonym: "(2S)-2-amino-4-(difluoromethylsulfanyl)butanoic acid" BROAD []
synonym: "M" BROAD []
synonym: "difluoro-L-methionine" BROAD []
synonym: "pdb-ccd: 2FM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: FC(SCC[C@@H](C(=O)[O-])[NH3+])F
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:2GX
name: beta-phenyl-l-phenylalanine
synonym: "(2S)-2-azanyl-3,3-diphenyl-propanoic acid" BROAD []
synonym: "beta-phenyl-L-phenylalanine" BROAD []
synonym: "pdb-ccd: 2GX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [NH3+][C@@H](C(c1ccccc1)c1ccccc1)C(=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C20
r_displaced_atoms: O22-1

[Term]
id: BpForms:protein:2HF
name: 2-fluoro-l-histidine
synonym: "(2S)-2-azanyl-3-(2-fluoro-1H-imidazol-3-ium-4-yl)propanoic acid" BROAD []
synonym: "3-(2-fluoro-1H-imidazol-3-ium-4-yl)-L-alanine" BROAD []
synonym: "H" BROAD []
synonym: "pdb-ccd: 2HF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: [O-]C(=O)[C@@H]([NH3+])Cc1c[nH]c(n1)F
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:2JC
name: n-ethylglycine
synonym: "2-(ethylamino)ethanoic acid" BROAD []
synonym: "N-ethylglycine" BROAD []
synonym: "pdb-ccd: 2JC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)C[NH2+]CC
l_bond_atoms: N5-1
l_displaced_atoms: H5
l_displaced_atoms: H5+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:2JF
name: (2s)-2-amino-3-oxopropyl 4-{[(2s)-2-hydroxy-4-methylpentanoyl]amino}butanoate
synonym: "(2S)-2-amino-3-oxopropyl 4-{[(2S)-2-hydroxy-4-methylpentanoyl]amino}butanoate" BROAD []
synonym: "[(2S)-2-azanyl-3-oxidanylidene-propyl] 4-[[(2S)-4-methyl-2-oxidanyl-pentanoyl]amino]butanoate" BROAD []
synonym: "pdb-ccd: 2JF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CC(C[C@@H](C(=O)NCCCC(=O)OC[C@@H](C(=O)[O-])[NH3+])O)C
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C18
r_displaced_atoms: O20-1

[Term]
id: BpForms:protein:2JG
name: (2s)-2-amino-3-oxopropyl hexanoate
synonym: "(2S)-2-amino-3-oxopropyl hexanoate" BROAD []
synonym: "[(2S)-2-azanyl-3-oxidanylidene-propyl] hexanoate" BROAD []
synonym: "pdb-ccd: 2JG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: CCCCCC(=O)OC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:2JH
name: 3-cyclobutyl-l-alanine
synonym: "(2S)-2-azanyl-3-cyclobutyl-propanoic acid" BROAD []
synonym: "3-cyclobutyl-L-alanine" BROAD []
synonym: "pdb-ccd: 2JH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@H](C(=O)[O-])CC1CCC1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:2KK
name: n~6~-(4-fluorobenzoyl)-l-lysine
synonym: "(2S)-2-azanyl-6-[(4-fluorophenyl)carbonylamino]hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "N~6~-(4-fluorobenzoyl)-L-lysine" BROAD []
synonym: "pdb-ccd: 2KK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+][C@H](C(=O)[O-])CCCCNC(=O)c1ccc(cc1)F
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:2KP
name: n~6~-(4-bromobenzoyl)-l-lysine
synonym: "(2S)-2-azanyl-6-[(4-bromophenyl)carbonylamino]hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "N~6~-(4-bromobenzoyl)-L-lysine" BROAD []
synonym: "pdb-ccd: 2KP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+][C@H](C(=O)[O-])CCCCNC(=O)c1ccc(cc1)Br
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:2KY
name: (2s)-amino(cyclopentyl)ethanoic acid
synonym: "(2S)-2-azanyl-2-cyclopentyl-ethanoic acid" BROAD []
synonym: "(2S)-amino(cyclopentyl)ethanoic acid" BROAD []
synonym: "pdb-ccd: 2KY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@H](C(=O)[O-])C1CCCC1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:2L5
name: 2-chloro-l-phenylalanine
synonym: "(2S)-2-azanyl-3-(2-chlorophenyl)propanoic acid" BROAD []
synonym: "2-chloro-L-phenylalanine" BROAD []
synonym: "pdb-ccd: 2L5" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](Cc1ccccc1Cl)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:2L6
name: (3s,6r,8as)-5-oxo-1,2,3,8a-tetrahydrospiro[indolizine-6,2'-pyrrolidine]-3-carboxylic acid
synonym: "(3S,6R,8aS)-5-oxidanylidenespiro[1,2,3,8a-tetrahydroindolizine-6,2'-pyrrolidine]-3-carboxylic acid" BROAD []
synonym: "(3S,6R,8aS)-5-oxo-1,2,3,8a-tetrahydrospiro[indolizine-6,2'-pyrrolidine]-3-carboxylic acid" BROAD []
synonym: "pdb-ccd: 2L6" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]1CC[C@@H]2N1C(=O)[C@@]1(C=C2)[NH2+]CCC1
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:2L9
name: (3ar,5as,8s,10as)-10-oxo-1,2,3,3a,5a,8,10,10a-octahydrodipyrrolo[1,2-a:3',2'-e]azepine-8-carboxylic acid
synonym: "(3aR,5aS,8S,10aS)-10-oxidanylidene-2,3,3a,5a,8,10a-hexahydro-1H-dipyrrolo[3,2-b:3',1'-f]azepine-8-carboxylic acid" BROAD []
synonym: "(3aR,5aS,8S,10aS)-10-oxo-1,2,3,3a,5a,8,10,10a-octahydrodipyrrolo[1,2-a:3',2'-e]azepine-8-carboxylic acid" BROAD []
synonym: "pdb-ccd: 2L9" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]1C=C[C@H]2N1C(=O)[C@H]1[NH2+]CC[C@@H]1C=C2
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:2LT
name: 3,5-dichloro-l-tyrosine
synonym: "(2S)-2-azanyl-3-[3,5-bis(chloranyl)-4-oxidanyl-phenyl]propanoic acid" BROAD []
synonym: "3,5-dichloro-L-tyrosine" BROAD []
synonym: "pdb-ccd: 2LT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@H](Cc1cc(Cl)c(c(c1)Cl)[O-])[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:2ML
name: 2-methylleucine
synonym: "(2S)-2-amino-2,4-dimethyl-pentanoic acid" BROAD []
synonym: "2-methyl-L-leucine" BROAD []
synonym: "L" BROAD []
synonym: "pdb-ccd: 2ML" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: CC(C[C@@](C(=O)[O-])([NH3+])C)C
l_bond_atoms: N8-1
l_displaced_atoms: H8
l_displaced_atoms: H8+1
r_bond_atoms: C5
r_displaced_atoms: O7-1

[Term]
id: BpForms:protein:2MT
name: (4r)-2,2-dimethyl-1,3-thiazolidine-4-carboxylic acid
synonym: "(4R)-2,2-dimethyl-1,3-thiazolidine-4-carboxylic acid" BROAD []
synonym: "P" BROAD []
synonym: "pdb-ccd: 2MT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [O-]C(=O)[C@@H]1CSC([NH2+]1)(C)C
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:2OR
name: amino{[(2r,3r,4s)-4-amino-2,3,5-trihydroxy-5-oxopentyl]amino}methaniminium
synonym: "R" BROAD []
synonym: "[azanyl-[[(2R,3R,4S)-4-azanyl-2,3,5-tris(oxidanyl)-5-oxidanylidene-pentyl]amino]methylidene]azanium" BROAD []
synonym: "amino{[(2R,3R,4S)-4-amino-2,3,5-trihydroxy-5-oxopentyl]amino}methaniminium" BROAD []
synonym: "pdb-ccd: 2OR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: O[C@@H]([C@@H]([C@@H](C(=O)[O-])[NH3+])O)CNC(=[NH2+])N
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:2P0
name: 1-({[(s)-hydroxy(phosphonooxy)phosphoryl]oxy}acetyl)-l-proline
synonym: "(2S)-1-[2-[hydroxy(phosphonooxy)phosphoryl]oxyethanoyl]pyrrolidine-2-carboxylic acid" BROAD []
synonym: "1-({[(S)-hydroxy(phosphonooxy)phosphoryl]oxy}acetyl)-L-proline" BROAD []
synonym: "pdb-ccd: 2P0" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [O-]C(=O)[C@@H]1CCCN1C(=O)COP(=O)(OP(=O)([O-])[O-])[O-]
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:2QD
name: (4r)-4-[3-(methylamino)-3-oxopropyl]-l-glutamic acid
synonym: "(2S,4R)-2-azanyl-4-[3-(methylamino)-3-oxidanylidene-propyl]pentanedioic acid" BROAD []
synonym: "(4R)-4-[3-(methylamino)-3-oxopropyl]-L-glutamic acid" BROAD []
synonym: "pdb-ccd: 2QD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CNC(=O)CC[C@@H](C(=O)[O-])C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C15
r_displaced_atoms: O17-1

[Term]
id: BpForms:protein:2QZ
name: n,n-dimethyl-l-threonine
synonym: "(2S,3R)-2-(dimethylamino)-3-oxidanyl-butanoic acid" BROAD []
synonym: "N,N-dimethyl-L-threonine" BROAD []
synonym: "T" BROAD []
synonym: "pdb-ccd: 2QZ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: C[NH+]([C@H](C(=O)[O-])[C@H](O)C)C
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:2R3
name: (betar)-beta-hydroxy-o-methyl-l-tyrosine
synonym: "(2S,3R)-2-azanyl-3-(4-methoxyphenyl)-3-oxidanyl-propanoic acid" BROAD []
synonym: "(betaR)-beta-hydroxy-O-methyl-L-tyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: 2R3" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: COc1ccc(cc1)[C@H]([C@@H](C(=O)[O-])[NH3+])O
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:2RX
name: o-thiophosphono-l-serine
synonym: "(2S)-2-azanyl-3-[oxidanyl(sulfanyl)phosphoryl]oxy-propanoic acid" BROAD []
synonym: "O-thiophosphono-L-serine" BROAD []
synonym: "pdb-ccd: 2RX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [O-]C(=O)[C@H](COP(=O)(O)[S-])[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:2SO
name: 3-{3-[(3r)-3,4-dihydroxybutyl]-1-(8-phenyloctyl)-1h-imidazol-3-ium-5-yl}-l-alanine
synonym: "(2S)-2-azanyl-3-[1-[(3R)-3,4-bis(oxidanyl)butyl]-3-(8-phenyloctyl)imidazol-1-ium-4-yl]propanoic acid" BROAD []
synonym: "3-{3-[(3R)-3,4-dihydroxybutyl]-1-(8-phenyloctyl)-1H-imidazol-3-ium-5-yl}-L-alanine" BROAD []
synonym: "pdb-ccd: 2SO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: OC[C@@H](CC[n+]1cc(n(c1)CCCCCCCCc1ccccc1)C[C@@H](C(=O)[O-])[NH3+])O
l_bond_atoms: N32-1
l_displaced_atoms: H32
l_displaced_atoms: H32+1
r_bond_atoms: C29
r_displaced_atoms: O31-1

[Term]
id: BpForms:protein:2TY
name: 2-hydroxy-5-{[(1e)-2-phenylethylidene]amino}-l-tyrosine
synonym: "(2S)-2-amino-3-[2,4-dihydroxy-5-(phenethylideneamino)phenyl]propanoic acid" BROAD []
synonym: "2-hydroxy-5-{[(1E)-2-phenylethylidene]amino}-L-tyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: 2TY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@H](Cc1cc(/N=C/Cc2ccccc2)c(cc1O)O)[NH3+]
l_bond_atoms: N24-1
l_displaced_atoms: H24
l_displaced_atoms: H24+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:2VA
name: 2'-(l-valyl)amino-2'-deoxyadenosine
synonym: "(2S)-2-amino-N-[(2R,3R,4S,5R)-2-(6-aminopurin-9-yl)-4-hydroxy-5-(hydroxymethyl)oxolan-3-yl]-3-methyl-butanamide" BROAD []
synonym: "2'-deoxy-2'-(L-valylamino)adenosine" BROAD []
synonym: "V" BROAD []
synonym: "pdb-ccd: 2VA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:V ! L-valine
structure: OC[C@H]1O[C@H]([C@@H]([C@@H]1O)NC(=O)[C@H](C(C)C)[NH3+])n1cnc2c1ncnc2N
l_bond_atoms: N13
l_displaced_atoms: H13

[Term]
id: BpForms:protein:2XA
name: (2r)-2-amino-3-[(4-chlorophenyl)-diphenyl-methyl]sulfanyl-propanoic acid
synonym: "(2R)-2-amino-3-[(4-chlorophenyl)-diphenyl-methyl]sulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: 2XA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: Clc1ccc(cc1)C(c1ccccc1)(c1ccccc1)SC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N28-1
l_displaced_atoms: H28
l_displaced_atoms: H28+1
r_bond_atoms: C25
r_displaced_atoms: O27-1

[Term]
id: BpForms:protein:2YC
name: n~6~-{[(2s,3s)-3-methyl-3,4-dihydro-2h-pyrrol-2-yl]carbonyl}-l-lysine
synonym: "(2S)-2-azanyl-6-[[(2S,3S)-3-methyl-3,4-dihydro-2H-pyrrol-2-yl]carbonylamino]hexanoic acid" BROAD []
synonym: "N~6~-{[(2S,3S)-3-methyl-3,4-dihydro-2H-pyrrol-2-yl]carbonyl}-L-lysine" BROAD []
synonym: "pdb-ccd: 2YC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](CCCCNC(=O)[C@H]1N=CC[C@@H]1C)[NH3+]
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:2YF
name: n~6~-[(2r)-2,3,4,5-tetrahydropyridin-2-ylcarbonyl]-l-lysine
synonym: "(2S)-2-azanyl-6-[[(2R)-2,3,4,5-tetrahydropyridin-2-yl]carbonylamino]hexanoic acid" BROAD []
synonym: "N~6~-[(2R)-2,3,4,5-tetrahydropyridin-2-ylcarbonyl]-L-lysine" BROAD []
synonym: "pdb-ccd: 2YF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])CCCCNC(=O)[C@H]1CCCC=N1
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:2YG
name: n~6~-l-lysyl-l-lysine
synonym: "(2S)-2-azanyl-6-[[(2S)-2,6-bis(azanyl)hexanoyl]amino]hexanoic acid" BROAD []
synonym: "N~6~-L-lysyl-L-lysine" BROAD []
synonym: "pdb-ccd: 2YG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]CCCC[C@@H](C(=O)NCCCC[C@@H](C(=O)[O-])[NH3+])[NH3+]
l_bond_atoms: N23-1
l_displaced_atoms: H23
l_displaced_atoms: H23+1
r_bond_atoms: C20
r_displaced_atoms: O22-1

[Term]
id: BpForms:protein:2YH
name: n~5~-d-ornithyl-l-ornithine
synonym: "(2S)-2-azanyl-5-[[(2R)-2,5-bis(azanyl)pentanoyl]amino]pentanoic acid" BROAD []
synonym: "N~5~-D-ornithyl-L-ornithine" BROAD []
synonym: "pdb-ccd: 2YH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]CCC[C@H](C(=O)NCCC[C@@H](C(=O)[O-])[NH3+])[NH3+]
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C18
r_displaced_atoms: O20-1

[Term]
id: BpForms:protein:2YJ
name: n~5~-d-lysyl-l-ornithine
synonym: "(2S)-2-azanyl-5-[[(2R)-2,6-bis(azanyl)hexanoyl]amino]pentanoic acid" BROAD []
synonym: "N~5~-D-lysyl-L-ornithine" BROAD []
synonym: "pdb-ccd: 2YJ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]CCCC[C@H](C(=O)NCCC[C@@H](C(=O)[O-])[NH3+])[NH3+]
l_bond_atoms: N22-1
l_displaced_atoms: H22
l_displaced_atoms: H22+1
r_bond_atoms: C19
r_displaced_atoms: O21-1

[Term]
id: BpForms:protein:2ZC
name: o-{[4-(2-aminoethyl)phenyl]sulfonyl}-l-serine
synonym: "(2S)-2-azanyl-3-[4-(2-azanylethyl)phenyl]sulfonyloxy-propanoic acid" BROAD []
synonym: "O-{[4-(2-aminoethyl)phenyl]sulfonyl}-L-serine" BROAD []
synonym: "pdb-ccd: 2ZC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [NH3+]CCc1ccc(cc1)S(=O)(=O)OC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N23-1
l_displaced_atoms: H23
l_displaced_atoms: H23+1
r_bond_atoms: C20
r_displaced_atoms: O22-1

[Term]
id: BpForms:protein:30V
name: s-[(2-carbamoylphenyl)selanyl]-l-cysteine
synonym: "(2R)-3-(2-aminocarbonylphenyl)selanylsulfanyl-2-azanyl-propanoic acid" BROAD []
synonym: "S-[(2-carbamoylphenyl)selanyl]-L-cysteine" BROAD []
synonym: "pdb-ccd: 30V" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [NH3+][C@H](C(=O)[O-])CS[Se]c1ccccc1C(=O)N
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:32L
name: ethyl (3s,4s)-4-amino-3-hydroxy-6-methylheptanoate
synonym: "ethyl (3S,4S)-4-amino-3-hydroxy-6-methylheptanoate" BROAD []
synonym: "ethyl (3S,4S)-4-azanyl-6-methyl-3-oxidanyl-heptanoate" BROAD []
synonym: "pdb-ccd: 32L" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CCOC(=O)C[C@@H]([C@H](CC(C)C)[NH3+])O
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1

[Term]
id: BpForms:protein:32S
name: (s)-2-amino-3-(4h-selenolo[3,2-b]-pyrrol-6-yl)-propionic acid
synonym: "(2S)-2-amino-3-(4H-selenopheno[2,3-d]pyrrol-6-yl)propanoic acid" BROAD []
synonym: "3-(4H-selenopheno[3,2-b]pyrrol-6-yl)-L-alanine" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: 32S" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](Cc1c[nH]c2c1[se]cc2)[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:32T
name: (s)-2-amino-3-(4h-thieno[3,2-b]-pyrrol-6-yl)-propionic acid
synonym: "(2S)-2-amino-3-(4H-thieno[2,3-d]pyrrol-6-yl)propanoic acid" BROAD []
synonym: "3-(4H-thieno[3,2-b]pyrrol-6-yl)-L-alanine" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: 32T" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](Cc1c[nH]c2c1scc2)[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:33S
name: 3-iodo-l-phenylalanine
synonym: "(2S)-2-azanyl-3-(3-iodanylphenyl)propanoic acid" BROAD []
synonym: "3-iodo-L-phenylalanine" BROAD []
synonym: "pdb-ccd: 33S" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [O-]C(=O)[C@H](Cc1cccc(c1)I)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:33W
name: 3-(5-bromothiophen-2-yl)-l-alanine
synonym: "(2S)-2-azanyl-3-(5-bromanylthiophen-2-yl)propanoic acid" BROAD []
synonym: "3-(5-bromothiophen-2-yl)-L-alanine" BROAD []
synonym: "pdb-ccd: 33W" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@@H]([NH3+])Cc1ccc(s1)Br
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:34E
name: (3r)-4-[4-(2-methoxyethyl)piperazin-1-yl]-n-methyl-l-valine
synonym: "(2S,3R)-4-[4-(2-methoxyethyl)piperazin-1-yl]-3-methyl-2-(methylamino)butanoic acid" BROAD []
synonym: "(3R)-4-[4-(2-methoxyethyl)piperazin-1-yl]-N-methyl-L-valine" BROAD []
synonym: "pdb-ccd: 34E" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:V ! L-valine
structure: COCC[NH+]1CCN(CC1)C[C@H]([C@@H](C(=O)[O-])[NH2+]C)C
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C17
r_displaced_atoms: O19-1

[Term]
id: BpForms:protein:35Y
name: 3-[(1h-tetrazol-5-ylcarbonyl)amino]-l-alanine
synonym: "(2S)-2-azanyl-3-(1H-1,2,3,4-tetrazol-5-ylcarbonylamino)propanoic acid" BROAD []
synonym: "3-[(1H-tetrazol-5-ylcarbonyl)amino]-L-alanine" BROAD []
synonym: "pdb-ccd: 35Y" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](CNC(=O)c1[n-]nnn1)[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:3A5
name: (2z,4s)-3-aza-5-carboxyl-2-methyl-4(methylcarboxy)pent-2-enoyl
synonym: "(3S)-3-[(E)-(1-carboxyethylidene)amino]-4-methoxy-4-oxobutanoic acid (non-preferred name)" BROAD []
synonym: "(3S)-4-methoxy-4-oxidanylidene-3-[(E)-(1-oxidanyl-1-oxidanylidene-propan-2-ylidene)amino]butanoic acid" BROAD []
synonym: "pdb-ccd: 3A5" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: COC(=O)[C@@H](/N=C(/C(=O)[O-])\C)CC(=O)[O-]
l_bond_atoms: N7
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:3AH
name: [histidin-1-yl-4h-[1,2,4]triazol-5-yl]-amine
synonym: "(2S)-2-amino-3-[1-(5-amino-2H-1,2,4-triazol-3-yl)imidazol-4-yl]propanoic acid" BROAD []
synonym: "1-(3-amino-1H-1,2,4-triazol-5-yl)-L-histidine" BROAD []
synonym: "H" BROAD []
synonym: "pdb-ccd: 3AH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: [O-]C(=O)[C@@H]([NH3+])Cc1cn(cn1)c1nc(n[nH]1)N
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:3AR
name: n-omega-propyl-l-arginine
synonym: "X" BROAD []
synonym: "[[[(4S)-4-amino-5-hydroxy-5-oxo-pentyl]amino]-propylamino-methylidene]azanium" BROAD []
synonym: "pdb-ccd: 3AR" EXACT []
synonym: "{[(4S)-4-amino-4-carboxybutyl]amino}(propylamino)methaniminium" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])CCCNC(=[NH2+])NCCC
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:3BY
name: 1-methyl-l-proline
synonym: "(2S)-1-methylpyrrolidine-2-carboxylic acid" BROAD []
synonym: "1-methyl-L-proline" BROAD []
synonym: "pdb-ccd: 3BY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: C[NH+]1CCC[C@H]1C(=O)[O-]
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:3CF
name: 3-cyano-l-phenylalanine
synonym: "(2S)-2-azanyl-3-(3-cyanophenyl)propanoic acid" BROAD []
synonym: "3-cyano-L-phenylalanine" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: 3CF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: N#Cc1cccc(c1)C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:3CT
name: 3-chloro-l-tyrosine
synonym: "(2S)-2-azanyl-3-(3-chloranyl-4-oxidanyl-phenyl)propanoic acid" BROAD []
synonym: "3-chloro-L-tyrosine" BROAD []
synonym: "pdb-ccd: 3CT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@H](Cc1ccc(c(c1)Cl)O)[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:3EG
name: (2s)-2-amino-4,4,4-trifluorobutanoic acid
synonym: "(2S)-2-amino-4,4,4-trifluorobutanoic acid" BROAD []
synonym: "(2S)-2-azanyl-4,4,4-tris(fluoranyl)butanoic acid" BROAD []
synonym: "pdb-ccd: 3EG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@H](C(=O)[O-])CC(F)(F)F
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:3FG
name: (2s)-amino(3,5-dihydroxyphenyl)ethanoic acid
synonym: "(2S)-2-azanyl-2-(3,5-dihydroxyphenyl)ethanoic acid" BROAD []
synonym: "(2S)-amino(3,5-dihydroxyphenyl)ethanoic acid" BROAD []
synonym: "pdb-ccd: 3FG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@@H](c1cc(O)cc(c1)O)C(=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C15
r_displaced_atoms: O17-1

[Term]
id: BpForms:protein:3GA
name: (3s)-3-[(2s)-2-amino-3-oxopropyl]piperidine-1-carboximidamide
synonym: "(3S)-3-[(2S)-2-amino-3-oxopropyl]piperidine-1-carboximidamide" BROAD []
synonym: "(3S)-3-[(2S)-2-azanyl-3-oxo-propyl]piperidine-1-carboximidamide" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: 3GA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@H](C[C@@H]1CCCN(C1)C(=[NH2+])N)[NH3+]
l_bond_atoms: N19-1
l_displaced_atoms: H19
l_displaced_atoms: H19+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:3K4
name: (2s,3s)-3-methylaziridine-2-carboxylic acid
synonym: "(2S,3S)-3-methylaziridine-2-carboxylic acid" BROAD []
synonym: "pdb-ccd: 3K4" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]1[C@@H]([NH2+]1)C
l_bond_atoms: N8-1
l_displaced_atoms: H8
l_displaced_atoms: H8+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:3O3
name: n-[(3s)-3-amino-3-carboxypropyl]-l-glutamic acid
synonym: "(2S)-2-[[(3S)-3-azanyl-4-hydroxy-4-oxo-butyl]amino]pentanedioic acid" BROAD []
synonym: "N-[(3S)-3-amino-3-carboxypropyl]-L-glutamic acid" BROAD []
synonym: "pdb-ccd: 3O3" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: [O-]C(=O)CC[C@@H](C(=O)[O-])[NH2+]CC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:3PM
name: o-tert-butyl-d-serine
synonym: "(2R)-2-azanyl-3-[(2-methylpropan-2-yl)oxy]propanoic acid" BROAD []
synonym: "O-tert-butyl-D-serine" BROAD []
synonym: "pdb-ccd: 3PM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@@H](C(=O)[O-])COC(C)(C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:3PX
name: (3s)-3-(propan-2-yloxy)-l-proline
synonym: "(2S,3S)-3-propan-2-yloxypyrrolidine-2-carboxylic acid" BROAD []
synonym: "(3S)-3-(propan-2-yloxy)-L-proline" BROAD []
synonym: "pdb-ccd: 3PX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: CC(O[C@H]1CC[NH2+][C@@H]1C(=O)[O-])C
l_bond_atoms: N8-1
l_displaced_atoms: H8
l_displaced_atoms: H8+1
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:3QN
name: (e)-n~6~-{2-hydroxy-3-methyl-6-[(phosphonooxy)methyl]benzylidene}-l-lysine
synonym: "(2S)-2-azanyl-6-[(E)-[2-hydroxy-3-methyl-6-(phosphonooxymethyl)phenyl]methylideneamino]hexanoic acid" BROAD []
synonym: "(E)-N~6~-{2-hydroxy-3-methyl-6-[(phosphonooxy)methyl]benzylidene}-L-lysine" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: 3QN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)[C@H](CCCC/N=C/c1c(ccc(c1O)C)COP(=O)([O-])[O-])[NH3+]
l_bond_atoms: N26-1
l_displaced_atoms: H26
l_displaced_atoms: H26+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:3TY
name: 3-[(3e)-3-(benzylhydrazono)-4-hydroxy-6-oxocyclohexa-1,4-dien-1-yl]-l-alanine
synonym: "(2S)-2-amino-3-[(3E)-4-hydroxy-6-oxo-3-(phenylmethylhydrazinylidene)-1-cyclohexa-1,4-dienyl]propanoic acid" BROAD []
synonym: "3-[(3E)-3-(benzylhydrazono)-4-hydroxy-6-oxocyclohexa-1,4-dien-1-yl]-L-alanine" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: 3TY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@H](C(=O)[O-])CC1=C/C(=N\NCc2ccccc2)/C(=CC1=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:3WS
name: n,2-dimethyl-l-alanine
synonym: "2-methyl-2-(methylamino)propanoic acid" BROAD []
synonym: "N,2-dimethyl-L-alanine" BROAD []
synonym: "pdb-ccd: 3WS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)C([NH2+]C)(C)C
l_bond_atoms: N5-1
l_displaced_atoms: H5
l_displaced_atoms: H5+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:3X9
name: 3-{[(1-hydroxy-2,2,5,5-tetramethyl-2,5-dihydro-1h-pyrrol-3-yl)methyl]disulfanyl}-l-alanine
synonym: "(2R)-2-azanyl-3-[(2,2,5,5-tetramethyl-1-oxidanyl-pyrrol-3-yl)methyldisulfanyl]propanoic acid" BROAD []
synonym: "3-{[(1-hydroxy-2,2,5,5-tetramethyl-2,5-dihydro-1H-pyrrol-3-yl)methyl]disulfanyl}-L-alanine" BROAD []
synonym: "pdb-ccd: 3X9" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [NH3+][C@H](C(=O)[O-])CSSCC1=CC(N(C1(C)C)O)(C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:3XH
name: 3-hydroxyhippuric acid
synonym: "2-[(3-hydroxyphenyl)carbonylamino]ethanoic acid" BROAD []
synonym: "G" BROAD []
synonym: "N-[(3-hydroxyphenyl)carbonyl]glycine" BROAD []
synonym: "pdb-ccd: 3XH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CNC(=O)c1cccc(c1)O
l_bond_atoms: N5
l_displaced_atoms: H5
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:3YM
name: 3-methoxy-l-tyrosine
synonym: "(2S)-2-azanyl-3-(3-methoxy-4-oxidanyl-phenyl)propanoic acid" BROAD []
synonym: "3-methoxy-L-tyrosine" BROAD []
synonym: "pdb-ccd: 3YM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: COc1cc(ccc1O)C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:3ZH
name: 11-{4-[(2s)-2-amino-2-carboxyethyl]-3-(8-phenyloctyl)-2,3-dihydro-1h-imidazol-1-yl}undecanoic acid
synonym: "11-[4-[(2S)-2-azanyl-3-oxidanyl-3-oxidanylidene-propyl]-3-(8-phenyloctyl)-2H-imidazol-1-yl]undecanoic acid" BROAD []
synonym: "11-{4-[(2S)-2-amino-2-carboxyethyl]-3-(8-phenyloctyl)-2,3-dihydro-1H-imidazol-1-yl}undecanoic acid" BROAD []
synonym: "pdb-ccd: 3ZH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: [O-]C(=O)CCCCCCCCCCN1C=C(N(C1)CCCCCCCCc1ccccc1)C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N39-1
l_displaced_atoms: H39
l_displaced_atoms: H39+1
r_bond_atoms: C36
r_displaced_atoms: O38-1

[Term]
id: BpForms:protein:3ZL
name: n~6~-[(1z)-4-amino-3-oxopenta-1,4-dien-1-yl]-l-lysine
synonym: "(2S)-2-azanyl-6-[[(1Z)-4-azanyl-3-oxidanylidene-penta-1,4-dienyl]amino]hexanoic acid" BROAD []
synonym: "N~6~-[(1Z)-4-amino-3-oxopenta-1,4-dien-1-yl]-L-lysine" BROAD []
synonym: "pdb-ccd: 3ZL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](CCCCN/C=C\C(=O)C(=C)N)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:41H
name: (betas)-beta-methyl-l-phenylalanine
synonym: "(2S,3S)-2-azanyl-3-phenyl-butanoic acid" BROAD []
synonym: "(betaS)-beta-methyl-L-phenylalanine" BROAD []
synonym: "pdb-ccd: 41H" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: C[C@H]([C@@H](C(=O)[O-])[NH3+])c1ccccc1
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:41Q
name: 4-imino-l-homoserine
synonym: "(2S)-2-azanyl-4-azanylidene-4-oxidanyl-butanoic acid" BROAD []
synonym: "4-imino-L-homoserine" BROAD []
synonym: "pdb-ccd: 41Q" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: [O-]C(=[NH2+])C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:432
name: o-butanoyl-l-serine
synonym: "(2S)-2-azanyl-3-butanoyloxy-propanoic acid" BROAD []
synonym: "O-butanoyl-L-serine" BROAD []
synonym: "pdb-ccd: 432" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [O-]C(=O)[C@@H]([NH3+])COC(=O)CCC
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:4AF
name: 4-acetyl-l-phenylalanine
synonym: "(2S)-2-azanyl-3-(4-ethanoylphenyl)propanoic acid" BROAD []
synonym: "4-acetyl-L-phenylalanine" BROAD []
synonym: "pdb-ccd: 4AF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [NH3+][C@H](C(=O)[O-])Cc1ccc(cc1)C(=O)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:4AK
name: n~6~-sulfo-l-lysine
synonym: "(2S)-2-azanyl-6-(sulfoamino)hexanoic acid" BROAD []
synonym: "N~6~-sulfo-L-lysine" BROAD []
synonym: "pdb-ccd: 4AK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+][C@H](C(=O)[O-])CCCCNS(=O)(=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:4AR
name: amino({(4s)-4-amino-6-[(2,6-dimethylbenzoyl)oxy]-5-oxohexyl}amino)methaniminium
synonym: "[azanyl-[[(4S)-4-azanyl-6-(2,6-dimethylphenyl)carbonyloxy-5-oxidanylidene-hexyl]amino]methylidene]azanium" BROAD []
synonym: "amino({(4S)-4-amino-6-[(2,6-dimethylbenzoyl)oxy]-5-oxohexyl}amino)methaniminium" BROAD []
synonym: "pdb-ccd: 4AR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: [NH3+][C@H](C(=O)COC(=O)c1c(C)cccc1C)CCCNC(=[NH2+])N
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1

[Term]
id: BpForms:protein:4AW
name: 4-azatryptophan
synonym: "(2S)-2-azanyl-3-(1H-pyrrolo[3,2-b]pyridin-3-yl)propanoic acid" BROAD []
synonym: "3-(1H-pyrrolo[3,2-b]pyridin-3-yl)-L-alanine" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: 4AW" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@H](Cc1c[nH]c2c1nccc2)[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:4CF
name: 4-cyano-l-phenylalanine
synonym: "(2S)-2-azanyl-3-(4-cyanophenyl)propanoic acid" BROAD []
synonym: "4-cyano-L-phenylalanine" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: 4CF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [NH3+][C@H](C(=O)[O-])Cc1ccc(cc1)C#N
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:4CY
name: nitrilo-l-methionine
synonym: "(2S)-2-azanyl-4-thiocyanato-butanoic acid" BROAD []
synonym: "M" BROAD []
synonym: "nitrilo-L-methionine" BROAD []
synonym: "pdb-ccd: 4CY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: N#CSCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:4D4
name: (2s,3r)-2-azanyl-5-carbamimidamido-3-oxidanyl-pentanoic acid
synonym: "(2S,3R)-2-amino-5-carbamimidamido-3-hydroxypentanoic acid (non-preferred name)" BROAD []
synonym: "(2S,3R)-2-azanyl-5-carbamimidamido-3-oxidanyl-pentanoic acid" BROAD []
synonym: "pdb-ccd: 4D4" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: O[C@@H]([C@@H](C(=O)[O-])[NH3+])CCNC(=[NH2+])N
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:4DB
name: (2s)-2-amino-4-[5-(dimethylamino)-1,3-dioxo-1,3-dihydro-2h-isoindol-2-yl]butanoic acid
synonym: "(2S)-2-amino-4-[5-(dimethylamino)-1,3-dioxo-1,3-dihydro-2H-isoindol-2-yl]butanoic acid" BROAD []
synonym: "(2S)-2-azanyl-4-[5-(dimethylamino)-1,3-dioxo-isoindol-2-yl]butanoic acid" BROAD []
synonym: "pdb-ccd: 4DB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@H](C(=O)[O-])CCN1C(=O)c2c(C1=O)cc(cc2)N(C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:4DP
name: 3-[5-(dimethylamino)-1,3-dioxo-1,3-dihydro-2h-isoindol-2-yl]-l-alanine
synonym: "(2S)-2-amino-3-(5-dimethylamino-1,3-dioxo-isoindol-2-yl)propanoic acid" BROAD []
synonym: "3-[5-(dimethylamino)-1,3-dioxo-1,3-dihydro-2H-isoindol-2-yl]-L-alanine" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: 4DP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@H](CN1C(=O)c2c(C1=O)ccc(c2)N(C)C)[NH3+]
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:4F3
name: [2-(1-amino-2-hydroxy-propyl)-4-(4-fluoro-1h-indol-3-ylmethyl)-5-hydroxy-imidazol-1-yl]-acetic acid
synonym: "2-[2-[(1R,2S)-1-amino-2-hydroxy-propyl]-4-[(4-fluoro-1H-indol-3-yl)methyl]-5-hydroxy-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "GYG" BROAD []
synonym: "pdb-ccd: 4F3" EXACT []
synonym: "{2-[(1R,2S)-1-amino-2-hydroxypropyl]-4-[(4-fluoro-1H-indol-3-yl)methyl]-5-hydroxy-1H-imidazol-1-yl}acetic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)Cn1c(O)c(nc1[C@H]([C@@H](O)C)[NH3+])Cc1c[nH]c2c1c(F)ccc2
l_bond_atoms: N9
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:4FB
name: (4s)-4-fluoro-l-proline
synonym: "(2S,4S)-4-fluoropyrrolidine-2-carboxylic acid" BROAD []
synonym: "(4S)-4-fluoro-L-proline" BROAD []
synonym: "P" BROAD []
synonym: "pdb-ccd: 4FB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [O-]C(=O)[C@@H]1C[C@@H](C[NH2+]1)F
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:4FW
name: 4-fluorotryptophane
synonym: "(2S)-2-amino-3-(4-fluoro-1H-indol-3-yl)propanoic acid" BROAD []
synonym: "4-fluoro-L-tryptophan" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: 4FW" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@H](Cc1c[nH]c2c1c(F)ccc2)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:4GJ
name: 3-(pyridin-4-yldisulfanyl)-l-alanine
synonym: "(2R)-2-azanyl-3-(pyridin-4-yldisulfanyl)propanoic acid" BROAD []
synonym: "3-(pyridin-4-yldisulfanyl)-L-alanine" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: 4GJ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@H](CSSc1ccncc1)[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:4HH
name: o-[(s)-hydroxy{[(3r)-3-hydroxy-2,2-dimethyl-4-oxo-4-({3-oxo-3-[(2-sulfanylethyl)amino]propyl}amino)butyl]oxy}phosphoryl]-l-serine
synonym: "(2S)-2-azanyl-3-[[(3R)-2,2-dimethyl-3-oxidanyl-4-oxidanylidene-4-[[3-oxidanylidene-3-(2-sulfanylethylamino)propyl]amino]butoxy]-oxidanyl-phosphoryl]oxy-propanoic acid" BROAD []
synonym: "O-[(S)-hydroxy{[(3R)-3-hydroxy-2,2-dimethyl-4-oxo-4-({3-oxo-3-[(2-sulfanylethyl)amino]propyl}amino)butyl]oxy}phosphoryl]-L-serine" BROAD []
synonym: "pdb-ccd: 4HH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: SCCNC(=O)CCNC(=O)[C@@H](C(COP(=O)(OC[C@@H](C(=O)[O-])[NH3+])[O-])(C)C)O
l_bond_atoms: N26-1
l_displaced_atoms: H26
l_displaced_atoms: H26+1
r_bond_atoms: C23
r_displaced_atoms: O25-1

[Term]
id: BpForms:protein:4HJ
name: o-[(r)-hydroxy{[(3r)-3-hydroxy-4-{[3-({2-[(2-hydroxybenzoyl)sulfanyl]ethyl}amino)-3-oxopropyl]amino}-2,2-dimethyl-4-oxobutyl]oxy}phosphoryl]-l-serine
synonym: "(2S)-2-azanyl-3-[[(3R)-4-[[3-[2-(2-hydroxyphenyl)carbonylsulfanylethylamino]-3-oxidanylidene-propyl]amino]-2,2-dimethyl-3-oxidanyl-4-oxidanylidene-butoxy]-oxidanyl-phosphoryl]oxy-propanoic acid" BROAD []
synonym: "O-[(R)-hydroxy{[(3R)-3-hydroxy-4-{[3-({2-[(2-hydroxybenzoyl)sulfanyl]ethyl}amino)-3-oxopropyl]amino}-2,2-dimethyl-4-oxobutyl]oxy}phosphoryl]-L-serine" BROAD []
synonym: "pdb-ccd: 4HJ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: O=C(NCCSC(=O)c1ccccc1O)CCNC(=O)[C@@H](C(COP(=O)(OC[C@@H](C(=O)[O-])[NH3+])[O-])(C)C)O
l_bond_atoms: N35-1
l_displaced_atoms: H35
l_displaced_atoms: H35+1
r_bond_atoms: C32
r_displaced_atoms: O34-1

[Term]
id: BpForms:protein:4HL
name: (6e)-4-[(2s)-2-amino-2-carboxyethyl]-6-[2-(4-hydroxybenzyl)hydraziniumylidene]-3-oxocyclohexa-1,4-dien-1-olate
synonym: "(6E)-4-[(2S)-2-amino-2-carboxyethyl]-6-[2-(4-hydroxybenzyl)hydraziniumylidene]-3-oxocyclohexa-1,4-dien-1-olate" BROAD []
synonym: "(6E)-4-[(2S)-2-azanyl-3-oxidanyl-3-oxidanylidene-propyl]-6-[(4-hydroxyphenyl)methylamino]azaniumylidene-3-oxidanylidene-cyclohexa-1,4-dien-1-olate" BROAD []
synonym: "pdb-ccd: 4HL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [NH3+][C@H](C(=O)[O-])CC1=C/C(=N\NCc2ccc(cc2)O)/C(=CC1=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:4HT
name: 4-hydroxytryptophan
synonym: "(2S)-2-amino-3-(4-hydroxy-1H-indol-3-yl)propanoic acid" BROAD []
synonym: "4-hydroxy-L-tryptophan" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: 4HT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@H](Cc1c[nH]c2c1c(O)ccc2)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:4II
name: (2~{s})-2-azanyl-3-(4-azidophenyl)propanoic acid
synonym: "(2~{S})-2-azanyl-3-(4-azidophenyl)propanoic acid" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: 4II" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [NH3+][C@H](C(=O)[O-])Cc1ccc(cc1)N=[N+]=[N-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:4IK
name: (2s,5s)-2,6-diamino-5-{[(2r,3s,4r,5r)-5-(6-amino-9h-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl}hexanoic acid
synonym: "(2S,5S)-2,6-diamino-5-{[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl}hexanoic acid (non-preferred name)" BROAD []
synonym: "(2S,5S)-5-(aminomethyl)-6-[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]-2-azanyl-hexanoic acid" BROAD []
synonym: "pdb-ccd: 4IK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]C[C@H](C[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1ncnc2N)CC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N37-1
l_displaced_atoms: H37
l_displaced_atoms: H37+1
r_bond_atoms: C34
r_displaced_atoms: O36-1

[Term]
id: BpForms:protein:4IN
name: 4-amino-l-tryptophan
synonym: "(2S)-2-azanyl-3-(4-azanyl-1H-indol-3-yl)propanoic acid" BROAD []
synonym: "4-amino-L-tryptophan" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: 4IN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@H](Cc1c[nH]c2c1c(N)ccc2)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:4J4
name: s-(2-{[(2',4'-difluorobiphenyl-4-yl)methyl]amino}-2-oxoethyl)-l-cysteine
synonym: "(2R)-2-azanyl-3-[2-[[4-[2,4-bis(fluoranyl)phenyl]phenyl]methylamino]-2-oxidanylidene-ethyl]sulfanyl-propanoic acid" BROAD []
synonym: "S-(2-{[(2',4'-difluorobiphenyl-4-yl)methyl]amino}-2-oxoethyl)-L-cysteine" BROAD []
synonym: "pdb-ccd: 4J4" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C(NCc1ccc(cc1)c1ccc(cc1F)F)CSC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N27-1
l_displaced_atoms: H27
l_displaced_atoms: H27+1
r_bond_atoms: C24
r_displaced_atoms: O26-1

[Term]
id: BpForms:protein:4J5
name: amino{[(3s)-3-amino-3-carboxypropyl]amino}methaniminium
synonym: "[azanyl-[[(3S)-3-azanyl-4-oxidanyl-4-oxidanylidene-butyl]amino]methylidene]azanium" BROAD []
synonym: "amino{[(3S)-3-amino-3-carboxypropyl]amino}methaniminium" BROAD []
synonym: "pdb-ccd: 4J5" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: [O-]C(=O)[C@H](CCNC(=[NH2+])N)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:4L0
name: (4r)-1-acetyl-4-(hexyloxy)-l-proline
synonym: "(2S,4R)-1-ethanoyl-4-hexoxy-pyrrolidine-2-carboxylic acid" BROAD []
synonym: "(4R)-1-acetyl-4-(hexyloxy)-L-proline" BROAD []
synonym: "pdb-ccd: 4L0" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: CCCCCCO[C@@H]1C[C@H](N(C1)C(=O)C)C(=O)[O-]
r_bond_atoms: C18
r_displaced_atoms: O20-1

[Term]
id: BpForms:protein:4L8
name: (2r)-2-(aminomethyl)-4-methylpentanoic acid
synonym: "(2R)-2-(aminomethyl)-4-methyl-pentanoic acid" BROAD []
synonym: "(2R)-2-(aminomethyl)-4-methylpentanoic acid" BROAD []
synonym: "pdb-ccd: 4L8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]C[C@H](C(=O)[O-])CC(C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:4LZ
name: o-[2-(triaza-1,2-dien-2-ium-1-yl)ethyl]-l-tyrosine
synonym: "O-[2-(triaza-1,2-dien-2-ium-1-yl)ethyl]-L-tyrosine" BROAD []
synonym: "azanylidene-[2-[4-[(2S)-2-azanyl-3-oxidanyl-3-oxidanylidene-propyl]phenoxy]ethylimino]azanium" BROAD []
synonym: "pdb-ccd: 4LZ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [N-]=[N+]=NCCOc1ccc(cc1)C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N19-1
l_displaced_atoms: H19
l_displaced_atoms: H19+1
r_bond_atoms: C16
r_displaced_atoms: O18-1

[Term]
id: BpForms:protein:4M8
name: (2s)-2-amino-4-[(s)-hydroxy(methoxy)phosphoryl]butanoic acid
synonym: "(2S)-2-amino-4-[(S)-hydroxy(methoxy)phosphoryl]butanoic acid" BROAD []
synonym: "(2S)-2-azanyl-4-[methoxy(oxidanyl)phosphoryl]butanoic acid" BROAD []
synonym: "pdb-ccd: 4M8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: COP(=O)(CC[C@@H](C(=O)[O-])[NH3+])[O-]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:4N7
name: 1-[(1z)-3-(4-methylphenyl)-3-oxo-1-phenylprop-1-en-1-yl]-l-proline
synonym: "(2S)-1-[(Z)-3-(4-methylphenyl)-3-oxidanylidene-1-phenyl-prop-1-enyl]pyrrolidine-2-carboxylic acid" BROAD []
synonym: "1-[(1Z)-3-(4-methylphenyl)-3-oxo-1-phenylprop-1-en-1-yl]-L-proline" BROAD []
synonym: "pdb-ccd: 4N7" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [O-]C(=O)[C@@H]1CCCN1/C(=C\C(=O)c1ccc(cc1)C)/c1ccccc1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:4N8
name: 1-[(furan-2-ylmethyl)carbamothioyl]-l-proline
synonym: "(2S)-1-(furan-2-ylmethylcarbamothioyl)pyrrolidine-2-carboxylic acid" BROAD []
synonym: "1-[(furan-2-ylmethyl)carbamothioyl]-L-proline" BROAD []
synonym: "pdb-ccd: 4N8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [O-]C(=O)[C@@H]1CCCN1C(=S)NCc1ccco1
l_bond_atoms: N12
l_displaced_atoms: H12
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:4N9
name: 1-[(4-cyanobenzyl)carbamothioyl]-l-proline
synonym: "(2S)-1-[(4-cyanophenyl)methylcarbamothioyl]pyrrolidine-2-carboxylic acid" BROAD []
synonym: "1-[(4-cyanobenzyl)carbamothioyl]-L-proline" BROAD []
synonym: "pdb-ccd: 4N9" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: N#Cc1ccc(cc1)CNC(=S)N1CCC[C@H]1C(=O)[O-]
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C19
r_displaced_atoms: O21-1

[Term]
id: BpForms:protein:4NT
name: [(4z)-2-[(1r,2r)-1-amino-2-hydroxypropyl]-4-(3-chloro-4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1h-imidazol-1-yl]acetic acid
synonym: "2-[(4Z)-2-[(1R,2R)-1-azanyl-2-oxidanyl-propyl]-4-[(3-chloranyl-4-oxidanyl-phenyl)methylidene]-5-oxidanylidene-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "[(4Z)-2-[(1R,2R)-1-amino-2-hydroxypropyl]-4-(3-chloro-4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1H-imidazol-1-yl]acetic acid" BROAD []
synonym: "pdb-ccd: 4NT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=O)/C(=C/c2ccc(c(c2)Cl)O)/N=C1[C@H]([C@H](O)C)[NH3+]
l_bond_atoms: N18
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:4NU
name: {(4z)-2-[(1r,2r)-1-amino-2-hydroxypropyl]-4-[(3,5-dichloro-4-oxocyclohexa-2,5-dien-1-yl)methylidene]-5-oxo-4,5-dihydro-1h-imidazol-1-yl}acetic acid
synonym: "2-[(4Z)-2-[(1R,2R)-1-azanyl-2-oxidanyl-propyl]-4-[[3,5-bis(chloranyl)-4-oxidanylidene-cyclohexa-2,5-dien-1-yl]methylidene]-5-oxidanylidene-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "pdb-ccd: 4NU" EXACT []
synonym: "{(4Z)-2-[(1R,2R)-1-amino-2-hydroxypropyl]-4-[(3,5-dichloro-4-oxocyclohexa-2,5-dien-1-yl)methylidene]-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=O)/C(=C/[C-]2C=C(Cl)C(=O)C(=C2)Cl)/N=C1[C@H]([C@H](O)C)[NH3+]
l_bond_atoms: N19
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:4OU
name: 4-(acryloylamino)-l-phenylalanine
synonym: "(2S)-2-azanyl-3-[4-(prop-2-enoylamino)phenyl]propanoic acid" BROAD []
synonym: "4-(acryloylamino)-L-phenylalanine" BROAD []
synonym: "pdb-ccd: 4OU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: C=CC(=O)Nc1ccc(cc1)C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C15
r_displaced_atoms: O17-1

[Term]
id: BpForms:protein:4OV
name: (2r)-2-[(1r)-2-[(2s)-2-amino-2-carboxyethoxy]-1-{[(2r)-2-amino-2-phenylacetyl]amino}-2-oxoethyl]-5-methyl-3,6-dihydro-2h-1,3-thiazine-4-carboxylic acid
synonym: "(2R)-2-[(1R)-2-[(2S)-2-amino-2-carboxyethoxy]-1-{[(2R)-2-amino-2-phenylacetyl]amino}-2-oxoethyl]-5-methyl-3,6-dihydro-2H-1,3-thiazine-4-carboxylic acid" BROAD []
synonym: "(2R)-2-[(1R)-2-[(2S)-2-azanyl-3-oxidanyl-3-oxidanylidene-propoxy]-1-[[(2R)-2-azanyl-2-phenyl-ethanoyl]amino]-2-oxidanylidene-ethyl]-5-methyl-3,6-dihydro-2H-1,3-thiazine-4-carboxylic acid" BROAD []
synonym: "pdb-ccd: 4OV" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [NH3+][C@H](C(=O)[O-])COC(=O)[C@H]([C@H]1SCC(=C([NH2+]1)C(=O)[O-])C)NC(=O)[C@@H](c1ccccc1)[NH3+]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:4PH
name: 4-methyl-l-phenylalanine
synonym: "(2S)-2-azanyl-3-(4-methylphenyl)propanoic acid" BROAD []
synonym: "4-methyl-L-phenylalanine" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: 4PH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [NH3+][C@H](C(=O)[O-])Cc1ccc(cc1)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:4PQ
name: 5-hydroxy-l-tryptophan
synonym: "(2S)-2-azanyl-3-(5-oxidanyl-1H-indol-3-yl)propanoic acid" BROAD []
synonym: "5-hydroxy-L-tryptophan" BROAD []
synonym: "pdb-ccd: 4PQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@@H]([NH3+])Cc1c[nH]c2c1cc(O)cc2
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:4QK
name: 6-[4-(2-aminoethyl)-1h-1,2,3-triazol-1-yl]-l-norleucine
synonym: "(2S)-2-azanyl-6-[4-(2-azanylethyl)-1,2,3-triazol-1-yl]hexanoic acid" BROAD []
synonym: "6-[4-(2-aminoethyl)-1H-1,2,3-triazol-1-yl]-L-norleucine" BROAD []
synonym: "pdb-ccd: 4QK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])CCCCn1cc(nn1)CC[NH3+]
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:4SJ
name: n,beta,beta-trimethyl-l-phenylalanine
synonym: "(2S)-3-methyl-2-(methylamino)-3-phenyl-butanoic acid" BROAD []
synonym: "N,beta,beta-trimethyl-L-phenylalanine" BROAD []
synonym: "pdb-ccd: 4SJ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [O-]C(=O)[C@H](C(c1ccccc1)(C)C)[NH2+]C
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:4U7
name: [(5s)-5-amino-5-carboxy-6,6-difluorohexyl](trihydroxy)borate(1-)
synonym: "A" BROAD []
synonym: "[(5S)-5-amino-5-carboxy-6,6-difluorohexyl](trihydroxy)borate(1-)" BROAD []
synonym: "[(5S)-5-azanyl-5-[bis(fluoranyl)methyl]-6-oxidanyl-6-oxidanylidene-hexyl]-tris(oxidanyl)boranuide" BROAD []
synonym: "pdb-ccd: 4U7" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: FC([C@@](C(=O)[O-])(CCCC[B-](O)(O)O)[NH3+])F
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C4
r_displaced_atoms: O6-1

[Term]
id: BpForms:protein:4UD
name: (2s)-amino[(5s)-4,5-dihydro-1,2-oxazol-5-yl]acetic acid
synonym: "(2S)-2-azanyl-2-[(5S)-4,5-dihydro-1,2-oxazol-5-yl]ethanoic acid" BROAD []
synonym: "(2S)-amino[(5S)-4,5-dihydro-1,2-oxazol-5-yl]acetic acid" BROAD []
synonym: "pdb-ccd: 4UD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])[C@@H]1CC=NO1
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:4WQ
name: (2s)-2-amino-7,7-dimethyloctanoic acid
synonym: "(2S)-2-amino-7,7-dimethyloctanoic acid" BROAD []
synonym: "(2S)-2-azanyl-7,7-dimethyl-octanoic acid" BROAD []
synonym: "pdb-ccd: 4WQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@H](CCCCC(C)(C)C)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:51T
name: 2,3,6-trifluoro-l-tyrosine
synonym: "(2S)-2-azanyl-3-[2,3,6-tris(fluoranyl)-4-oxidanyl-phenyl]propanoic acid" BROAD []
synonym: "2,3,6-trifluoro-L-tyrosine" BROAD []
synonym: "pdb-ccd: 51T" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [NH3+][C@H](C(=O)[O-])Cc1c(F)cc(c(c1F)F)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:562
name: n~5~-[n-(2-{2-[2-(triaza-1,2-dien-2-ium-1-yl)ethoxy]ethoxy}ethyl)carbamimidoyl]-l-ornithine
synonym: "N~5~-[N-(2-{2-[2-(triaza-1,2-dien-2-ium-1-yl)ethoxy]ethoxy}ethyl)carbamimidoyl]-L-ornithine" BROAD []
synonym: "azanylidene-[2-[2-[2-[[N-[(4S)-4-azanyl-5-oxidanyl-5-oxidanylidene-pentyl]carbamimidoyl]amino]ethoxy]ethoxy]ethylimino]azanium" BROAD []
synonym: "pdb-ccd: 562" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [N-]=[N+]=NCCOCCOCCNC(=[NH2+])NCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N26-1
l_displaced_atoms: H26
l_displaced_atoms: H26+1
r_bond_atoms: C23
r_displaced_atoms: O25-1

[Term]
id: BpForms:protein:56A
name: 3-(8-phenyloctyl)-l-histidine
synonym: "(2S)-2-azanyl-3-[3-(8-phenyloctyl)imidazol-4-yl]propanoic acid" BROAD []
synonym: "3-(8-phenyloctyl)-L-histidine" BROAD []
synonym: "H" BROAD []
synonym: "pdb-ccd: 56A" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: [O-]C(=O)[C@H](Cc1cncn1CCCCCCCCc1ccccc1)[NH3+]
l_bond_atoms: N26-1
l_displaced_atoms: H26
l_displaced_atoms: H26+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:56C
name: n~5~-{n-[2-(2-{2-[2-(triaza-1,2-dien-2-ium-1-yl)ethoxy]ethoxy}ethoxy)ethyl]carbamimidoyl}-l-ornithine
synonym: "N~5~-{N-[2-(2-{2-[2-(triaza-1,2-dien-2-ium-1-yl)ethoxy]ethoxy}ethoxy)ethyl]carbamimidoyl}-L-ornithine" BROAD []
synonym: "azanylidene-[2-[2-[2-[2-[[N-[(4S)-4-azanyl-5-oxidanyl-5-oxidanylidene-pentyl]carbamimidoyl]amino]ethoxy]ethoxy]ethoxy]ethylimino]azanium" BROAD []
synonym: "pdb-ccd: 56C" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [N-]=[N+]=NCCOCCOCCOCCNC(=[NH2+])NCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N29-1
l_displaced_atoms: H29
l_displaced_atoms: H29+1
r_bond_atoms: C26
r_displaced_atoms: O28-1

[Term]
id: BpForms:protein:5AB
name: [(5s)-5-amino-5-carboxyhexyl](trihydroxy)borate
synonym: "A" BROAD []
synonym: "[(5S)-5-amino-5-carboxyhexyl](trihydroxy)borate(1-)" BROAD []
synonym: "[(5S)-5-azanyl-5-methyl-6-oxidanyl-6-oxidanylidene-hexyl]-tris(oxidanyl)boranuide" BROAD []
synonym: "pdb-ccd: 5AB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@](CCCC[B-](O)(O)O)([NH3+])C
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:5CR
name: n-acetyl-l-phenylalanine
synonym: "(2S)-2-acetamido-3-phenyl-propanoic acid" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: 5CR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [O-]C(=O)[C@H](Cc1ccccc1)NC(=O)C
l_bond_atoms: N13
l_displaced_atoms: H13
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:5CS
name: 2-amino-3-(cystein-s-yl)-isoxazolidin-5-yl-acetic acid
synonym: "(2R)-2-amino-3-[[(3R)-5-[(1S)-1-amino-2-hydroxy-2-oxo-ethyl]-1,2-oxazolidin-3-yl]sulfanyl]propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-{(3R,5R)-5-[(S)-amino(carboxy)methyl]isoxazolidin-3-yl}-L-cysteine" BROAD []
synonym: "pdb-ccd: 5CS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@H](CS[C@H]1NOC(C1)[C@@H](C(=O)[O-])[NH3+])[NH3+]
l_bond_atoms: N19-1
l_displaced_atoms: H19
l_displaced_atoms: H19+1
r_bond_atoms: C16
r_displaced_atoms: O18-1

[Term]
id: BpForms:protein:5CW
name: 5-chloro-l-tryptophan
synonym: "(2S)-2-azanyl-3-(5-chloranyl-1H-indol-3-yl)propanoic acid" BROAD []
synonym: "5-chloro-L-tryptophan" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: 5CW" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@@H]([NH3+])Cc1c[nH]c2c1cc(Cl)cc2
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:5DW
name: 4-ethynyl-l-phenylalanine
synonym: "(2S)-2-azanyl-3-(4-ethynylphenyl)propanoic acid" BROAD []
synonym: "4-ethynyl-L-phenylalanine" BROAD []
synonym: "pdb-ccd: 5DW" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@H](C(=O)[O-])Cc1ccc(cc1)C#C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:5FQ
name: n-pentyl-l-alaninamide
synonym: "(2S)-2-azanyl-N-pentyl-propanamide" BROAD []
synonym: "N-pentyl-L-alaninamide" BROAD []
synonym: "pdb-ccd: 5FQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: CCCCCNC(=O)[C@@H]([NH3+])C
l_bond_atoms: N6
l_displaced_atoms: H6

[Term]
id: BpForms:protein:5GM
name: (4s)-2,4-dimethyl-l-norleucine
synonym: "(2S,4S)-2-azanyl-2,4-dimethyl-hexanoic acid" BROAD []
synonym: "(4S)-2,4-dimethyl-L-norleucine" BROAD []
synonym: "pdb-ccd: 5GM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:I ! L-isoleucine
structure: CC[C@@H](C[C@@](C(=O)[O-])([NH3+])C)C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:5MW
name: (2~{s})-5-[4-(aminomethyl)-1,2,3-triazol-1-yl]-2-azanyl-pentanoic acid
synonym: "(2~{S})-5-[4-(aminomethyl)-1,2,3-triazol-1-yl]-2-azanyl-pentanoic acid" BROAD []
synonym: "pdb-ccd: 5MW" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)[C@@H]([NH3+])CCCn1cc(nn1)C[NH3+]
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:5OH
name: (2s)-amino[(4r,6s)-2-amino-6-hydroxy-3,4,5,6-tetrahydropyrimidin-4-yl]ethanoic acid
synonym: "(2S)-2-azanyl-2-[(4S,6R)-2-azanyl-4-hydroxy-1,4,5,6-tetrahydropyrimidin-6-yl]ethanoic acid" BROAD []
synonym: "pdb-ccd: 5OH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@H]([C@H]1C[C@H](O)[NH+]=C(N1)N)N
l_bond_atoms: N17
l_displaced_atoms: H17
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:5OL
name: n~6~-(1,1-dihydroxyethyl)-l-lysine
synonym: "(2~{S})-2-azanyl-6-[1,1-bis(oxidanyl)ethylamino]hexanoic acid" BROAD []
synonym: "N~6~-(1,1-dihydroxyethyl)-L-lysine" BROAD []
synonym: "pdb-ccd: 5OL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@H](C(=O)[O-])CCCC[NH2+]C(O)(O)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:5OM
name: (2s)-2-amino-8,8-dihydroxy-8-[(2s)-oxiran-2-yl]octanoic acid
synonym: "(2S)-2-amino-8,8-dihydroxy-8-[(2S)-oxiran-2-yl]octanoic acid" BROAD []
synonym: "(2~{S})-2-azanyl-8,8-bis(oxidanyl)-8-[(2~{S})-oxiran-2-yl]octanoic acid" BROAD []
synonym: "pdb-ccd: 5OM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@H](C(=O)[O-])CCCCCC([C@H]1OC1)(O)O
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:5OW
name: (2~{s})-2-azanyl-6-[[(~{z})-~{c}-[2-methyl-3-oxidanyl-5-(phosphonooxymethyl)pyridin-4-yl]-~{n}-[(2~{r})-1-oxidanyl-1-oxidanylidene-3-sulfanyl-propan-2-yl]carbonimidoyl]amino]hexanoic acid
synonym: "(2~{S})-2-azanyl-6-[[(~{Z})-~{C}-[2-methyl-3-oxidanyl-5-(phosphonooxymethyl)pyridin-4-yl]-~{N}-[(2~{R})-1-oxidanyl-1-oxidanylidene-3-sulfanyl-propan-2-yl]carbonimidoyl]amino]hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: 5OW" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: SC[C@@H](C(=O)[O-])/N=C(/c1c(cnc(c1O)C)COP(=O)([O-])[O-])\NCCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N8
r_bond_atoms: C5
r_displaced_atoms: O7-1

[Term]
id: BpForms:protein:5PG
name: (2s)-(4-hydroxyphenyl)(methylamino)ethanoic acid
synonym: "(2S)-(4-hydroxyphenyl)(methylamino)ethanoic acid" BROAD []
synonym: "(2S)-2-(4-hydroxyphenyl)-2-methylamino-ethanoic acid" BROAD []
synonym: "pdb-ccd: 5PG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](c1ccc(cc1)O)[NH2+]C
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:5R5
name: methyl (2~{s})-2-azanyl-3-oxidanyl-propanoate
synonym: "methyl (2~{S})-2-azanyl-3-oxidanyl-propanoate" BROAD []
synonym: "pdb-ccd: 5R5" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: COC(=O)[C@H](CO)N
l_bond_atoms: N9
l_displaced_atoms: H9

[Term]
id: BpForms:protein:5SQ
name: 2-[2-[(1~{s})-1-azanyl-2-(1~{h}-imidazol-4-yl)ethyl]-4-[(4-hydroxyphenyl)methylidene]-5-oxidanylidene-imidazol-1-yl]ethanoic acid
synonym: "2-[2-[(1~{S})-1-azanyl-2-(1~{H}-imidazol-4-yl)ethyl]-4-[(4-hydroxyphenyl)methylidene]-5-oxidanylidene-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "HYG" BROAD []
synonym: "pdb-ccd: 5SQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=O)C(=Cc2ccc(cc2)O)N=C1[C@H](Cc1c[nH]cn1)[NH3+]
l_bond_atoms: N17
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:5VV
name: n-carbamoyl-l-asparagine
synonym: "N" BROAD []
synonym: "[(2~{S})-4-azanyl-1,4-bis(oxidanylidene)butan-2-yl]carbamic acid" BROAD []
synonym: "pdb-ccd: 5VV" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: NC(=O)C[C@@H](C(=O)[O-])NC(=O)[O-]
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:5X8
name: s-adenosyl-l-cysteine
synonym: "(2~{R})-3-[[(2~{S},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methylsulfanyl]-2-azanyl-propanoic acid" BROAD []
synonym: "pdb-ccd: 5X8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](CSC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1ncnc2N)[NH3+]
l_bond_atoms: N30-1
l_displaced_atoms: H30
l_displaced_atoms: H30+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:5XU
name: (2~{s})-2-azanylpropanal
synonym: "(2~{S})-2-azanylpropanal" BROAD []
synonym: "pdb-ccd: 5XU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@@H]([NH3+])C
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:5ZA
name: (5z)-2-[(1s,2r)-1-amino-2-hydroxypropyl]-5-[(4-amino-1h-indol-3-yl)methylene]-3-(2-hydroxyethyl)-3,5-dihydro-4h-imidazol-4-one
synonym: "2-[(4Z)-2-[(1R,2R)-1-amino-2-hydroxy-propyl]-4-[(4-amino-1H-indol-3-yl)methylidene]-5-oxo-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "TWG" BROAD []
synonym: "pdb-ccd: 5ZA" EXACT []
synonym: "{(4Z)-2-[(1R,2R)-1-amino-2-hydroxypropyl]-4-[(4-amino-1H-indol-3-yl)methylidene]-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=O)/C(=C/c2c[nH]c3c2c(N)ccc3)/N=C1[C@H]([C@H](O)C)[NH3+]
l_bond_atoms: N12
l_displaced_atoms: H12
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:60F
name: (2~{r})-2-azanyl-3-[(~{e})-3-(4-hydroxyphenyl)prop-2-enoyl]sulfanyl-propanoic acid
synonym: "(2~{R})-2-azanyl-3-[(~{E})-3-(4-hydroxyphenyl)prop-2-enoyl]sulfanyl-propanoic acid" BROAD []
synonym: "pdb-ccd: 60F" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [NH3+][C@H](C(=O)[O-])CSC(=O)/C=C/c1ccc(cc1)O
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:62H
name: (2s)-3-amino-2-methylpropanoic acid
synonym: "(2S)-3-amino-2-methylpropanoic acid" BROAD []
synonym: "(2~{S})-3-azanyl-2-methyl-propanoic acid" BROAD []
synonym: "pdb-ccd: 62H" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](C[NH3+])C
l_bond_atoms: N7-1
l_displaced_atoms: H7
l_displaced_atoms: H7+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:66C
name: 4-[8-(beta-alanyl)-8,9-dihydro-1h-dibenzo[b,f][1,2,3]triazolo[4,5-d]azocin-1-yl]-l-phenylalanine
synonym: "4-[8-(beta-alanyl)-8,9-dihydro-1H-dibenzo[b,f][1,2,3]triazolo[4,5-d]azocin-1-yl]-L-phenylalanine" BROAD []
synonym: "pdb-ccd: 66C" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]CCC(=O)N1Cc2ccccc2c2c(c3c1cccc3)nnn2c1ccc(cc1)C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N40-1
l_displaced_atoms: H40
l_displaced_atoms: H40+1
r_bond_atoms: C37
r_displaced_atoms: O39-1

[Term]
id: BpForms:protein:66D
name: (4r)-2,4-dimethyl-l-norleucine
synonym: "(2~{S},4~{R})-2-azanyl-2,4-dimethyl-hexanoic acid" BROAD []
synonym: "(4R)-2,4-dimethyl-L-norleucine" BROAD []
synonym: "pdb-ccd: 66D" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:I ! L-isoleucine
structure: CC[C@H](C[C@@](C(=O)[O-])([NH3+])C)C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:66E
name: n-ethyl-l-valine
synonym: "(2~{S})-2-(ethylamino)-3-methyl-butanoic acid" BROAD []
synonym: "N-ethyl-L-valine" BROAD []
synonym: "pdb-ccd: 66E" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CC[NH2+][C@H](C(=O)[O-])C(C)C
l_bond_atoms: N3-1
l_displaced_atoms: H3
l_displaced_atoms: H3+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:6CL
name: 6-carboxylysine
synonym: "(1R,5S)-5-amino-1,5-dicarboxypentan-1-aminium" BROAD []
synonym: "K" BROAD []
synonym: "[(2R,6S)-6-amino-1,7-dihydroxy-1,7-dioxo-heptan-2-yl]azanium" BROAD []
synonym: "pdb-ccd: 6CL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+][C@H](C(=O)[O-])CCC[C@H](C(=O)[O-])[NH3+]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:6CV
name: 3-bromo-l-phenylalanine
synonym: "(2~{S})-2-azanyl-3-(3-bromophenyl)propanoic acid" BROAD []
synonym: "3-bromo-L-phenylalanine" BROAD []
synonym: "pdb-ccd: 6CV" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@H](Cc1cccc(c1)Br)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:6DU
name: 2-bromo-l-phenylalanine
synonym: "(2~{S})-2-azanyl-3-(2-bromophenyl)propanoic acid" BROAD []
synonym: "2-bromo-L-phenylalanine" BROAD []
synonym: "pdb-ccd: 6DU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](Cc1ccccc1Br)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:6FL
name: 5,5,5,5',5',5'-hexafluoro-l-leucine
synonym: "(2S)-2-azanyl-5,5,5-tris(fluoranyl)-4-(trifluoromethyl)pentanoic acid" BROAD []
synonym: "5,5,5,5',5',5'-hexafluoro-L-leucine" BROAD []
synonym: "pdb-ccd: 6FL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](CC(C(F)(F)F)C(F)(F)F)[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:6GL
name: 5-(phosphonooxy)-l-norvaline
synonym: "(2S)-2-azanyl-5-phosphonooxy-pentanoic acid" BROAD []
synonym: "5-(phosphonooxy)-L-norvaline" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: 6GL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@H](CCCOP(=O)([O-])[O-])[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:6HN
name: 6-nitro-l-norleucine
synonym: "(2S)-2-amino-6-nitro-hexanoic acid" BROAD []
synonym: "6-nitro-L-norleucine" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: 6HN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-][N+](=O)CCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:6KM
name: s-propanoyl-l-cysteine
synonym: "(2~{R})-2-azanyl-3-propanoylsulfanyl-propanoic acid" BROAD []
synonym: "S-propanoyl-L-cysteine" BROAD []
synonym: "pdb-ccd: 6KM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])CSC(=O)CC
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:6KY
name: (2s)-2-(dimethylamino)-4-(methylselanyl)butanoic acid
synonym: "(2S)-2-(dimethylamino)-4-(methylselanyl)butanoic acid" BROAD []
synonym: "(2~{S})-2-(dimethylamino)-4-methylselanyl-butanoic acid" BROAD []
synonym: "pdb-ccd: 6KY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: C[Se]CC[C@H]([NH+](C)C)C(=O)[O-]
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:6M6
name: s-[(2-phenylethyl)carbamothioyl]-l-cysteine
synonym: "(2~{R})-2-azanyl-3-(2-phenylethylcarbamothioylsulfanyl)propanoic acid" BROAD []
synonym: "S-[(2-phenylethyl)carbamothioyl]-L-cysteine" BROAD []
synonym: "pdb-ccd: 6M6" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [NH3+][C@H](C(=O)[O-])CSC(=S)[N-]CCc1ccccc1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:6RK
name: 4-azanylcyclohexane-1-carboxylic acid
synonym: "4-azanylcyclohexane-1-carboxylic acid" BROAD []
synonym: "pdb-ccd: 6RK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]C1CCC(CC1)C(=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:6V1
name: (2~{r})-2-azanyl-3-[(3~{r})-1-ethyl-2,5-bis(oxidanylidene)pyrrolidin-3-yl]sulfanyl-propanoic acid
synonym: "(2~{R})-2-azanyl-3-[(3~{R})-1-ethyl-2,5-bis(oxidanylidene)pyrrolidin-3-yl]sulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: 6V1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@@H]([NH3+])CS[C@@H]1CC(=O)N(C1=O)CC
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:6WK
name: (2~{r})-2-azanyl-3-[[(2~{s},3~{s})-2,3-bis(oxidanyl)-4-sulfanyl-butyl]disulfanyl]propanoic acid
synonym: "(2~{R})-2-azanyl-3-[[(2~{S},3~{S})-2,3-bis(oxidanyl)-4-sulfanyl-butyl]disulfanyl]propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: 6WK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: SC[C@H]([C@@H](CSSC[C@@H](C(=O)[O-])[NH3+])O)O
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:6ZS
name: l-isovaline
synonym: "(2~{S})-2-azanyl-2-methyl-butanoic acid" BROAD []
synonym: "pdb-ccd: 6ZS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@]([NH3+])(CC)C
l_bond_atoms: N5-1
l_displaced_atoms: H5
l_displaced_atoms: H5+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:73C
name: (2~{s})-2-azanyl-3-butoxy-propanoic acid
synonym: "(2~{S})-2-azanyl-3-butoxy-propanoic acid" BROAD []
synonym: "pdb-ccd: 73C" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: CCCCOC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:73N
name: (2~{s})-5-carbamimidamido-2-(carboxyamino)pentanoic acid
synonym: "(2~{S})-5-carbamimidamido-2-(carboxyamino)pentanoic acid" BROAD []
synonym: "R" BROAD []
synonym: "pdb-ccd: 73N" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: [O-]C(=O)N[C@H](C(=O)[O-])CCCNC(=[NH2+])N
l_bond_atoms: N4
l_displaced_atoms: H4
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:73O
name: (2~{s})-2-azanyl-4-(4-hydroxyphenyl)butanoic acid
synonym: "(2~{S})-2-azanyl-4-(4-hydroxyphenyl)butanoic acid" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: 73O" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [NH3+][C@H](C(=O)[O-])CCc1ccc(cc1)O
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:73P
name: (2~{s})-6-azanyl-2-(carboxyamino)hexanoic acid
synonym: "(2~{S})-6-azanyl-2-(carboxyamino)hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: 73P" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)[C@@H](NC(=O)[O-])CCCC[NH3+]
l_bond_atoms: N6
l_displaced_atoms: H6
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:74P
name: (e)-n~6~-(1-carboxy-3-oxobutylidene)-l-lysine
synonym: "(2~{S})-2-azanyl-6-[(~{E})-[1-oxidanyl-1,4-bis(oxidanylidene)pentan-2-ylidene]amino]hexanoic acid" BROAD []
synonym: "(E)-N~6~-(1-carboxy-3-oxobutylidene)-L-lysine" BROAD []
synonym: "pdb-ccd: 74P" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: CC(=O)C/C(=[NH+]\CCCC[C@@H](C(=O)[O-])[NH3+])/C(=O)[O-]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:7C9
name: o-methyl-l-serine
synonym: "(2~{S})-2-azanyl-3-methoxy-propanoic acid" BROAD []
synonym: "O-methyl-L-serine" BROAD []
synonym: "pdb-ccd: 7C9" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])COC
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:7CC
name: n,n-diethyl-l-asparagine
synonym: "(2~{S})-2-azanyl-4-(diethylamino)-4-oxidanylidene-butanoic acid" BROAD []
synonym: "N,N-diethyl-L-asparagine" BROAD []
synonym: "pdb-ccd: 7CC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CCN(C(=O)C[C@@H](C(=O)[O-])[NH3+])CC
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:7HA
name: n-(3-{[2-(4-chlorophenyl)-5-methyl-1,3-oxazol-4-yl]methoxy}benzyl)-n-(methoxycarbonyl)glycine
synonym: "2-[[3-[[2-(4-chlorophenyl)-5-methyl-1,3-oxazol-4-yl]methoxy]phenyl]methyl-methoxycarbonyl-amino]ethanoic acid" BROAD []
synonym: "N-(3-{[2-(4-chlorophenyl)-5-methyl-1,3-oxazol-4-yl]methoxy}benzyl)-N-(methoxycarbonyl)glycine" BROAD []
synonym: "pdb-ccd: 7HA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: COC(=O)N(Cc1cccc(c1)OCc1nc(oc1C)c1ccc(cc1)Cl)CC(=O)[O-]
l_bond_atoms: N16
r_bond_atoms: C29
r_displaced_atoms: O31-1

[Term]
id: BpForms:protein:7JA
name: n-({(1r,2s)-3-oxo-2-[(2z)-pent-2-en-1-yl]cyclopentyl}acetyl)-l-isoleucine
synonym: "(2S,3S)-3-methyl-2-[2-[(1R,2S)-3-oxo-2-[(Z)-pent-2-enyl]cyclopentyl]ethanoylamino]pentanoic acid" BROAD []
synonym: "I" BROAD []
synonym: "N-({(1R,2S)-3-oxo-2-[(2Z)-pent-2-en-1-yl]cyclopentyl}acetyl)-L-isoleucine" BROAD []
synonym: "pdb-ccd: 7JA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:I ! L-isoleucine
structure: CC/C=C\C[C@H]1[C@H](CCC1=O)CC(=O)N[C@@H]([C@H](CC)C)C(=O)[O-]
l_bond_atoms: N17
l_displaced_atoms: H17
r_bond_atoms: C25
r_displaced_atoms: O27-1

[Term]
id: BpForms:protein:7N8
name: 4-borono-l-phenylalanine
synonym: "(2~{S})-2-azanyl-3-[4-(dihydroxyboranyl)phenyl]propanoic acid" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: 7N8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: OB(c1ccc(cc1)C[C@@H](C(=O)[O-])[NH3+])O
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:81R
name: (4r)-4,5-disulfanyl-l-norvaline
synonym: "(2S,4R)-2-azanyl-4,5-bis(sulfanyl)pentanoic acid" BROAD []
synonym: "(4R)-4,5-disulfanyl-L-norvaline" BROAD []
synonym: "pdb-ccd: 81R" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: SC[C@@H](C[C@@H](C(=O)[O-])[NH3+])S
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:81S
name: (4s)-4,5-disulfanyl-l-norvaline
synonym: "(2S,4S)-2-azanyl-4,5-bis(sulfanyl)pentanoic acid" BROAD []
synonym: "(4S)-4,5-disulfanyl-L-norvaline" BROAD []
synonym: "pdb-ccd: 81S" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: SC[C@H](C[C@@H](C(=O)[O-])[NH3+])S
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:823
name: n,n-bis(3-sulfanylpropyl)-l-asparagine
synonym: "(2S)-2-azanyl-4-[bis(3-sulfanylpropyl)amino]-4-oxidanylidene-butanoic acid" BROAD []
synonym: "N,N-bis(3-sulfanylpropyl)-L-asparagine" BROAD []
synonym: "pdb-ccd: 823" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: SCCCN(C(=O)C[C@@H](C(=O)[O-])[NH3+])CCCS
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:85F
name: (2r)-2-azanyl-3-[(2r)-2-azanyl-3-oxidanyl-3-oxidanylidene-propyl]sulfanyl-propanoic acid
synonym: "(2~{R})-2-azanyl-3-[(2~{R})-2-azanyl-3-oxidanyl-3-oxidanylidene-propyl]sulfanyl-propanoic acid" BROAD []
synonym: "pdb-ccd: 85F" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [NH3+][C@H](C(=O)[O-])CSC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:85G
name: n-ethyl-l-glutamine
synonym: "(2~{S})-2-azanyl-5-(ethylamino)-5-oxidanylidene-pentanoic acid" BROAD []
synonym: "N-ethyl-L-glutamine" BROAD []
synonym: "pdb-ccd: 85G" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])CCC(=O)NCC
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:85J
name: n-propyl-l-glutamine
synonym: "(2~{S})-2-azanyl-5-oxidanylidene-5-(propylamino)pentanoic acid" BROAD []
synonym: "N-propyl-L-glutamine" BROAD []
synonym: "pdb-ccd: 85J" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])CCC(=O)NCCC
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:8JB
name: (2~{r})-2-azanyl-3-[[(5~{s})-5-[(1~{s})-1-azanyl-2-oxidanyl-2-oxidanylidene-ethyl]-4,5-dihydro-1,2-oxazol-3-yl]sulfanyl]propanoic acid
synonym: "(2~{R})-2-azanyl-3-[[(5~{S})-5-[(1~{S})-1-azanyl-2-oxidanyl-2-oxidanylidene-ethyl]-4,5-dihydro-1,2-oxazol-3-yl]sulfanyl]propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: 8JB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@H](CSC1=NO[C@@H](C1)[C@@H](C(=O)[O-])[NH3+])[NH3+]
l_bond_atoms: N19-1
l_displaced_atoms: H19
l_displaced_atoms: H19+1
r_bond_atoms: C16
r_displaced_atoms: O18-1

[Term]
id: BpForms:protein:8LJ
name: (2s)-2,3-dihydro-1h-pyrrole-2-carboxylic acid
synonym: "(2S)-2,3-dihydro-1H-pyrrole-2-carboxylic acid" BROAD []
synonym: "(2~{S})-2,3-dihydro-1~{H}-pyrrole-2-carboxylic acid" BROAD []
synonym: "pdb-ccd: 8LJ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [O-]C(=O)[C@@H]1CC=C[NH2+]1
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:8RE
name: 3,4-dihydroxylysine
synonym: "(2~{S},3~{R},4~{S})-2,6-bis(azanyl)-3,4-bis(oxidanyl)hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: 8RE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+]CC[C@@H]([C@@H]([C@@H](C(=O)[O-])[NH3+])O)O
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:8SP
name: o-[(r)-{[(2r)-2,3-bis(octanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-l-serine
synonym: "(2S)-2-azanyl-3-[[(2R)-2,3-di(octanoyloxy)propoxy]-oxidanyl-phosphoryl]oxy-propanoic acid" BROAD []
synonym: "O-[(R)-{[(2R)-2,3-bis(octanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-L-serine" BROAD []
synonym: "pdb-ccd: 8SP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: CCCCCCCC(=O)OC[C@@H](OC(=O)CCCCCCC)COP(=O)(OC[C@@H](C(=O)[O-])[NH3+])[O-]
l_bond_atoms: N35-1
l_displaced_atoms: H35
l_displaced_atoms: H35+1
r_bond_atoms: C32
r_displaced_atoms: O34-1

[Term]
id: BpForms:protein:8WY
name: 5,5-dihydroxy-l-norleucine
synonym: "(2~{S})-2-azanyl-5,5-bis(oxidanyl)hexanoic acid" BROAD []
synonym: "5,5-dihydroxy-L-norleucine" BROAD []
synonym: "pdb-ccd: 8WY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: [NH3+][C@H](C(=O)[O-])CCC(O)(O)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:8YR
name: (2s)-2-azanyl-2-[(3r)-oxolan-3-yl]ethanoic acid
synonym: "(2~{S})-2-azanyl-2-[(3~{R})-oxolan-3-yl]ethanoic acid" BROAD []
synonym: "pdb-ccd: 8YR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H]([C@@H]1COCC1)[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:9DN
name: dansyl-l-asparagine
synonym: "(2S)-4-amino-2-[(5-dimethylaminonaphthalen-1-yl)sulfonylamino]-4-oxo-butanoic acid" BROAD []
synonym: "N" BROAD []
synonym: "N~2~-{[5-(dimethylamino)naphthalen-1-yl]sulfonyl}-L-asparagine" BROAD []
synonym: "pdb-ccd: 9DN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: NC(=O)C[C@@H](C(=O)[O-])NS(=O)(=O)c1cccc2c1cccc2N(C)C
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:9E7
name: n~6~-(sulfanylmethyl)-l-lysine
synonym: "(2~{S})-2-azanyl-6-(sulfanylmethylamino)hexanoic acid" BROAD []
synonym: "N~6~-(sulfanylmethyl)-L-lysine" BROAD []
synonym: "pdb-ccd: 9E7" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: SC[NH2+]CCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:9EV
name: 6-[(2r)-2-{3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}-5-oxo-1,3-oxazolidin-3-yl]-l-norleucine
synonym: "(2~{S})-2-azanyl-6-[(2~{R})-2-[2-methyl-3-oxidanyl-5-(phosphonooxymethyl)pyridin-4-yl]-5-oxidanylidene-1,3-oxazolidin-3-yl]hexanoic acid" BROAD []
synonym: "6-[(2R)-2-{3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}-5-oxo-1,3-oxazolidin-3-yl]-L-norleucine" BROAD []
synonym: "pdb-ccd: 9EV" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: O=C1CN([C@H](O1)c1c(cnc(c1O)C)COP(=O)([O-])[O-])CCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N31-1
l_displaced_atoms: H31
l_displaced_atoms: H31+1
r_bond_atoms: C28
r_displaced_atoms: O30-1

[Term]
id: BpForms:protein:9KK
name: n-methyl norleucine
synonym: "(2~{S})-2-(methylamino)hexanoic acid" BROAD []
synonym: "pdb-ccd: 9KK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CCCC[C@@H](C(=O)[O-])[NH2+]C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:9MN
name: (2~{s})-2-azanyl-6-(6-bromanylhexanoylamino)hexanoic acid
synonym: "(2~{S})-2-azanyl-6-(6-bromanylhexanoylamino)hexanoic acid" BROAD []
synonym: "pdb-ccd: 9MN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: BrCCCCCC(=O)NCCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N19-1
l_displaced_atoms: H19
l_displaced_atoms: H19+1
r_bond_atoms: C16
r_displaced_atoms: O18-1

[Term]
id: BpForms:protein:9NE
name: dansyl-l-glutamate
synonym: "(2S)-2-[(5-dimethylaminonaphthalen-1-yl)sulfonylamino]pentanedioic acid" BROAD []
synonym: "E" BROAD []
synonym: "N-{[5-(dimethylamino)naphthalen-1-yl]sulfonyl}-L-glutamic acid" BROAD []
synonym: "pdb-ccd: 9NE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: [O-]C(=O)CC[C@@H](C(=O)[O-])NS(=O)(=O)c1cccc2c1cccc2N(C)C
l_bond_atoms: N11
l_displaced_atoms: H11
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:9NF
name: dansyl-l-phenylalanine
synonym: "(2S)-2-[(5-dimethylaminonaphthalen-1-yl)sulfonylamino]-3-phenyl-propanoic acid" BROAD []
synonym: "F" BROAD []
synonym: "N-{[5-(dimethylamino)naphthalen-1-yl]sulfonyl}-L-phenylalanine" BROAD []
synonym: "pdb-ccd: 9NF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [O-]C(=O)[C@@H](NS(=O)(=O)c1cccc2c1cccc2N(C)C)Cc1ccccc1
l_bond_atoms: N6
l_displaced_atoms: H6
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:9NR
name: dansyl-l-arginine
synonym: "(2S)-5-carbamimidamido-2-[(5-dimethylaminonaphthalen-1-yl)sulfonylamino]pentanoic acid" BROAD []
synonym: "N~2~-{[5-(dimethylamino)naphthalen-1-yl]sulfonyl}-L-arginine" BROAD []
synonym: "R" BROAD []
synonym: "pdb-ccd: 9NR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: [O-]C(=O)[C@@H](NS(=O)(=O)c1cccc2c1cccc2N(C)C)CCCNC(=[NH2+])N
l_bond_atoms: N6
l_displaced_atoms: H6
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:9NV
name: dansyl-l-norvaline
synonym: "(2S)-2-[(5-dimethylaminonaphthalen-1-yl)sulfonylamino]pentanoic acid" BROAD []
synonym: "N-{[5-(dimethylamino)naphthalen-1-yl]sulfonyl}-L-norvaline" BROAD []
synonym: "V" BROAD []
synonym: "pdb-ccd: 9NV" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:V ! L-valine
structure: CCC[C@@H](C(=O)[O-])NS(=O)(=O)c1cccc2c1cccc2N(C)C
l_bond_atoms: N9
l_displaced_atoms: H9
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:9R1
name: (2s)-2-aminooctanedioic acid
synonym: "(2S)-2-aminooctanedioic acid" BROAD []
synonym: "(2~{S})-2-azanyloctanedioic acid" BROAD []
synonym: "pdb-ccd: 9R1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CCCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:9R4
name: d-gamma-glutamyl-2-methyl-l-alanine
synonym: "(2~{R})-2-azanyl-5-[(2-methyl-1-oxidanyl-1-oxidanylidene-propan-2-yl)amino]-5-oxidanylidene-pentanoic acid" BROAD []
synonym: "D-gamma-glutamyl-2-methyl-L-alanine" BROAD []
synonym: "pdb-ccd: 9R4" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: O=C(NC(C(=O)[O-])(C)C)CC[C@H](C(=O)[O-])[NH3+]
l_bond_atoms: N3
l_displaced_atoms: H3
r_bond_atoms: C5
r_displaced_atoms: O7-1

[Term]
id: BpForms:protein:9R7
name: l-gamma-glutamylglycine
synonym: "(2~{S})-2-azanyl-5-(2-hydroxy-2-oxoethylamino)-5-oxidanylidene-pentanoic acid" BROAD []
synonym: "L-gamma-glutamylglycine" BROAD []
synonym: "pdb-ccd: 9R7" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: O=C(CC[C@@H](C(=O)[O-])[NH3+])NCC(=O)[O-]
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:9WV
name: beta-alanyl-3-amino-l-alanine
synonym: "(2~{S})-3-azanyl-2-(3-azanylpropanoylamino)propanoic acid" BROAD []
synonym: "beta-alanyl-3-amino-L-alanine" BROAD []
synonym: "pdb-ccd: 9WV" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [NH3+]CCC(=O)N[C@H](C(=O)[O-])C[NH3+]
l_bond_atoms: N9
l_displaced_atoms: H9
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:A5N
name: o-carboxy-4-imino-l-homoserine
synonym: "(2S)-2-amino-4-carboxyoxy-4-imino-butanoic acid" BROAD []
synonym: "N" BROAD []
synonym: "O-carboxy-4-imino-L-homoserine" BROAD []
synonym: "pdb-ccd: A5N" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: [O-]C(=O)OC(=N)C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:A66
name: 2-aminoethyllysine-carbonylmethylene-adenine
synonym: "(2R)-6-amino-2-[2-aminoethyl-[2-(6-aminopurin-9-yl)ethanoyl]amino]hexanoic acid" BROAD []
synonym: "N~2~-(2-aminoethyl)-N~2~-[(6-amino-9H-purin-9-yl)acetyl]-D-lysine" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: A66" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]CCN([C@@H](C(=O)[O-])CCCC[NH3+])C(=O)Cn1cnc2c1ncnc2N
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:A8E
name: (2s)-2-amino-4-bromopent-4-enoic acid
synonym: "(2S)-2-amino-4-bromopent-4-enoic acid" BROAD []
synonym: "(2S)-2-azanyl-4-bromanyl-pent-4-enoic acid" BROAD []
synonym: "pdb-ccd: A8E" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:V ! L-valine
structure: BrC(=C)C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:AA4
name: 2-amino-5-hydroxypentanoic acid
synonym: "(2S)-2-amino-5-hydroxy-pentanoic acid" BROAD []
synonym: "5-hydroxy-L-norvaline" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: AA4" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@@H]([NH3+])CCCO
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:AA6
name: 3-[4,5-dihydroxy-2-2-(2-hydroxyethylamino)-phenyl]-2-methylamino-propionic acid
synonym: "(2S)-3-[4,5-dihydroxy-2-(hydroxymethylamino)phenyl]-2-(methylamino)propanoic acid" BROAD []
synonym: "3-hydroxy-6-[(hydroxymethyl)amino]-N-methyl-L-tyrosine" BROAD []
synonym: "pdb-ccd: AA6" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: OCNc1cc(O)c(cc1C[C@@H](C(=O)[O-])[NH2+]C)O
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:ADD
name: 2,6,8-trimethyl-3-amino-9-benzyl-9-methoxynonanoic acid
synonym: "(2S,3S,6R,8S,9S)-3-amino-9-methoxy-2,6,8-trimethyl-10-phenyldecanoic acid" BROAD []
synonym: "(2S,3S,8S,9S)-3-amino-9-methoxy-2,6,8-trimethyl-10-phenyl-decanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: ADD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CO[C@H]([C@H](CC(CC[C@@H]([C@@H](C(=O)[O-])C)[NH3+])C)C)Cc1ccccc1
l_bond_atoms: N19-1
l_displaced_atoms: H19
l_displaced_atoms: H19+1
r_bond_atoms: C15
r_displaced_atoms: O17-1

[Term]
id: BpForms:protein:AE5
name: n-[(2s)-2-amino-2-carboxyethyl]-l-glutamic acid
synonym: "(2S)-2-[[(2S)-2-azanyl-3-oxidanyl-3-oxidanylidene-propyl]amino]pentanedioic acid" BROAD []
synonym: "N-[(2S)-2-amino-2-carboxyethyl]-L-glutamic acid" BROAD []
synonym: "pdb-ccd: AE5" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CC[C@@H](C(=O)[O-])[NH2+]C[C@@H](C(=O)[O-])N
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:AEA
name: (2-amino-2-carbamoyl-ethylsulfanyl)-acetic acid
synonym: "2-[(2S)-2,3-bis(azanyl)-3-oxidanylidene-propyl]sulfanylethanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: AEA" EXACT []
synonym: "{[(2S)-2,3-diamino-3-oxopropyl]sulfanyl}acetic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)CSC[C@H](C(=O)N)[NH3+]
l_bond_atoms: N11
l_displaced_atoms: H11
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:AFA
name: n-[7-methyl-oct-2,4-dienoyl]asparagine
synonym: "(2S)-4-amino-2-[[(2Z,4E)-7-methylocta-2,4-dienoyl]amino]-4-oxo-butanoic acid" BROAD []
synonym: "N" BROAD []
synonym: "N~2~-[(2Z,4E)-7-methylocta-2,4-dienoyl]-L-asparagine" BROAD []
synonym: "pdb-ccd: AFA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: CC(C/C=C/C=C\C(=O)N[C@H](C(=O)[O-])CC(=O)N)C
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:AGQ
name: 3-[(3e)-3-(carbamimidoylhydrazono)-4-hydroxy-6-oxocyclohexa-1,4-dien-1-yl]-l-alanine
synonym: "(2S)-2-azanyl-3-[(3E)-3-(carbamimidoylhydrazinylidene)-4-hydroxy-6-oxo-cyclohexa-1,4-dien-1-yl]propanoic acid" BROAD []
synonym: "3-[(3E)-3-(2-carbamimidoylhydrazinylidene)-4-hydroxy-6-oxocyclohexa-1,4-dien-1-yl]-L-alanine" BROAD []
synonym: "pdb-ccd: AGQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@H](CC1=C/C(=N\NC(=[NH2+])N)/C(=CC1=O)[O-])[NH3+]
l_bond_atoms: N22-1
l_displaced_atoms: H22
l_displaced_atoms: H22+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:AGT
name: s-{(s)-amino[(4-aminobutyl)amino]methyl}-l-cysteine
synonym: "(2R)-2-azanyl-3-[(S)-azanyl-(4-azanylbutylamino)methyl]sulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-{(S)-amino[(4-aminobutyl)amino]methyl}-L-cysteine" BROAD []
synonym: "pdb-ccd: AGT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [NH3+]CCCCN[C@@H](SC[C@@H](C(=O)[O-])[NH3+])N
l_bond_atoms: N19-1
l_displaced_atoms: H19
l_displaced_atoms: H19+1
r_bond_atoms: C16
r_displaced_atoms: O18-1

[Term]
id: BpForms:protein:AHH
name: amino-hydroxyheptanoic acid
synonym: "(2S,3R)-3-amino-2-hydroxy-heptanoic acid" BROAD []
synonym: "(2S,3R)-3-amino-2-hydroxyheptanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: AHH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H]([C@H]([NH3+])CCCC)O
l_bond_atoms: N8-1
l_displaced_atoms: H8
l_displaced_atoms: H8+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:AHO
name: n-acetyl-n-hydroxy-l-ornithine
synonym: "(2S)-2-amino-5-(ethanoyl-hydroxy-amino)pentanoic acid" BROAD []
synonym: "A" BROAD []
synonym: "N~5~-acetyl-N~5~-hydroxy-L-ornithine" BROAD []
synonym: "pdb-ccd: AHO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [NH3+][C@H](C(=O)[O-])CCCN(C(=O)C)O
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:AHP
name: 2-amino-heptanoic acid
synonym: "(2S)-2-aminoheptanoic acid" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: AHP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: CCCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:AIB
name: alpha-aminoisobutyric acid
synonym: "2-amino-2-methyl-propanoic acid" BROAD []
synonym: "2-methyl-L-alanine" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: AIB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)C([NH3+])(C)C
l_bond_atoms: N5-1
l_displaced_atoms: H5
l_displaced_atoms: H5+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:AJE
name: (3s,4r)-4-amino-1-(3-carboxypropanoyl)pyrrolidine-3-carboxylic acid
synonym: "(3S,4R)-4-amino-1-(3-carboxypropanoyl)pyrrolidine-3-carboxylic acid" BROAD []
synonym: "(3S,4R)-4-azanyl-1-(4-oxidanyl-4-oxidanylidene-butanoyl)pyrrolidine-3-carboxylic acid" BROAD []
synonym: "pdb-ccd: AJE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CCC(=O)N1C[C@@H]([C@H](C1)C(=O)[O-])[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:ALC
name: 2-amino-3-cyclohexyl-propionic acid
synonym: "(2S)-2-amino-3-cyclohexyl-propanoic acid" BROAD []
synonym: "3-cyclohexyl-L-alanine" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: ALC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [NH3+][C@H](C(=O)[O-])CC1CCCCC1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:ALN
name: naphthalen-2-yl-3-alanine
synonym: "(2S)-2-amino-3-naphthalen-1-yl-propanoic acid" BROAD []
synonym: "(2S)-2-amino-3-naphthalen-1-ylpropanoic acid (non-preferred name)" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: ALN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@H](Cc1cccc2c1cccc2)[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:ALO
name: allo-threonine
synonym: "(2S,3S)-2-amino-3-hydroxy-butanoic acid" BROAD []
synonym: "L-allothreonine" BROAD []
synonym: "T" BROAD []
synonym: "pdb-ccd: ALO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: [O-]C(=O)[C@@H]([NH3+])[C@@H](O)C
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:ALS
name: (3s)-3-(sulfooxy)-l-serine
synonym: "(2S,3S)-2-azanyl-3-oxidanyl-3-sulfooxy-propanoic acid" BROAD []
synonym: "(3S)-3-(sulfooxy)-L-serine" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: ALS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@H]([C@H](OS(=O)(=O)[O-])O)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:ALT
name: thioalanine
synonym: "(2S)-2-aminopropanethioic O-acid" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: ALT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=S)[C@@H]([NH3+])C
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1

[Term]
id: BpForms:protein:AN6
name: 5'-{[(3s)-3-amino-3-carboxypropyl](ethyl)amino}-5'-deoxyadenosine
synonym: "(2S)-4-[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl-ethyl-amino]-2-azanyl-butanoic acid" BROAD []
synonym: "5'-{[(3S)-3-amino-3-carboxypropyl](ethyl)amino}-5'-deoxyadenosine" BROAD []
synonym: "pdb-ccd: AN6" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: CC[NH+](C[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1ncnc2N)CC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N34-1
l_displaced_atoms: H34
l_displaced_atoms: H34+1
r_bond_atoms: C31
r_displaced_atoms: O33-1

[Term]
id: BpForms:protein:AN8
name: (2s)-2-aminononanoic acid
synonym: "(2S)-2-aminononanoic acid" BROAD []
synonym: "(2S)-2-azanylnonanoic acid" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: AN8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: CCCCCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:API
name: 2,6-diaminopimelic acid
synonym: "(2R,6S)-2,6-diaminoheptanedioic acid" BROAD []
synonym: "(2S,6R)-2,6-bis(azanyl)heptanedioic acid" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: API" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+][C@H](C(=O)[O-])CCC[C@H](C(=O)[O-])[NH3+]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:APK
name: 5'-o-[(s)-{[(5s)-5-amino-6-oxohexyl]amino}(hydroxy)phosphoryl]adenosine
synonym: "5'-O-[(S)-{[(5S)-5-amino-6-oxohexyl]amino}(hydroxy)phosphoryl]adenosine" BROAD []
synonym: "K" BROAD []
synonym: "N-[(5S)-5-amino-6-oxo-hexyl]-[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy]phosphonamidic acid" BROAD []
synonym: "pdb-ccd: APK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)[C@H](CCCCNP(=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1ncnc2N)[O-])[NH3+]
l_bond_atoms: N37-1
l_displaced_atoms: H37
l_displaced_atoms: H37+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:APM
name: m-amidinophenyl-3-alanine
synonym: "(2S)-2-amino-3-(3-carbamimidoylphenyl)propanoic acid" BROAD []
synonym: "3-carbamimidoyl-L-phenylalanine" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: APM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](Cc1cccc(c1)C(=[NH2+])N)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:APP
name: 1-acetyl-2-carboxypiperidine
synonym: "(2S)-1-acetylpiperidine-2-carboxylic acid" BROAD []
synonym: "(2S)-1-ethanoylpiperidine-2-carboxylic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: APP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CC(=O)N1CCCC[C@H]1C(=O)[O-]
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:AR2
name: arginyl-benzothiazole-6-carboxylic acid
synonym: "2-(L-arginyl)-1,3-benzothiazole-6-carboxylic acid" BROAD []
synonym: "2-[(2S)-2-azanyl-5-carbamimidamido-pentanoyl]-1,3-benzothiazole-6-carboxylic acid" BROAD []
synonym: "R" BROAD []
synonym: "pdb-ccd: AR2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: N[C@H](C(=O)c1nc2c(s1)cc(cc2)C(=O)[O-])CCCNC(=[NH2+])N
l_bond_atoms: N1
l_displaced_atoms: H1
r_bond_atoms: C15
r_displaced_atoms: O17-1

[Term]
id: BpForms:protein:AR4
name: 2-azanyl-5-[3-fluoranyl-5-(hydroxymethyl)-3,4-bis(oxidanyl)oxolan-2-yl]oxy-5-oxidanylidene-pentanoic acid
synonym: "(2S)-2-amino-5-{[(2R,3S,4R,5R)-3-fluoro-3,4-dihydroxy-5-(hydroxymethyl)tetrahydrofuran-2-yl]oxy}-5-oxopentanoic acid (non-preferred name)" BROAD []
synonym: "2-azanyl-5-[3-fluoranyl-5-(hydroxymethyl)-3,4-bis(oxidanyl)oxolan-2-yl]oxy-5-oxidanylidene-pentanoic acid" BROAD []
synonym: "E" BROAD []
synonym: "pdb-ccd: AR4" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: OCC1OC(C(C1O)(O)F)OC(=O)CCC(C(=O)[O-])[NH3+]
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C17
r_displaced_atoms: O19-1

[Term]
id: BpForms:protein:ARM
name: deoxy-methyl-arginine
synonym: "1-[(4S)-4-amino-5-oxo-hexyl]guanidine" BROAD []
synonym: "1-[(4S)-4-amino-5-oxohexyl]guanidine" BROAD []
synonym: "R" BROAD []
synonym: "pdb-ccd: ARM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: CC(=O)[C@H](CCCNC(=[NH2+])N)[NH3+]
l_bond_atoms: N9
l_displaced_atoms: H9

[Term]
id: BpForms:protein:ARV
name: 5-n-allyl-arginine
synonym: "(Z)-[amino-[[(4S)-4-amino-5-hydroxy-5-oxo-pentyl]amino]methylidene]-prop-2-enyl-azanium" BROAD []
synonym: "N-[(1Z)-amino{[(4S)-4-amino-4-carboxybutyl]amino}methylidene]prop-2-en-1-aminium" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: ARV" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])CCCN/C(=[NH+]\CC=C)/N
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:AS7
name: n4-(4-cyanobenzyl)-l-asparagine
synonym: "(2S)-2-azanyl-4-[(4-cyanophenyl)methylamino]-4-oxidanylidene-butanoic acid" BROAD []
synonym: "N-(4-cyanobenzyl)-L-asparagine" BROAD []
synonym: "pdb-ccd: AS7" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: [NH3+][C@H](C(=O)[O-])CC(=O)NCc1ccc(cc1)C#N
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:AS9
name: n-[hydroxy(methyl)phosphoryl]-l-aspartic acid
synonym: "(2S)-2-[(hydroxy-methyl-phosphoryl)amino]butanedioic acid" BROAD []
synonym: "N-[(R)-hydroxy(methyl)phosphoryl]-L-aspartic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: AS9" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)C[C@@H](C(=O)[O-])NP(=O)(C)[O-]
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:ASB
name: aspartic acid-4-carboxymethyl ester
synonym: "(2S)-2-amino-4-(carboxymethoxy)-4-oxobutanoic acid (non-preferred name)" BROAD []
synonym: "(2S)-2-amino-4-(carboxymethyloxy)-4-oxo-butanoic acid" BROAD []
synonym: "D" BROAD []
synonym: "pdb-ccd: ASB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:D ! L-aspartic acid
structure: O=C(C[C@@H](C(=O)[O-])[NH3+])OCC(=O)[O-]
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:ASL
name: aspartic acid-4-carboxyethyl ester
synonym: "2-amino-4-(1-carboxyethoxy)-4-oxobutanoic acid (non-preferred name)" BROAD []
synonym: "2-azanyl-4-oxidanylidene-4-(1-oxidanyl-1-oxidanylidene-propan-2-yl)oxy-butanoic acid" BROAD []
synonym: "D" BROAD []
synonym: "pdb-ccd: ASL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:D ! L-aspartic acid
structure: O=C(CC(C(=O)[O-])[NH3+])OC(C(=O)[O-])C
l_bond_atoms: N8-1
l_displaced_atoms: H8
l_displaced_atoms: H8+1
r_bond_atoms: C5
r_displaced_atoms: O7-1

[Term]
id: BpForms:protein:ASM
name: 2-amino-4-oxo-4(1h-pyrrol-1-yl)butanoic acid
synonym: "(2S)-2-amino-4-oxo-4-(1H-pyrrol-1-yl)butanoic acid" BROAD []
synonym: "(2S)-2-amino-4-oxo-4-pyrrol-1-yl-butanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: ASM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@H](C(=O)[O-])CC(=O)n1cccc1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:AVN
name: (2s)-amino[(5s)-3-chloro-4,5-dihydroisoxazol-5-yl]acetic acid
synonym: "(2S)-2-amino-2-[(5S)-3-chloro-4,5-dihydro-1,2-oxazol-5-yl]ethanoic acid" BROAD []
synonym: "(2S)-amino[(5S)-3-chloro-4,5-dihydroisoxazol-5-yl]ethanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: AVN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])[C@@H]1CC(=NO1)Cl
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:AZH
name: azidohomoalanine
synonym: "1-[(3S)-3-amino-3-carboxypropyl]triaza-1,2-dien-2-ium" BROAD []
synonym: "A" BROAD []
synonym: "[(3S)-3-amino-4-hydroxy-4-oxo-butyl]imino-imino-azanium" BROAD []
synonym: "pdb-ccd: AZH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [N-]=[N+]=NCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:AZK
name: (s)-2-amino-6-azidohexanoic acid
synonym: "(2S)-2-amino-6-azido-hexan-1-ol" BROAD []
synonym: "(2S)-2-amino-6-azidohexan-1-ol" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: AZK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [N-]=[N+]=NCCCC[C@@H](CO)[NH3+]
l_bond_atoms: N3

[Term]
id: BpForms:protein:AZS
name: o-diazoacetyl-l-serine
synonym: "(2S)-2-amino-3-(2-diazoethanoyloxy)propanoic acid" BROAD []
synonym: "O-(diazoacetyl)-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: AZS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [O-]C(=O)[C@@H]([NH3+])COC(=O)C=[N+]=N
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:AZY
name: 3-azido-l-tyrosine
synonym: "(2S)-2-amino-3-(3-azido-4-hydroxy-phenyl)propanoic acid" BROAD []
synonym: "3-azido-L-tyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: AZY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [N-]=[N+]=Nc1cc(ccc1O)C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:B27
name: (2r,3s) 3-amino-4-mercapto-2-butanol
synonym: "(2R,3S)-3-amino-4-sulfanyl-butan-2-ol" BROAD []
synonym: "(2R,3S)-3-amino-4-sulfanylbutan-2-ol" BROAD []
synonym: "pdb-ccd: B27" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: C[C@H]([C@H]([NH3+])CS)O
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1

[Term]
id: BpForms:protein:B2H
name: chromophore (thr, trp, gly)
synonym: "2-[2-[(1~{R},2~{R})-1-azanyl-2-oxidanyl-propyl]-4-(1~{H}-indol-3-ylmethyl)-5-oxidanyl-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "TWG" BROAD []
synonym: "pdb-ccd: B2H" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)Cn1c(O)c(nc1[C@H]([C@H](O)C)[NH3+])Cc1c[nH]c2c1cccc2
l_bond_atoms: N9
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:B2N
name: (2s)-4-amino-2-(aminomethyl)-4-oxobutanoic acid
synonym: "(2S)-4-amino-2-(aminomethyl)-4-oxobutanoic acid" BROAD []
synonym: "(2~{S})-2-(aminomethyl)-4-azanyl-4-oxidanylidene-butanoic acid" BROAD []
synonym: "pdb-ccd: B2N" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]C[C@@H](C(=O)[O-])CC(=O)N
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:B3A
name: (3s)-3-aminobutanoic acid
synonym: "(3S)-3-aminobutanoic acid" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: B3A" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)C[C@@H]([NH3+])C
l_bond_atoms: N7-1
l_displaced_atoms: H7
l_displaced_atoms: H7+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:B3E
name: (3s)-3-aminohexanedioic acid
synonym: "(3S)-3-aminohexanedioic acid" BROAD []
synonym: "E" BROAD []
synonym: "pdb-ccd: B3E" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: [O-]C(=O)CC[C@@H](CC(=O)[O-])[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:B3K
name: (3s)-3,7-diaminoheptanoic acid
synonym: "(3S)-3,7-diaminoheptanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: B3K" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+]CCCC[C@@H](CC(=O)[O-])[NH3+]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:B3L
name: (3s)-3-amino-5-methylhexanoic acid
synonym: "(3S)-3-amino-5-methyl-hexanoic acid" BROAD []
synonym: "(3S)-3-amino-5-methylhexanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: B3L" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CC(C[C@@H](CC(=O)[O-])[NH3+])C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:B3M
name: (3r)-3-amino-5-(methylsulfanyl)pentanoic acid
synonym: "(3R)-3-amino-5-(methylsulfanyl)pentanoic acid" BROAD []
synonym: "(3R)-3-amino-5-methylsulfanyl-pentanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: B3M" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CSCC[C@@H](CC(=O)[O-])[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:B3Q
name: (3s)-3,6-diamino-6-oxohexanoic acid
synonym: "(3S)-3,6-diamino-6-oxo-hexanoic acid" BROAD []
synonym: "(3S)-3,6-diamino-6-oxohexanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: B3Q" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: NC(=O)CC[C@@H](CC(=O)[O-])[NH3+]
l_bond_atoms: N1
l_displaced_atoms: H1
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:B3T
name: 3-amino-2,3,5-trideoxy-d-threo-pentonic acid
synonym: "(3R,4R)-3-amino-4-hydroxy-pentanoic acid" BROAD []
synonym: "3-amino-2,3,5-trideoxy-D-threo-pentonic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: B3T" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)C[C@@H]([NH3+])[C@H](O)C
l_bond_atoms: N7-1
l_displaced_atoms: H7
l_displaced_atoms: H7+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:B3U
name: 2-amino-l-histidine
synonym: "(2S)-2-azanyl-3-(2-azanyl-1H-imidazol-5-yl)propanoic acid" BROAD []
synonym: "2-amino-L-histidine" BROAD []
synonym: "H" BROAD []
synonym: "pdb-ccd: B3U" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: [O-]C(=O)[C@@H]([NH3+])Cc1c[nH+]c([nH]1)N
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:B3X
name: (3s)-3,5-diamino-5-oxopentanoic acid
synonym: "(3S)-3,5-diamino-5-oxo-pentanoic acid" BROAD []
synonym: "(3S)-3,5-diamino-5-oxopentanoic acid" BROAD []
synonym: "N" BROAD []
synonym: "pdb-ccd: B3X" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: [O-]C(=O)C[C@H](CC(=O)N)[NH3+]
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:B3Y
name: (3s)-3-amino-4-(4-hydroxyphenyl)butanoic acid
synonym: "(3S)-3-amino-4-(4-hydroxyphenyl)butanoic acid" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: B3Y" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [NH3+][C@@H](Cc1ccc(cc1)O)CC(=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C16
r_displaced_atoms: O18-1

[Term]
id: BpForms:protein:B8R
name: (2s,10r)-2,10-diamino-11-(dimethylamino)-11-oxoundecanoic acid
synonym: "(2S,10R)-2,10-diamino-11-(dimethylamino)-11-oxoundecanoic acid" BROAD []
synonym: "(2~{S},10~{R})-2,10-bis(azanyl)-11-(dimethylamino)-11-oxidanylidene-undecanoic acid" BROAD []
synonym: "pdb-ccd: B8R" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](CCCCCCC[C@H](C(=O)N(C)C)[NH3+])[NH3+]
l_bond_atoms: N24-1
l_displaced_atoms: H24
l_displaced_atoms: H24+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:BB8
name: (2s,3s)-beta-hydroxy-phenylalanine
synonym: "(2S,3S)-2-amino-3-hydroxy-3-phenyl-propanoic acid" BROAD []
synonym: "(betaS)-beta-hydroxy-L-phenylalanine" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: BB8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: O[C@H]([C@@H](C(=O)[O-])[NH3+])c1ccccc1
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:BBC
name: 3-[(4-aminobutyl)sulfinyl]-2-iminopropan-1-ol
synonym: "(2E)-3-[(S)-(4-aminobutyl)sulfinyl]-2-iminopropan-1-ol" BROAD []
synonym: "3-[(S)-4-aminobutylsulfinyl]-2-imino-propan-1-ol" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: BBC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OCC(=[NH2+])C[S@@](=O)CCCC[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1

[Term]
id: BpForms:protein:BCS
name: benzylcysteine
synonym: "(2R)-2-amino-3-benzylsulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-benzyl-L-cysteine" BROAD []
synonym: "pdb-ccd: BCS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [NH3+][C@H](C(=O)[O-])CSCc1ccccc1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:BCX
name: (3r)-3-amino-4-sulfanylbutanoic acid
synonym: "(3R)-3-amino-4-sulfanylbutanoic acid" BROAD []
synonym: "(3R)-3-azanyl-4-sulfanyl-butanoic acid" BROAD []
synonym: "pdb-ccd: BCX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)C[C@@H]([NH3+])CS
l_bond_atoms: N7-1
l_displaced_atoms: H7
l_displaced_atoms: H7+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:BE2
name: 2-aminobenzoic acid
synonym: "2-aminobenzoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: BE2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)c1ccccc1N
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:BF6
name: [(4z)-2-(aminomethyl)-4-{[4-(benzenecarbonyl)phenyl]methylidene}-5-oxo-4,5-dihydro-1h-imidazol-1-yl]acetic acid
synonym: "2-[(4~{Z})-2-(aminomethyl)-5-oxidanylidene-4-[[4-(phenylcarbonyl)phenyl]methylidene]imidazol-1-yl]ethanoic acid" BROAD []
synonym: "[(4Z)-2-(aminomethyl)-4-{[4-(benzenecarbonyl)phenyl]methylidene}-5-oxo-4,5-dihydro-1H-imidazol-1-yl]acetic acid" BROAD []
synonym: "pdb-ccd: BF6" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]CC1=N/C(=C\c2ccc(cc2)C(=O)c2ccccc2)/C(=O)N1CC(=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C28
r_displaced_atoms: O30-1

[Term]
id: BpForms:protein:BF9
name: [(4z)-2-[(1r,2s)-1-amino-2-hydroxypropyl]-4-{[4-(benzenecarbonyl)phenyl]methylidene}-5-oxo-4,5-dihydro-1h-imidazol-1-yl]acetic acid
synonym: "2-[(4~{Z})-2-[(1~{R},2~{S})-1-azanyl-2-oxidanyl-propyl]-5-oxidanylidene-4-[[4-(phenylcarbonyl)phenyl]methylidene]imidazol-1-yl]ethanoic acid" BROAD []
synonym: "[(4Z)-2-[(1R,2S)-1-amino-2-hydroxypropyl]-4-{[4-(benzenecarbonyl)phenyl]methylidene}-5-oxo-4,5-dihydro-1H-imidazol-1-yl]acetic acid" BROAD []
synonym: "pdb-ccd: BF9" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=O)/C(=C/c2ccc(cc2)C(=O)c2ccccc2)/N=C1[C@H]([C@@H](O)C)[NH3+]
l_bond_atoms: N24
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:BG1
name: o-[(2s)-2-{methyl[(methylamino)sulfonyl]amino}pentanoyl]-l-serine
synonym: "(2S)-2-amino-3-[(2S)-2-(methyl-(methylsulfamoyl)amino)pentanoyl]oxy-propanoic acid" BROAD []
synonym: "O-{(2S)-2-[methyl(methylsulfamoyl)amino]pentanoyl}-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: BG1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: CCC[C@H](N(S(=O)(=O)NC)C)C(=O)OC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N22-1
l_displaced_atoms: H22
l_displaced_atoms: H22+1
r_bond_atoms: C19
r_displaced_atoms: O21-1

[Term]
id: BpForms:protein:BIF
name: (r)-2-amino-3-(4-phenylcyclohexyl)propanoic acid
synonym: "(2S)-2-amino-3-(4-phenylphenyl)propanoic acid" BROAD []
synonym: "(2S)-2-amino-3-biphenyl-4-ylpropanoic acid (non-preferred name)" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: BIF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [NH3+][C@H](C(=O)[O-])Cc1ccc(cc1)c1ccccc1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:BIL
name: (3r,4s)-3-amino-4-methylhexanoic acid
synonym: "(3R,4S)-3-amino-4-methyl-hexanoic acid" BROAD []
synonym: "(3R,4S)-3-amino-4-methylhexanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: BIL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)C[C@@H]([NH3+])[C@H](CC)C
l_bond_atoms: N7-1
l_displaced_atoms: H7
l_displaced_atoms: H7+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:BIU
name: 5-bromo-l-isoleucine
synonym: "(2S,3S)-2-amino-5-bromo-3-methyl-pentanoic acid" BROAD []
synonym: "5-bromo-L-isoleucine" BROAD []
synonym: "I" BROAD []
synonym: "pdb-ccd: BIU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:I ! L-isoleucine
structure: [O-]C(=O)[C@@H]([NH3+])[C@H](CCBr)C
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:BJH
name: 1(r)-1-acetamido-2-(3-carboxy-2-hydroxyphenyl)ethyl boronic acid
synonym: "3-[(2R)-2-(acetylamino)-2-(dihydroxyboranyl)ethyl]-2-hydroxybenzoic acid" BROAD []
synonym: "3-[(2R)-2-acetamido-2-(dihydroxyboranyl)ethyl]-2-hydroxy-benzoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: BJH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CC(=O)N[C@H](B(O)O)Cc1cccc(c1O)C(=O)[O-]
l_bond_atoms: N4
l_displaced_atoms: H4
r_bond_atoms: C18
r_displaced_atoms: O20-1

[Term]
id: BpForms:protein:BL2
name: n-(tert-butoxycarbonyl)-l-leucine
synonym: "(2S)-4-methyl-2-[(2-methylpropan-2-yl)oxycarbonylamino]pentanoic acid" BROAD []
synonym: "L" BROAD []
synonym: "N-(tert-butoxycarbonyl)-L-leucine" BROAD []
synonym: "pdb-ccd: BL2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: CC(C[C@@H](C(=O)[O-])NC(=O)OC(C)(C)C)C
l_bond_atoms: N9
l_displaced_atoms: H9
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:BMT
name: 4-methyl-4-[(e)-2-butenyl]-4,n-methyl-threonine
synonym: "(E,2S,3R,4R)-4-methyl-2-(methylamino)-3-oxidanyl-oct-6-enoic acid" BROAD []
synonym: "4-[(2E)-but-2-en-1-yl]-2,4,5-trideoxy-2-(methylamino)-L-xylonic acid" BROAD []
synonym: "T" BROAD []
synonym: "pdb-ccd: BMT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: C/C=C/C[C@H]([C@H]([C@@H](C(=O)[O-])[NH2+]C)O)C
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:BNN
name: acetyl-p-amidinophenylalanine
synonym: "(2S)-2-acetamido-3-(4-carbamimidoylphenyl)propanoic acid" BROAD []
synonym: "F" BROAD []
synonym: "N-acetyl-4-carbamimidoyl-L-phenylalanine" BROAD []
synonym: "pdb-ccd: BNN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: CC(=O)N[C@H](C(=O)[O-])Cc1ccc(cc1)C(=[NH2+])N
l_bond_atoms: N4
l_displaced_atoms: H4
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:BP5
name: 3-(2,2'-bipyridin-5-yl)-l-alanine
synonym: "(2S)-2-azanyl-3-(6-pyridin-2-ylpyridin-3-yl)propanoic acid" BROAD []
synonym: "3-(2,2'-bipyridin-5-yl)-L-alanine" BROAD []
synonym: "pdb-ccd: BP5" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [NH3+][C@H](C(=O)[O-])Cc1ccc(nc1)c1ccccn1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:BPE
name: (2s)-2-amino-3-[(3-aminopropyl)sulfanyl]propan-1-ol
synonym: "(2R)-2-amino-3-(3-aminopropylsulfanyl)propan-1-ol" BROAD []
synonym: "(2R)-2-amino-3-[(3-aminopropyl)sulfanyl]propan-1-ol" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: BPE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC[C@H](CSCCC[NH3+])[NH3+]
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1

[Term]
id: BpForms:protein:BSE
name: beta-3-serine
synonym: "(2S)-2-(aminomethyl)-3-hydroxy-propanoic acid" BROAD []
synonym: "(2S)-3-amino-2-(hydroxymethyl)propanoic acid" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: BSE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC[C@@H](C(=O)[O-])C[NH3+]
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C5
r_displaced_atoms: O7-1

[Term]
id: BpForms:protein:BUC
name: s,s-butylthiocysteine
synonym: "(2R)-2-amino-3-butyldisulfanyl-propanoic acid" BROAD []
synonym: "3-(butyldisulfanyl)-L-alanine" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: BUC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: CCCCSSC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:BW5
name: (2~{s})-3-(1-adamantyl)-2-azanyl-propanoic acid
synonym: "(2~{S})-3-(1-adamantyl)-2-azanyl-propanoic acid" BROAD []
synonym: "pdb-ccd: BW5" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@H](C(=O)[O-])CC12CC3CC(C1)CC(C2)C3
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:BWB
name: (2~{s})-2-azanyl-3-[(2~{s},5~{r})-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-propanoic acid
synonym: "(2~{S})-2-azanyl-3-[(2~{S},5~{R})-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-propanoic acid" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: BWB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [O-]C(=O)[C@@H]([NH3+])CO[C@H]1OC[C@H](C(C1O)O)O
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:BWV
name: n~5~-(n-butylcarbamimidoyl)-l-ornithine
synonym: "(2~{S})-2-azanyl-5-[(~{N}-butylcarbamimidoyl)amino]pentanoic acid" BROAD []
synonym: "N~5~-(N-butylcarbamimidoyl)-L-ornithine" BROAD []
synonym: "pdb-ccd: BWV" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: CCCCNC(=[NH2+])NCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N19-1
l_displaced_atoms: H19
l_displaced_atoms: H19+1
r_bond_atoms: C16
r_displaced_atoms: O18-1

[Term]
id: BpForms:protein:BXT
name: (2~{s})-2-azanyl-3-[ethyl(methyl)carbamoyl]oxy-propanoic acid
synonym: "(2~{S})-2-azanyl-3-[ethyl(methyl)carbamoyl]oxy-propanoic acid" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: BXT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [O-]C(=O)[C@@H]([NH3+])COC(=O)N(CC)C
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:BYR
name: 3-bromo-l-tyrosine
synonym: "(2S)-2-azanyl-3-(3-bromanyl-4-oxidanyl-phenyl)propanoic acid" BROAD []
synonym: "3-bromo-L-tyrosine" BROAD []
synonym: "pdb-ccd: BYR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@H](Cc1ccc(c(c1)Br)O)[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:BZK
name: (2s, 4s, 6s)-2-amino-6-hydroxy-4-methyl-8-oxodecanoic acid
synonym: "(2~{S},4~{S},6~{S})-2-azanyl-4-methyl-6-oxidanyl-8-oxidanylidene-decanoic acid" BROAD []
synonym: "pdb-ccd: BZK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CCC(=O)C[C@H](C[C@H](C[C@@H](C(=O)[O-])[NH3+])C)O
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:C12
name: 2-(1-amino-2-hydroxypropyl)-4-(4-hydroxybenzyl)-1-(2-oxoethyl)-1h-imidazol-5-olate
synonym: "2-[(1R,2R)-1-amino-2-hydroxy-propyl]-5-[(4-hydroxyphenyl)methyl]-3-(2-oxoethyl)imidazol-4-olate" BROAD []
synonym: "2-[(1R,2R)-1-amino-2-hydroxypropyl]-4-(4-hydroxybenzyl)-1-(2-oxoethyl)-1H-imidazol-5-olate" BROAD []
synonym: "TYG" BROAD []
synonym: "pdb-ccd: C12" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)Cn1c(O)c(nc1[C@H]([C@H](O)C)[NH3+])Cc1ccc(cc1)O
l_bond_atoms: N9
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:C1T
name: s-[(1s,6r)-3,6-dihydroxy-4-methyl-2,5-dioxocyclohex-3-en-1-yl]-l-cysteine
synonym: "(2R)-2-azanyl-3-[(1S,6R)-3,6-dihydroxy-4-methyl-2,5-dioxo-cyclohex-3-en-1-yl]sulfanyl-propanoic acid" BROAD []
synonym: "pdb-ccd: C1T" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@H](CS[C@H]1[C@H](O)C(=O)C(=C(C1=O)[O-])C)[NH3+]
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:C1X
name: (z)-n~6~-[(4r,5s)-5-(2-carboxyethyl)-4-(carboxymethyl)dihydro-2h-thiopyran-3(4h)-ylidene]-l-lysine
synonym: "(2S)-2-amino-6-[[(4R,5S)-5-(2-carboxyethyl)-4-(carboxymethyl)thian-3-ylidene]amino]hexanoic acid" BROAD []
synonym: "(E)-N~6~-[(4R,5S)-5-(2-carboxyethyl)-4-(carboxymethyl)dihydro-2H-thiopyran-3(4H)-ylidene]-L-lysine" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: C1X" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)C[C@@H]1[C@@H](CSC/C/1=N/CCCC[C@@H](C(=O)[O-])[NH3+])CCC(=O)[O-]
l_bond_atoms: N23-1
l_displaced_atoms: H23
l_displaced_atoms: H23+1
r_bond_atoms: C20
r_displaced_atoms: O22-1

[Term]
id: BpForms:protein:C22
name: 3-chloro-l-alanine
synonym: "(2R)-2-azanyl-3-chloranyl-propanoic acid" BROAD []
synonym: "3-chloro-L-alanine" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: C22" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@@H]([NH3+])CCl
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:C3Y
name: s-[(1s)-1-hydroxy-1-(hydroxyamino)ethyl]-l-cysteine
synonym: "(2R)-2-amino-3-[(1S)-1-hydroxy-1-(hydroxyamino)ethyl]sulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-[(1S)-1-hydroxy-1-(hydroxyamino)ethyl]-L-cysteine" BROAD []
synonym: "pdb-ccd: C3Y" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@@H]([NH3+])CS[C@@](NO)(O)C
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:C5C
name: s-cyclopentyl thiocysteine
synonym: "(2R)-2-amino-3-cyclopentyldisulfanyl-propanoic acid" BROAD []
synonym: "3-(cyclopentyldisulfanyl)-L-alanine" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: C5C" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [NH3+][C@H](C(=O)[O-])CSSC1CCCC1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:C66
name: 2-aminoethyllysine-carbonylmethylene-cytosine
synonym: "(2R)-6-amino-2-[2-aminoethyl-[2-(4-amino-2-oxo-pyrimidin-1-yl)ethanoyl]amino]hexanoic acid" BROAD []
synonym: "N~2~-(2-aminoethyl)-N~2~-[(4-amino-2-oxopyrimidin-1(2H)-yl)acetyl]-D-lysine" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: C66" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]CCN([C@@H](C(=O)[O-])CCCC[NH3+])C(=O)Cn1ccc(nc1=O)N
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:C6C
name: s-cyclohexyl thiocysteine
synonym: "(2R)-2-amino-3-cyclohexyldisulfanyl-propanoic acid" BROAD []
synonym: "3-(cyclohexyldisulfanyl)-L-alanine" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: C6C" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@H](CSSC1CCCCC1)[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:C99
name: {(2r)-2-[(1s,2r)-1-amino-2-hydroxypropyl]-2-hydroxy-4,5-dioxoimidazolidin-1-yl}acetic acid
synonym: "2-[(2R)-2-[(1S,2R)-1-amino-2-hydroxy-propyl]-2-hydroxy-4,5-dioxo-imidazolidin-1-yl]ethanoic acid" BROAD []
synonym: "TFG" BROAD []
synonym: "pdb-ccd: C99" EXACT []
synonym: "{(2R)-2-[(1S,2R)-1-amino-2-hydroxypropyl]-2-hydroxy-4,5-dioxoimidazolidin-1-yl}acetic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=O)C(=O)N[C@]1(O)[C@H]([C@H](O)C)[NH3+]
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CAB
name: 4,4-dihydroxy-5-oxo-l-norvaline
synonym: "(2S)-2-azanyl-4,4-dihydroxy-5-oxo-pentanoic acid" BROAD []
synonym: "4,4-dihydroxy-5-oxo-L-norvaline" BROAD []
synonym: "pdb-ccd: CAB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: O=CC(C[C@@H](C(=O)[O-])[NH3+])(O)O
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:CAF
name: s-dimethylarsinoyl-cysteine
synonym: "(2R)-2-amino-3-dimethylarsorylsulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-(dimethylarsoryl)-L-cysteine" BROAD []
synonym: "pdb-ccd: CAF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@H](CS[As](=O)(C)C)[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CAS
name: s-(dimethylarsenic)cysteine
synonym: "(2R)-2-amino-3-dimethylarsanylsulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-(dimethylarsanyl)-L-cysteine" BROAD []
synonym: "pdb-ccd: CAS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [NH3+][C@H](C(=O)[O-])CS[As](C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:CCS
name: carboxymethylated cysteine
synonym: "(2R)-2-amino-3-(carboxymethylsulfanyl)propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-(carboxymethyl)-L-cysteine" BROAD []
synonym: "pdb-ccd: CCS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)CSC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:CCY
name: 2-(1-amino-2-mercapto-ethyl)-5-(4-hydroxy-benzyl)-3-(ethanoyl)-3,5-dihydro-imidazol-4-one
synonym: "2-[2-[(1R)-1-amino-2-sulfanyl-ethyl]-4-[(4-hydroxyphenyl)methyl]-5-oxo-imidazolidin-1-yl]ethanoic acid" BROAD []
synonym: "CYG" BROAD []
synonym: "[(2S,4S)-2-[(1R)-1-amino-2-sulfanylethyl]-4-(4-hydroxybenzyl)-5-oxoimidazolidin-1-yl]acetic acid" BROAD []
synonym: "pdb-ccd: CCY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: SC[C@@H](C1NC(C(=O)N1CC(=O)[O-])Cc1ccc(cc1)O)[NH3+]
l_bond_atoms: N6
l_displaced_atoms: H6
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:CDE
name: 1,2-dimethyl-propylamine
synonym: "(2R)-3-methylbutan-2-amine" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: CDE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: C[C@H](C(C)C)[NH3+]
l_bond_atoms: N7-1
l_displaced_atoms: H7
l_displaced_atoms: H7+1

[Term]
id: BpForms:protein:CDV
name: 3-methyl-2-ureido-butyric acid
synonym: "(2R)-2-(aminocarbonylamino)-3-methyl-butanoic acid" BROAD []
synonym: "N-carbamoyl-D-valine" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: CDV" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: NC(=O)N[C@@H](C(=O)[O-])C(C)C
l_bond_atoms: N4
l_displaced_atoms: H4
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:CE7
name: (3s)-3-amino-4,4,4-trihydroxybutanamide
synonym: "(3S)-3-amino-4,4,4-trihydroxybutanamide" BROAD []
synonym: "(3~{S})-3-azanyl-4,4,4-tris(oxidanyl)butanamide" BROAD []
synonym: "pdb-ccd: CE7" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: [NH3+][C@H](C(O)(O)O)CC(=O)N
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1

[Term]
id: BpForms:protein:CFY
name: [(4z)-2-{(2r)-2-[(1s)-1-amino-2-phenylethyl]-2-hydroxy-2,5-dihydro-1,3-thiazol-4-yl}-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1h-imidazol-1-yl]acetic acid
synonym: "2-[(4Z)-2-[(2R)-2-[(1S)-1-azanyl-2-phenyl-ethyl]-2-oxidanyl-5H-1,3-thiazol-4-yl]-4-[(4-hydroxyphenyl)methylidene]-5-oxidanylidene-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "FCYG" BROAD []
synonym: "[(4Z)-2-{(2R)-2-[(1S)-1-amino-2-phenylethyl]-2-hydroxy-2,5-dihydro-1,3-thiazol-4-yl}-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1H-imidazol-1-yl]acetic acid" BROAD []
synonym: "pdb-ccd: CFY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=N/C(=C\c2ccc(cc2)O)/C1=O)C1=N[C@@](SC1)(O)[C@H](Cc1ccccc1)[NH3+]
l_bond_atoms: N7
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CG6
name: beta-methyl-cysteine
synonym: "(2~{R},3~{R})-2-azanyl-3-sulfanyl-butanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: CG6" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@@H]([NH3+])[C@H](S)C
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CGA
name: carboxymethylated glutamic acid
synonym: "2-amino-5-(carboxymethoxy)-5-oxopentanoic acid (non-preferred name)" BROAD []
synonym: "2-azanyl-5-(2-hydroxy-2-oxoethyloxy)-5-oxidanylidene-pentanoic acid" BROAD []
synonym: "E" BROAD []
synonym: "pdb-ccd: CGA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: O=C(CCC(C(=O)[O-])[NH3+])OCC(=O)[O-]
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:CGV
name: s-[(r)-carboxy(hydroxy)methyl]-l-cysteine
synonym: "(2R)-2-azanyl-3-[(1R)-1,2-bis(oxidanyl)-2-oxidanylidene-ethyl]sulfanyl-propanoic acid" BROAD []
synonym: "S-[(R)-carboxy(hydroxy)methyl]-L-cysteine" BROAD []
synonym: "pdb-ccd: CGV" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@@H](SC[C@@H](C(=O)[O-])[NH3+])O
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:CHG
name: cyclohexyl-glycine
synonym: "(2S)-2-amino-2-cyclohexyl-ethanoic acid" BROAD []
synonym: "(2S)-amino(cyclohexyl)ethanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: CHG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@H](C(=O)[O-])C1CCCCC1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:CHP
name: 3-chloro-4-hydroxyphenylglycine
synonym: "(2S)-2-amino-2-(3-chloro-4-hydroxy-phenyl)ethanoic acid" BROAD []
synonym: "(2S)-amino(3-chloro-4-hydroxyphenyl)ethanoic acid" BROAD []
synonym: "G" BROAD []
synonym: "pdb-ccd: CHP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](c1ccc(c(c1)Cl)O)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CJO
name: [(2r,4r)-2-[(1r,2r)-1-amino-2-hydroxypropyl]-4-(4-hydroxybenzyl)-5-oxoimidazolidin-1-yl]acetic acid
synonym: "2-[(4R)-2-[(1R,2R)-1-amino-2-hydroxy-propyl]-4-[(4-hydroxyphenyl)methyl]-5-oxo-imidazolidin-1-yl]ethanoic acid" BROAD []
synonym: "GYG" BROAD []
synonym: "[(2R,4R)-2-[(1R,2R)-1-amino-2-hydroxypropyl]-4-(4-hydroxybenzyl)-5-oxoimidazolidin-1-yl]acetic acid" BROAD []
synonym: "pdb-ccd: CJO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=O)[C@H](NC1[C@H]([C@H](O)C)[NH3+])Cc1ccc(cc1)O
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CLG
name: 2-amino-6-[2-(2-aminooxy-acetylamino)-acetylamino]-hexanoic acid
synonym: "(2S)-2-amino-6-[2-(2-aminooxyethanoylamino)ethanoylamino]hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "N~6~-{N-[(aminooxy)acetyl]glycyl}-L-lysine" BROAD []
synonym: "pdb-ccd: CLG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: NOCC(=O)NCC(=O)NCCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C17
r_displaced_atoms: O19-1

[Term]
id: BpForms:protein:CLH
name: 2-amino-6-[2-(2-oxo-acetylamino)-acetylamino]-hexanoic acid
synonym: "(2S)-2-amino-6-[2-(oxaldehydoylamino)ethanoylamino]hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "N~6~-[N-(oxoacetyl)glycyl]-L-lysine" BROAD []
synonym: "pdb-ccd: CLH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O=CC(=O)NCC(=O)NCCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N19-1
l_displaced_atoms: H19
l_displaced_atoms: H19+1
r_bond_atoms: C16
r_displaced_atoms: O18-1

[Term]
id: BpForms:protein:CLV
name: {(2s)-2-[(1s)-1-aminoethyl]-5-oxo-2,5-dihydro-1h-imidazol-1-yl}acetic acid
synonym: "2-[2-[(1S)-1-aminoethyl]-5-oxo-2H-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "AFG" BROAD []
synonym: "pdb-ccd: CLV" EXACT []
synonym: "{(2S)-2-[(1S)-1-aminoethyl]-5-oxo-2,5-dihydro-1H-imidazol-1-yl}acetic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C([C@@H]([NH3+])C)N=CC1=O
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CME
name: s,s-(2-hydroxyethyl)thiocysteine
synonym: "(2R)-2-amino-3-(2-hydroxyethyldisulfanyl)propanoic acid" BROAD []
synonym: "3-[(2-hydroxyethyl)disulfanyl]-L-alanine" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: CME" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@@H]([NH3+])CSSCCO
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CML
name: (2s)-2-{[(2r)-2-amino-2-carboxyethyl]sulfanyl}butanedioic acid
synonym: "(2S)-2-[(2R)-2-amino-3-hydroxy-3-oxo-propyl]sulfanylbutanedioic acid" BROAD []
synonym: "(2S)-2-{[(2R)-2-amino-2-carboxyethyl]sulfanyl}butanedioic acid" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: CML" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)C[C@@H](C(=O)[O-])SC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:CPC
name: 2-methyl-1-methylamino-cyclopropane carboxylic acid
synonym: "(1S,2S)-2-methyl-1-(methylamino)cyclopropanecarboxylic acid" BROAD []
synonym: "(1S,2S)-2-methyl-1-methylamino-cyclopropane-1-carboxylic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: CPC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: C[NH2+][C@]1(C[C@@H]1C)C(=O)[O-]
l_bond_atoms: N2-1
l_displaced_atoms: H2
l_displaced_atoms: H2+1
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:CQ2
name: {(4z)-4-(4-aminobenzylidene)-2-[(1r,2r)-1-amino-2-hydroxypropyl]-5-oxo-4,5-dihydro-1h-imidazol-1-yl}acetic acid
synonym: "2-[(4Z)-4-[(4-aminophenyl)methylidene]-2-[(1R,2R)-1-azanyl-2-oxidanyl-propyl]-5-oxidanylidene-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "pdb-ccd: CQ2" EXACT []
synonym: "{(4Z)-4-(4-aminobenzylidene)-2-[(1R,2R)-1-amino-2-hydroxypropyl]-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@H](C1=N/C(=C\c2ccc(cc2)N)/C(=O)N1CC(=O)[O-])[C@H](O)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C22
r_displaced_atoms: O24-1

[Term]
id: BpForms:protein:CR0
name: [2-(1-amino-2-hydroxypropyl)-2-hydroxy-4-isobutyl-5-oxo-2,5-dihydro-1h-imidazol-1-yl]acetaldehyde
synonym: "2-[(2R)-2-[(1S,2R)-1-amino-2-hydroxy-propyl]-2-hydroxy-4-(2-methylpropyl)-5-oxo-imidazol-1-yl]ethanal" BROAD []
synonym: "TLG" BROAD []
synonym: "[(2R)-2-[(1S,2R)-1-amino-2-hydroxypropyl]-2-hydroxy-4-(2-methylpropyl)-5-oxo-2,5-dihydro-1H-imidazol-1-yl]acetaldehyde" BROAD []
synonym: "pdb-ccd: CR0" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=O)C(=N[C@]1(O)[C@H]([C@H](O)C)[NH3+])CC(C)C
l_bond_atoms: N9
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CR2
name: {(4z)-2-(aminomethyl)-4-[(4-hydroxyphenyl)methylidene]-5-oxo-4,5-dihydro-1h-imidazol-1-yl}acetic acid
synonym: "2-[(4Z)-2-(aminomethyl)-4-[(4-hydroxyphenyl)methylidene]-5-oxo-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "GYG" BROAD []
synonym: "pdb-ccd: CR2" EXACT []
synonym: "{(4Z)-2-(aminomethyl)-4-[(4-hydroxyphenyl)methylidene]-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]CC1=N/C(=C\c2ccc(cc2)O)/C(=O)N1CC(=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C21
r_displaced_atoms: O23-1

[Term]
id: BpForms:protein:CR5
name: (2r)-2-(aminomethyl)-2,4-dihydroxy-5-oxo-3-(2-oxoethyl)-2,5-dihydro-1h-imidazol-3-ium
synonym: "(2R)-2-(aminomethyl)-3-(carboxymethyl)-2,4-dihydroxy-5-oxo-2,5-dihydro-1H-imidazol-3-ium" BROAD []
synonym: "2-[(2R)-2-(aminomethyl)-2,5-dihydroxy-4-oxo-3H-imidazol-1-ium-1-yl]ethanoic acid" BROAD []
synonym: "G" BROAD []
synonym: "pdb-ccd: CR5" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]C[C@@]1(O)NC(=O)C(=[N+]1CC(=O)[O-])[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:CR8
name: 2-[1-amino-2-(1h-imidazol-5-yl)ethyl]-1-(carboxymethyl)-4-[(4-oxocyclohexa-2,5-dien-1-ylidene)methyl]-1h-imidazol-5-olate
synonym: "2-[(1S)-1-amino-2-(1H-imidazol-5-yl)ethyl]-1-(carboxymethyl)-4-[(4-oxocyclohexa-2,5-dien-1-ylidene)methyl]-1H-imidazol-5-olate" BROAD []
synonym: "2-[(1S)-1-amino-2-(3H-imidazol-4-yl)ethyl]-3-(carboxymethyl)-5-[(4-oxo-1-cyclohexa-2,5-dienylidene)methyl]imidazol-4-olate" BROAD []
synonym: "HYG" BROAD []
synonym: "pdb-ccd: CR8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)Cn1c(O)c(nc1[C@H](Cc1cnc[nH]1)[NH3+])C=C1C=CC(=O)C=C1
l_bond_atoms: N9
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CRF
name: [(4z)-2-[(1r,2r)-1-amino-2-hydroxypropyl]-4-(1h-indol-3-ylmethylidene)-5-oxo-4,5-dihydro-1h-imidazol-1-yl]acetic acid
synonym: "2-[2-[(1R,2R)-1-azanyl-2-hydroxy-propyl]-4-(1H-indol-3-ylmethylidene)-5-oxo-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "TWG" BROAD []
synonym: "pdb-ccd: CRF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=O)C(=Cc2c[nH]c3c2cccc3)N=C1[C@H]([C@H](O)C)[NH3+]
l_bond_atoms: N12
l_displaced_atoms: H12
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CRG
name: [2-(1-amino-2-hydroxy-propyl)-4-(3h-imidazol-4-ylmethylene)-5-oxo-4,5-dihydro-imidazol-1-yl]-acetic acid
synonym: "2-[(4Z)-2-[(1R,2R)-1-amino-2-hydroxy-propyl]-4-(1H-imidazol-4-ylmethylidene)-5-oxo-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "THG" BROAD []
synonym: "[(4Z)-2-[(1R,2R)-1-amino-2-hydroxypropyl]-4-(1H-imidazol-4-ylmethylidene)-5-oxo-4,5-dihydro-1H-imidazol-1-yl]acetic acid" BROAD []
synonym: "pdb-ccd: CRG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=O)/C(=C/c2c[nH]cn2)/N=C1[C@H]([C@H](O)C)[NH3+]
l_bond_atoms: N12
l_displaced_atoms: H12
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CRO
name: {2-[(1r,2r)-1-amino-2-hydroxypropyl]-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1h-imidazol-1-yl}acetic acid
synonym: "2-[(4Z)-2-[(1R,2R)-1-azanyl-2-oxidanyl-propyl]-4-[(4-hydroxyphenyl)methylidene]-5-oxidanylidene-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "TYG" BROAD []
synonym: "[(4Z)-2-[(1R,2R)-1-amino-2-hydroxypropyl]-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1H-imidazol-1-yl]acetic acid" BROAD []
synonym: "pdb-ccd: CRO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=O)/C(=C/c2ccc(cc2)O)/N=C1[C@H]([C@H](O)C)[NH3+]
l_bond_atoms: N17
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CRX
name: [2-(1-aminoethyl)-2-hydroxy-4-methylene-5-oxoimidazolidin-1-yl]acetic acid
synonym: "2-[(2R)-2-[(1S)-1-aminoethyl]-2-hydroxy-4-methylidene-5-oxo-imidazolidin-1-yl]ethanoic acid" BROAD []
synonym: "ASG" BROAD []
synonym: "pdb-ccd: CRX" EXACT []
synonym: "{(2R)-2-[(1S)-1-aminoethyl]-2-hydroxy-4-methylidene-5-oxoimidazolidin-1-yl}acetic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=O)C(=C)N[C@]1(O)[C@@H]([NH3+])C
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CS1
name: s-(2-anilinyl-sulfanyl)-cysteine
synonym: "(2R)-2-amino-3-(2-aminophenyl)disulfanyl-propanoic acid" BROAD []
synonym: "3-[(2-aminophenyl)disulfanyl]-L-alanine" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: CS1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@H](CSSc1ccccc1N)[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CS3
name: s-[3-oxo-3-(2-thienyl)propyl]-l-cysteine
synonym: "(2R)-2-amino-3-(3-oxo-3-thiophen-2-yl-propyl)sulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-(3-oxo-3-thiophen-2-ylpropyl)-L-cysteine" BROAD []
synonym: "pdb-ccd: CS3" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@H](CSCCC(=O)c1cccs1)[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CS4
name: s-[3-(3,4-dichlorophenyl)-3-oxopropyl]-l-cysteine
synonym: "(2R)-2-amino-3-[3-(3,4-dichlorophenyl)-3-oxo-propyl]sulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-[3-(3,4-dichlorophenyl)-3-oxopropyl]-L-cysteine" BROAD []
synonym: "pdb-ccd: CS4" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@H](CSCCC(=O)c1ccc(c(c1)Cl)Cl)[NH3+]
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CSA
name: s-acetonylcysteine
synonym: "(2R)-2-amino-3-(2-oxopropylsulfanyl)propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-(2-oxopropyl)-L-cysteine" BROAD []
synonym: "pdb-ccd: CSA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: CC(=O)CSC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:CSH
name: [2-(2-hydroxy-1-methyl-ethyl)-4-(1h-imidazol-4-ylmethyl)-5-oxo-imidazolidin-1-yl]-acetic acid
synonym: "2-[2-[(1R)-1-amino-2-hydroxy-ethyl]-4-(1H-imidazol-4-ylmethyl)-5-oxo-imidazolidin-1-yl]ethanoic acid" BROAD []
synonym: "SHG" BROAD []
synonym: "[(2S,4S)-2-[(1R)-1-amino-2-hydroxyethyl]-4-(1H-imidazol-4-ylmethyl)-5-oxoimidazolidin-1-yl]acetic acid" BROAD []
synonym: "pdb-ccd: CSH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(NC(C1=O)Cc1c[nH]cn1)[C@@H]([NH3+])CO
l_bond_atoms: N7
l_displaced_atoms: H7
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CSJ
name: s-[(2-aminophenyl)carbonyl]-l-cysteine
synonym: "(2R)-2-amino-3-(2-aminophenyl)carbonylsulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-[(2-aminophenyl)carbonyl]-L-cysteine" BROAD []
synonym: "pdb-ccd: CSJ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@H](CSC(=O)c1ccccc1N)[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CSK
name: s-(methylselanyl)-l-cysteine
synonym: "(2R)-2-azanyl-3-methylselanylsulfanyl-propanoic acid" BROAD []
synonym: "S-(methylselanyl)-L-cysteine" BROAD []
synonym: "pdb-ccd: CSK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])CS[Se]C
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CSR
name: s-arsonocysteine
synonym: "(2R)-2-amino-3-arsonosulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-arsono-L-cysteine" BROAD []
synonym: "pdb-ccd: CSR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@H](CS[As](=O)([O-])[O-])[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CTE
name: 7-chlorotryptophan
synonym: "(2S)-2-azanyl-3-(7-chloro-1H-indol-3-yl)propanoic acid" BROAD []
synonym: "7-chloro-L-tryptophan" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: CTE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@@H]([NH3+])Cc1c[nH]c2c1cccc2Cl
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CTH
name: 4-chlorothreonine
synonym: "(2S,3S)-2-amino-4-chloro-3-hydroxy-butanoic acid" BROAD []
synonym: "4-chloro-L-threonine" BROAD []
synonym: "T" BROAD []
synonym: "pdb-ccd: CTH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: ClC[C@H]([C@@H](C(=O)[O-])[NH3+])O
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:CWD
name: 3-(5-chloro-2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)-l-alanine
synonym: "(2S)-2-azanyl-3-[5-chloranyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]propanoic acid" BROAD []
synonym: "3-(5-chloro-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-L-alanine" BROAD []
synonym: "pdb-ccd: CWD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@H](Cn1cc(Cl)c(=O)[nH]c1=O)[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CWR
name: (4-methyl-5-oxo-2,5-dihydro-1h-imidazol-1-yl)acetic acid
synonym: "(4-methyl-5-oxo-2,5-dihydro-1H-imidazol-1-yl)acetic acid" BROAD []
synonym: "2-(4-methyl-5-oxo-2H-imidazol-1-yl)ethanoic acid" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: CWR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [O-]C(=O)CN1CN=C(C1=O)C
l_bond_atoms: N7
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CY0
name: s-{3-[(4-anilinoquinazolin-6-yl)amino]-3-oxopropyl}-l-cysteine
synonym: "(2R)-2-amino-3-[3-oxo-3-[(4-phenylazanylquinazolin-6-yl)amino]propyl]sulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-(3-oxo-3-{[4-(phenylamino)quinazolin-6-yl]amino}propyl)-L-cysteine" BROAD []
synonym: "pdb-ccd: CY0" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C(Nc1ccc2c(c1)c(ncn2)Nc1ccccc1)CCSC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N30-1
l_displaced_atoms: H30
l_displaced_atoms: H30+1
r_bond_atoms: C27
r_displaced_atoms: O29-1

[Term]
id: BpForms:protein:CY1
name: acetamidomethylcysteine
synonym: "(2R)-3-(acetamidomethylsulfanyl)-2-amino-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-[(acetylamino)methyl]-L-cysteine" BROAD []
synonym: "pdb-ccd: CY1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: CC(=O)NCSC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:CY4
name: s-butyryl-cystein
synonym: "(2R)-2-amino-3-butanoylsulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-butanoyl-L-cysteine" BROAD []
synonym: "pdb-ccd: CY4" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@@H]([NH3+])CSC(=O)CCC
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CYD
name: 2-amino-6-(cystein-s-yl)-5-oxo-hexanoic acid
synonym: "(2S)-2-amino-6-[(2R)-2-amino-3-hydroxy-3-oxo-propyl]sulfanyl-5-oxo-hexanoic acid" BROAD []
synonym: "6-{[(2R)-2-amino-2-carboxyethyl]sulfanyl}-5-oxo-L-norleucine" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: CYD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C(CC[C@@H](C(=O)[O-])[NH3+])CSC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:CYF
name: 5-[2-(2-amino-2-carbamoyl-ethylsulfanyl)-acetylamino]-2-(3,6-dihydroxy-9,9a-dihydro-3h-xanthen-9-yl)-benzoic acid
synonym: "5-[({[(2R)-2,3-diamino-3-oxopropyl]sulfanyl}acetyl)amino]-2-(3,6-dihydroxy-9H-xanthen-9-yl)benzoic acid" BROAD []
synonym: "5-[2-[(2R)-2,3-diamino-3-oxo-propyl]sulfanylethanoylamino]-2-(3,6-dihydroxy-9H-xanthen-9-yl)benzoic acid" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: CYF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C(Nc1ccc(c(c1)C(=O)[O-])C1c2ccc(cc2Oc2c1ccc(c2)O)O)CSC[C@@H](C(=O)N)[NH3+]
l_bond_atoms: N3
l_displaced_atoms: H3
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:CYG
name: 2-amino-4-(amino-3-oxo-propylsulfanylcarbonyl)-butyric acid
synonym: "(2S)-2-amino-5-[(2R)-2-amino-3-hydroxy-3-oxo-propyl]sulfanyl-5-oxo-pentanoic acid" BROAD []
synonym: "(2S)-2-amino-5-{[(2R)-2-amino-2-carboxyethyl]sulfanyl}-5-oxopentanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: CYG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C(SC[C@@H](C(=O)[O-])[NH3+])CC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:CYJ
name: (z)-n~6~-[(4r,5s)-5-(2-carboxyethyl)-4-(carboxymethyl)piperidin-3-ylidene]-l-lysine
synonym: "(2S)-2-amino-6-[[(4R,5S)-5-(2-carboxyethyl)-4-(carboxymethyl)piperidin-3-ylidene]amino]hexanoic acid" BROAD []
synonym: "(E)-N~6~-[(4R,5S)-5-(2-carboxyethyl)-4-(carboxymethyl)piperidin-3-ylidene]-L-lysine" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: CYJ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)C[C@@H]1[C@@H](C[NH2+]C/C/1=N/CCCC[C@@H](C(=O)[O-])[NH3+])CCC(=O)[O-]
l_bond_atoms: N25-1
l_displaced_atoms: H25
l_displaced_atoms: H25+1
r_bond_atoms: C22
r_displaced_atoms: O24-1

[Term]
id: BpForms:protein:CYQ
name: 2-amino-3-phosphonomethylsulfanyl-propionic acid
synonym: "(2R)-2-amino-3-(phosphonomethylsulfanyl)propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-(phosphonomethyl)-L-cysteine" BROAD []
synonym: "pdb-ccd: CYQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@H](CSCP(=O)(O)[O-])[NH3+]
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CYR
name: n~5~-[{[(2r)-2-amino-2-carboxyethyl]sulfanyl}(iminio)methyl]-l-ornithinate
synonym: "C" BROAD []
synonym: "[[[(4S)-4-amino-5-hydroxy-5-oxo-pentyl]amino]-[(2R)-2-amino-3-hydroxy-3-oxo-propyl]sulfanyl-methylidene]azanium" BROAD []
synonym: "pdb-ccd: CYR" EXACT []
synonym: "{[(4S)-4-amino-4-carboxybutyl]amino}{[(2R)-2-amino-2-carboxyethyl]sulfanyl}methaniminium" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [NH2+]=C(SC[C@@H](C(=O)[O-])[NH3+])NCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:CYW
name: s-[(2r)-2-hydroxypropanoyl]-l-cysteine
synonym: "(2R)-2-azanyl-3-[(2R)-2-hydroxypropanoyl]sulfanyl-propanoic acid" BROAD []
synonym: "S-[(2R)-2-hydroxypropanoyl]-L-cysteine" BROAD []
synonym: "pdb-ccd: CYW" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@@H]([NH3+])CSC(=O)[C@H](O)C
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:CZ2
name: s-(dihydroxyarsino)cysteine
synonym: "(2R)-2-amino-3-dihydroxyarsanylsulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-(dihydroxyarsanyl)-L-cysteine" BROAD []
synonym: "pdb-ccd: CZ2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-][As](SC[C@@H](C(=O)[O-])[NH3+])O
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:CZO
name: [(2r,4s)-2-[(1s,2r)-1-amino-2-hydroxypropyl]-2-hydroxy-4-(4-hydroxybenzyl)-5-oxoimidazolidin-1-yl]acetic acid
synonym: "2-[(2R,4S)-2-[(1S,2R)-1-amino-2-hydroxy-propyl]-2-hydroxy-4-[(4-hydroxyphenyl)methyl]-5-oxo-imidazolidin-1-yl]ethanoic acid" BROAD []
synonym: "GYG" BROAD []
synonym: "[(2R,4S)-2-[(1S,2R)-1-amino-2-hydroxypropyl]-2-hydroxy-4-(4-hydroxybenzyl)-5-oxoimidazolidin-1-yl]acetic acid" BROAD []
synonym: "pdb-ccd: CZO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=O)[C@@H](N[C@]1(O)[C@H]([C@H](O)C)[NH3+])Cc1ccc(cc1)O
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:D0Q
name: 5-methyl-l-tryptophan
synonym: "(2~{S})-2-azanyl-3-(5-methyl-1~{H}-indol-3-yl)propanoic acid" BROAD []
synonym: "pdb-ccd: D0Q" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])Cc1c[nH]c2c1cc(C)cc2
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:D2T
name: (3r)-3-(methylsulfanyl)-l-aspartic acid
synonym: "(2R,3R)-2-azanyl-3-methylsulfanyl-butanedioic acid" BROAD []
synonym: "(3R)-3-(methylsulfanyl)-L-aspartic acid" BROAD []
synonym: "pdb-ccd: D2T" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:D ! L-aspartic acid
structure: CS[C@H]([C@@H](C(=O)[O-])[NH3+])C(=O)[O-]
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:D4P
name: (2s)-amino(4-hydroxyphenyl)acetic acid
synonym: "(2S)-2-amino-2-(4-hydroxyphenyl)ethanoic acid" BROAD []
synonym: "(2S)-amino(4-hydroxyphenyl)ethanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: D4P" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@@H](c1ccc(cc1)O)C(=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:DAB
name: 2,4-diaminobutyric acid
synonym: "(2S)-2,4-diaminobutanoic acid" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: DAB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@@H]([NH3+])CC[NH3+]
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:DBS
name: 2-(2,3-dihydroxy-benzoylamino)-3-hydroxy-propionic acid
synonym: "(2S)-2-[(2,3-dihydroxyphenyl)carbonylamino]-3-hydroxy-propanoic acid" BROAD []
synonym: "N-[(2,3-dihydroxyphenyl)carbonyl]-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: DBS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC[C@@H](C(=O)[O-])NC(=O)c1cccc(c1O)O
l_bond_atoms: N8
l_displaced_atoms: H8
r_bond_atoms: C5
r_displaced_atoms: O7-1

[Term]
id: BpForms:protein:DBY
name: 3,5 dibromotyrosine
synonym: "(2S)-2-amino-3-(3,5-dibromo-4-hydroxy-phenyl)propanoic acid" BROAD []
synonym: "3,5-dibromo-L-tyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: DBY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@H](Cc1cc(Br)c(c(c1)Br)[O-])[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:DBZ
name: 3-(benzoylamino)-l-alanine
synonym: "(2S)-2-amino-3-benzamido-propanoic acid" BROAD []
synonym: "3-[(phenylcarbonyl)amino]-L-alanine" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: DBZ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [NH3+][C@H](C(=O)[O-])CNC(=O)c1ccccc1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:DC2
name: n-acetyl-s-[(1s)-1,2-dichloroethyl]-l-cysteine
synonym: "(2R)-2-acetamido-3-[(1S)-1,2-dichloroethyl]sulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "N-acetyl-S-[(1S)-1,2-dichloroethyl]-L-cysteine" BROAD []
synonym: "pdb-ccd: DC2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@@H](NC(=O)C)CS[C@H](CCl)Cl
l_bond_atoms: N6
l_displaced_atoms: H6
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:DFI
name: 2,2-difluorostatine
synonym: "(3R,4S)-4-amino-2,2-difluoro-3-hydroxy-6-methyl-heptanoic acid" BROAD []
synonym: "(3R,4S)-4-amino-2,2-difluoro-3-hydroxy-6-methylheptanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: DFI" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CC(C[C@@H]([C@H](C(C(=O)[O-])(F)F)O)[NH3+])C
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:DFO
name: 2,2-difluoro-3-hydrostatine
synonym: "(4S)-4-amino-2,2-difluoro-3,3-dihydroxy-6-methyl-heptanoic acid" BROAD []
synonym: "(4S)-4-amino-2,2-difluoro-3,3-dihydroxy-6-methylheptanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: DFO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@H](C(C(C(=O)[O-])(F)F)(O)O)CC(C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:DHL
name: 2-amino-ethanethiol
synonym: "2-aminoethanethiol" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: DHL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: SCC[NH3+]
l_bond_atoms: N4-1
l_displaced_atoms: H4
l_displaced_atoms: H4+1

[Term]
id: BpForms:protein:DHP
name: 3-decyl-2,5-dioxo-4-hydroxy-3-pyrroline
synonym: "3-decyl-4-hydroxy-1H-pyrrole-2,5-dione" BROAD []
synonym: "3-decyl-4-hydroxy-pyrrole-2,5-dione" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: DHP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CCCCCCCCCCC1=C([O-])C(=O)NC1=O
l_bond_atoms: N16
l_displaced_atoms: H16

[Term]
id: BpForms:protein:DI7
name: 2,6-dimethyl-l-tyrosine
synonym: "(2S)-2-azanyl-3-(2,6-dimethyl-4-oxidanyl-phenyl)propanoic acid" BROAD []
synonym: "2,6-dimethyl-L-tyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: DI7" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [NH3+][C@H](C(=O)[O-])Cc1c(C)cc(cc1C)O
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:DI8
name: (3s)-1,2,3,4-tetrahydroisoquinoline-3-carboxylic acid
synonym: "(3S)-1,2,3,4-tetrahydroisoquinoline-3-carboxylic acid" BROAD []
synonym: "pdb-ccd: DI8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H]1[NH2+]Cc2c(C1)cccc2
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:DIR
name: 3-{[(e)-amino(hydroxyimino)methyl]amino}alanine
synonym: "(2S)-2-amino-3-[(N'-hydroxycarbamimidoyl)amino]propanoic acid" BROAD []
synonym: "3-(N''-hydroxycarbamimidamido)-L-alanine" BROAD []
synonym: "R" BROAD []
synonym: "pdb-ccd: DIR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: O/[NH+]=C(/NC[C@@H](C(=O)[O-])N)\N
l_bond_atoms: N12
l_displaced_atoms: H12
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:DLS
name: di-acetyl-lysine
synonym: "(2S)-2,6-diacetamidohexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "N~2~,N~6~-diacetyl-L-lysine" BROAD []
synonym: "pdb-ccd: DLS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: CC(=O)NCCCC[C@@H](C(=O)[O-])NC(=O)C
l_bond_atoms: N14
l_displaced_atoms: H14
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:DM0
name: n~2~,n~2~,n~6~,n~6~-tetramethyl-l-lysine
synonym: "(2S)-2,6-bis(dimethylamino)hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "N~2~,N~2~,N~6~,N~6~-tetramethyl-L-lysine" BROAD []
synonym: "pdb-ccd: DM0" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: C[NH+](CCCC[C@@H](C(=O)[O-])[NH+](C)C)C
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:DMK
name: 3,3-dimethyl aspartic acid
synonym: "(3S)-3-azanyl-2,2-dimethyl-butanedioic acid" BROAD []
synonym: "3,3-dimethyl-L-aspartic acid" BROAD []
synonym: "D" BROAD []
synonym: "pdb-ccd: DMK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:D ! L-aspartic acid
structure: [O-]C(=O)[C@H](C(C(=O)[O-])(C)C)[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:DMT
name: 3-hydroxy-4,4-dimethyl-2-(methylamino)-6-octenoic acid
synonym: "(E,2S,3R)-3-hydroxy-4,4-dimethyl-2-methylamino-oct-6-enoic acid" BROAD []
synonym: "4-[(2E)-but-2-en-1-yl]-2,4,5-trideoxy-4-methyl-2-(methylamino)-D-arabinonic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: DMT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: C/C=C/CC([C@H]([C@@H](C(=O)[O-])[NH2+]C)O)(C)C
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:DNL
name: 6-amino-hexanal
synonym: "6-aminohexanal" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: DNL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+]CCCCCC(=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:DNP
name: 3-amino-alanine
synonym: "3-ammonio-L-alanine" BROAD []
synonym: "A" BROAD []
synonym: "[(2S)-2-amino-3-hydroxy-3-oxo-propyl]azanium" BROAD []
synonym: "pdb-ccd: DNP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@H](C[NH3+])N
l_bond_atoms: N11
l_displaced_atoms: H11
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:DNS
name: n~6~-{[5-(dimethylamino)-1-naphthyl]sulfonyl}-l-lysine
synonym: "(2S)-2-amino-6-[(5-dimethylaminonaphthalen-1-yl)sulfonylamino]hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "N~6~-{[5-(dimethylamino)naphthalen-1-yl]sulfonyl}-L-lysine" BROAD []
synonym: "pdb-ccd: DNS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)[C@H](CCCCNS(=O)(=O)c1cccc2c1cccc2N(C)C)[NH3+]
l_bond_atoms: N27-1
l_displaced_atoms: H27
l_displaced_atoms: H27+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:DNW
name: 3-[(2,4-dinitrophenyl)amino]-l-alanine
synonym: "(2S)-2-azanyl-3-[(2,4-dinitrophenyl)amino]propanoic acid" BROAD []
synonym: "3-[(2,4-dinitrophenyl)amino]-L-alanine" BROAD []
synonym: "pdb-ccd: DNW" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@H](CNc1ccc(cc1[N+](=O)[O-])[N+](=O)[O-])[NH3+]
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:DO2
name: 5,5-dihydroxy-6-oxo-l-norleucine
synonym: "(2S)-2-azanyl-5,5-dihydroxy-6-oxo-hexanoic acid" BROAD []
synonym: "5,5-dihydroxy-6-oxo-L-norleucine" BROAD []
synonym: "pdb-ccd: DO2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: O=CC(CC[C@@H](C(=O)[O-])[NH3+])(O)O
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:DOA
name: 12-amino-dodecanoic acid
synonym: "12-aminododecanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: DOA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]CCCCCCCCCCCC(=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C16
r_displaced_atoms: O18-1

[Term]
id: BpForms:protein:DON
name: 6-diazenyl-5-oxo-l-norleucine
synonym: "(2S)-2-amino-6-diazenyl-5-oxo-hexanoic acid" BROAD []
synonym: "6-diazenyl-5-oxo-L-norleucine" BROAD []
synonym: "L" BROAD []
synonym: "pdb-ccd: DON" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: [O-]C(=O)[C@@H]([NH3+])CCC(=O)CN=N
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:DPL
name: 4-oxoproline
synonym: "(2S)-4-oxopyrrolidine-2-carboxylic acid" BROAD []
synonym: "4-oxo-L-proline" BROAD []
synonym: "P" BROAD []
synonym: "pdb-ccd: DPL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: O=C1C[NH2+][C@@H](C1)C(=O)[O-]
l_bond_atoms: N4-1
l_displaced_atoms: H4
l_displaced_atoms: H4+1
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:DPP
name: diaminopropanoic acid
synonym: "(2S)-2,3-bis(azanyl)propanoic acid" BROAD []
synonym: "3-amino-L-alanine" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: DPP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@H](C[NH3+])N
l_bond_atoms: N11
l_displaced_atoms: H11
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:DPQ
name: (s)-2-amino-3-(4-hydroxy-3-oxocyclohexa-1,4-dienyl)propanoic acid
synonym: "(2S)-2-amino-3-(4-hydroxy-3-oxo-1-cyclohexa-1,4-dienyl)propanoic acid" BROAD []
synonym: "3-(4-hydroxy-3-oxocyclohexa-1,4-dien-1-yl)-L-alanine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: DPQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@@H]([NH3+])CC1=CC(=O)C(=C[CH-]1)O
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:DV7
name: l-(7-hydroxycoumarin-4-yl)ethylglycine
synonym: "(2S)-2-amino-4-(7-hydroxy-2-oxo-2H-1-benzopyran-4-yl)butanoic acid" BROAD []
synonym: "(2~{S})-2-azanyl-4-(7-oxidanyl-2-oxidanylidene-chromen-4-yl)butanoic acid" BROAD []
synonym: "pdb-ccd: DV7" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](CCc1cc(=O)oc2c1ccc(c2)O)[NH3+]
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:DYA
name: didehydroaspartate
synonym: "(Z)-2-azanylbut-2-enedioic acid" BROAD []
synonym: "D" BROAD []
synonym: "pdb-ccd: DYA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:D ! L-aspartic acid
structure: [O-]C(=O)/C=C(/C(=O)[O-])\[NH3+]
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:DYG
name: (3s)-3-amino-3-[(4z)-1-(carboxymethyl)-4-[(4-hydroxyphenyl)methylidene]-5-oxo-imidazol-2-yl]propanoic acid
synonym: "(3S)-3-amino-3-[(4Z)-1-(carboxymethyl)-4-[(4-hydroxyphenyl)methylidene]-5-oxo-imidazol-2-yl]propanoic acid" BROAD []
synonym: "(3S)-3-amino-3-{(4Z)-1-(carboxymethyl)-4-[(4-hydroxyphenyl)methylidene]-5-oxo-4,5-dihydro-1H-imidazol-2-yl}propanoic acid" BROAD []
synonym: "DYG" BROAD []
synonym: "pdb-ccd: DYG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@H](C1=N/C(=C\c2ccc(cc2)O)/C(=O)N1CC(=O)[O-])CC(=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C22
r_displaced_atoms: O24-1

[Term]
id: BpForms:protein:DYJ
name: 1-[(2e)-4-carboxy-4-oxobut-2-en-2-yl]-l-proline
synonym: "(2S)-1-[(E)-5-oxidanyl-4,5-bis(oxidanylidene)pent-2-en-2-yl]pyrrolidine-2-carboxylic acid" BROAD []
synonym: "1-[(2E)-4-carboxy-4-oxobut-2-en-2-yl]-L-proline" BROAD []
synonym: "P" BROAD []
synonym: "pdb-ccd: DYJ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: C/C(=C\C(=O)C(=O)[O-])/N1CCC[C@H]1C(=O)[O-]
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:DYS
name: s-[5-(2-aminoethyl)-2,3-dihydroxyphenyl]-l-cysteine
synonym: "(2R)-2-amino-3-[5-(2-aminoethyl)-2,3-dihydroxy-phenyl]sulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-[5-(2-aminoethyl)-2,3-dihydroxyphenyl]-L-cysteine" BROAD []
synonym: "pdb-ccd: DYS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [NH3+]CCc1cc(SC[C@@H](C(=O)[O-])[NH3+])c(c(c1)O)O
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:E0Y
name: (3s,5r)-5-[(2r,3r)-1,3-dihydroxybutan-2-yl]-3-({(3r)-1-[(1e)-ethanimidoyl]pyrrolidin-3-yl}sulfanyl)-l-proline
synonym: "(3S,5R)-5-[(2R,3R)-1,3-dihydroxybutan-2-yl]-3-({(3R)-1-[(1E)-ethanimidoyl]pyrrolidin-3-yl}sulfanyl)-L-proline" BROAD []
synonym: "(5~{R})-5-[(2~{R},3~{R})-1,3-bis(oxidanyl)butan-2-yl]-3-[(3~{R})-1-ethanimidoylpyrrolidin-3-yl]sulfanyl-pyrrolidine-2-carboxylic acid" BROAD []
synonym: "pdb-ccd: E0Y" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: OC[C@@H]([C@H]1CC(C([NH2+]1)C(=O)[O-])S[C@@H]1CCN(C1)C(=[NH2+])C)[C@H](O)C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:E95
name: 7-methyl-l-tryptophan
synonym: "(2~{S})-2-azanyl-3-(7-methyl-1~{H}-indol-3-yl)propanoic acid" BROAD []
synonym: "pdb-ccd: E95" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])Cc1c[nH]c2c1cccc2C
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:E9M
name: n-methyl-l-tryptophan
synonym: "(2S)-3-(1H-indol-3-yl)-2-(methylamino)propanoic acid" BROAD []
synonym: "N-methyl-L-tryptophan" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: E9M" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: C[NH2+][C@H](C(=O)[O-])Cc1c[nH]c2c1cccc2
l_bond_atoms: N2-1
l_displaced_atoms: H2
l_displaced_atoms: H2+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:E9V
name: n-methyl-l-histidine
synonym: "(2~{S})-3-(1~{H}-imidazol-5-yl)-2-(methylamino)propanoic acid" BROAD []
synonym: "N-methyl-L-histidine" BROAD []
synonym: "pdb-ccd: E9V" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: [O-]C(=O)[C@@H]([NH2+]C)Cc1cnc[nH]1
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:ECC
name: (4s)-4-amino-5-hydroxypentanamide
synonym: "(4S)-4-amino-5-hydroxypentanamide" BROAD []
synonym: "(4S)-4-azanyl-5-oxidanyl-pentanamide" BROAD []
synonym: "Q" BROAD []
synonym: "pdb-ccd: ECC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Q ! L-glutamine
structure: NC(=O)CC[C@H]([NH3+])CO
l_bond_atoms: N1
l_displaced_atoms: H1

[Term]
id: BpForms:protein:ECX
name: s-ethyl-l-cysteine
synonym: "(2R)-2-azanyl-3-ethylsulfanyl-propanoic acid" BROAD []
synonym: "S-ethyl-L-cysteine" BROAD []
synonym: "pdb-ccd: ECX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@@H]([NH3+])CSCC
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:EFC
name: s,s-(2-fluoroethyl)thiocysteine
synonym: "(2R)-2-amino-3-(2-fluoroethyldisulfanyl)propanoic acid" BROAD []
synonym: "3-[(2-fluoroethyl)disulfanyl]-L-alanine" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: EFC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@@H]([NH3+])CSSCCF
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:EJA
name: s-[(1z)-2-carboxy-n-hydroxyethanimidoyl]-l-cysteine
synonym: "(2~{R})-2-azanyl-3-[(~{Z})-~{C}-(2-hydroxy-2-oxoethyl)-~{N}-oxidanyl-carbonimidoyl]sulfanyl-propanoic acid" BROAD []
synonym: "S-[(1Z)-2-carboxy-N-hydroxyethanimidoyl]-L-cysteine" BROAD []
synonym: "pdb-ccd: EJA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O/N=C(/CC(=O)[O-])\SC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:ELY
name: n~6~,n~6~-diethyl-l-lysine
synonym: "(2S)-2-azanyl-6-(diethylamino)hexanoic acid" BROAD []
synonym: "N~6~,N~6~-diethyl-L-lysine" BROAD []
synonym: "pdb-ccd: ELY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: CC[NH+](CCCC[C@@H](C(=O)[O-])[NH3+])CC
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:EME
name: n-methyl-l-glutamic acid
synonym: "(2S)-2-(methylamino)pentanedioic acid" BROAD []
synonym: "N-methyl-L-glutamic acid" BROAD []
synonym: "pdb-ccd: EME" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: C[NH2+][C@H](C(=O)[O-])CCC(=O)[O-]
l_bond_atoms: N2-1
l_displaced_atoms: H2
l_displaced_atoms: H2+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:EO2
name: 4,5-dehydro-l-leucine
synonym: "(2~{S})-2-azanyl-4-methyl-pent-4-enoic acid" BROAD []
synonym: "pdb-ccd: EO2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CC(=C)C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:ESB
name: 3-[(3e)-3-(ethylimino)-4-hydroxy-6-oxocyclohexa-1,4-dien-1-yl]-l-alanine
synonym: "(2S)-2-amino-3-[(3E)-3-ethylimino-4-hydroxy-6-oxo-1-cyclohexa-1,4-dienyl]propanoic acid" BROAD []
synonym: "3-[(3E)-3-(ethylimino)-4-hydroxy-6-oxocyclohexa-1,4-dien-1-yl]-L-alanine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: ESB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: CC/[NH+]=C/1\C=C(C[C@@H](C(=O)[O-])[NH3+])C(=O)C=C1[O-]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:ESC
name: 2-amino-4-ethyl sulfanyl butyric acid
synonym: "(2S)-2-amino-4-ethylsulfanyl-butanoic acid" BROAD []
synonym: "M" BROAD []
synonym: "S-ethyl-L-homocysteine" BROAD []
synonym: "pdb-ccd: ESC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: CCSCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:ETA
name: ethanolamine
synonym: "2-aminoethanol" BROAD []
synonym: "2-azanylethanol" BROAD []
synonym: "pdb-ccd: ETA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: OCC[NH3+]
l_bond_atoms: N4-1
l_displaced_atoms: H4
l_displaced_atoms: H4+1

[Term]
id: BpForms:protein:EUP
name: 4-amino-l-allothreonine
synonym: "(2~{S},3~{S})-2,4-bis(azanyl)-3-oxidanyl-butanoic acid" BROAD []
synonym: "4-amino-L-allothreonine" BROAD []
synonym: "pdb-ccd: EUP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: [NH3+]C[C@@H]([C@@H](C(=O)[O-])[NH3+])O
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:EXY
name: 6-[(2r)-oxiran-2-yl]-l-norleucine
synonym: "(2S)-2-amino-6-[(2R)-oxiran-2-yl]hexanoic acid" BROAD []
synonym: "6-[(2R)-oxiran-2-yl]-L-norleucine" BROAD []
synonym: "L" BROAD []
synonym: "pdb-ccd: EXY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: [O-]C(=O)[C@H](CCCC[C@@H]1CO1)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:EYG
name: {(2r,4z)-2-[(1r)-1-amino-3-(methylsulfanyl)propyl]-2-hydroxy-4-[(4-hydroxyphenyl)methylidene]-5-oxoimidazolidin-1-yl}acetic acid
synonym: "2-[(2R,4Z)-2-(1-azanyl-3-methylsulfanyl-propyl)-2-hydroxy-4-[(4-hydroxyphenyl)methylidene]-5-oxo-imidazolidin-1-yl]ethanoic acid" BROAD []
synonym: "[(2R,4Z)-2-[(1R)-1-amino-3-(methylsulfanyl)propyl]-2-hydroxy-4-(4-hydroxybenzylidene)-5-oxoimidazolidin-1-yl]acetic acid" BROAD []
synonym: "pdb-ccd: EYG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CSCCC([C@@]1(O)N/C(=C\c2ccc(cc2)O)/C(=O)N1CC(=O)[O-])[NH3+]
l_bond_atoms: N8
l_displaced_atoms: H8
r_bond_atoms: C22
r_displaced_atoms: O24-1

[Term]
id: BpForms:protein:F2F
name: 3,4-difluoro-l-phenylalanine
synonym: "(2S)-2-amino-3-(3,4-difluorophenyl)propanoic acid" BROAD []
synonym: "3,4-difluoro-L-phenylalanine" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: F2F" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [O-]C(=O)[C@H](Cc1ccc(c(c1)F)F)[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:F2Y
name: 3,5-difluoro-l-tyrosine
synonym: "(2S)-2-azanyl-3-[3,5-bis(fluoranyl)-4-oxidanyl-phenyl]propanoic acid" BROAD []
synonym: "3,5-difluoro-L-tyrosine" BROAD []
synonym: "pdb-ccd: F2Y" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [NH3+][C@H](C(=O)[O-])Cc1cc(F)c(c(c1)F)O
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:F3M
name: methyl 4-amino-2,4,5-trideoxy-5,5,5-trifluoro-l-threo-pentonate
synonym: "methyl (3S,4R)-4-azanyl-5,5,5-trifluoro-3-hydroxy-pentanoate" BROAD []
synonym: "methyl 4-amino-2,4,5-trideoxy-5,5,5-trifluoro-L-threo-pentonate" BROAD []
synonym: "pdb-ccd: F3M" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: COC(=O)C[C@@H]([C@H](C(F)(F)F)N)O
l_bond_atoms: N14
l_displaced_atoms: H14

[Term]
id: BpForms:protein:F3T
name: 4-amino-2,4,5-trideoxy-5,5,5-trifluoro-l-threo-pentonic acid
synonym: "(3S,4R)-4-azanyl-5,5,5-trifluoro-3-hydroxy-pentanoic acid" BROAD []
synonym: "4-amino-2,4,5-trideoxy-5,5,5-trifluoro-L-threo-pentonic acid" BROAD []
synonym: "pdb-ccd: F3T" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: O[C@H]([C@H](C(F)(F)F)N)CC(=O)[O-]
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:F7W
name: 7-fluorotryptophan
synonym: "(2~{S})-2-azanyl-3-(7-fluoranyl-1~{H}-indol-3-yl)propanoic acid" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: F7W" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@@H]([NH3+])Cc1c[nH]c2c1cccc2F
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:FAK
name: n~6~-(trifluoroacetyl)-l-lysine
synonym: "(2S)-2-azanyl-6-[2,2,2-tris(fluoranyl)ethanoylamino]hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "N~6~-(trifluoroacetyl)-L-lysine" BROAD []
synonym: "pdb-ccd: FAK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)[C@H](CCCCNC(=O)C(F)(F)F)[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:FB5
name: 2-(difluoromethyl)-6-(dihydroxyboranyl)-l-norleucine
synonym: "(2S)-2-azanyl-2-[bis(fluoranyl)methyl]-6-(dihydroxyboranyl)hexanoic acid" BROAD []
synonym: "2-(difluoromethyl)-6-(dihydroxyboranyl)-L-norleucine" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: FB5" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: OB(CCCC[C@](C(=O)[O-])(C(F)F)[NH3+])O
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:FB6
name: 6-(dihydroxyboranyl)-2-methyl-l-norleucine
synonym: "2-azanyl-6-(dihydroxyboranyl)-2-methyl-hexanoic acid" BROAD []
synonym: "6-(dihydroxyboranyl)-2-methyl-L-norleucine" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: FB6" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: OB(CCCCC(C(=O)[O-])([NH3+])C)O
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:FC0
name: n-carboxy-l-phenylalanine
synonym: "(2S)-2-(carboxyamino)-3-phenyl-propanoic acid" BROAD []
synonym: "F" BROAD []
synonym: "N-carboxy-L-phenylalanine" BROAD []
synonym: "pdb-ccd: FC0" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [O-]C(=O)[C@H](Cc1ccccc1)NC(=O)[O-]
l_bond_atoms: N13
l_displaced_atoms: H13
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:FCL
name: 3-chloro-l-phenylalanine
synonym: "(2S)-2-amino-3-(3-chlorophenyl)propanoic acid" BROAD []
synonym: "3-chloro-L-phenylalanine" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: FCL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [O-]C(=O)[C@H](Cc1cccc(c1)Cl)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:FDL
name: n~6~-acetyl-n-(4-methyl-2-oxo-2h-chromen-7-yl)-l-lysinamide
synonym: "(2S)-6-acetamido-2-azanyl-N-(4-methyl-2-oxidanylidene-chromen-7-yl)hexanamide" BROAD []
synonym: "N~6~-acetyl-N-(4-methyl-2-oxo-2H-chromen-7-yl)-L-lysinamide" BROAD []
synonym: "pdb-ccd: FDL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: CC(=O)NCCCC[C@@H](C(=O)Nc1ccc2c(c1)oc(=O)cc2C)[NH3+]
l_bond_atoms: N4
l_displaced_atoms: H4

[Term]
id: BpForms:protein:FFM
name: s-[(1r,2r)-2-hydroxy-1-methyl-2-phosphonoethyl]-l-cysteine
synonym: "(2R)-2-azanyl-3-[(1R,2R)-1-hydroxy-1-phosphono-propan-2-yl]sulfanyl-propanoic acid" BROAD []
synonym: "pdb-ccd: FFM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@H](CS[C@@H]([C@@H](P(=O)(O)[O-])O)C)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:FGP
name: 2-amino-3-hydroxy-3-phosphonooxy-propionic acid
synonym: "(2S,3S)-2-azanyl-3-oxidanyl-3-phosphonooxy-propanoic acid" BROAD []
synonym: "(3S)-3-(phosphonooxy)-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: FGP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [O-]C(=O)[C@H]([C@H](OP(=O)([O-])[O-])O)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:FHL
name: (e)-n~6~-[3-carboxy-1-(hydroxymethyl)propylidene]-l-lysine
synonym: "(2S)-2-amino-6-[(1,5-dihydroxy-5-oxo-pentan-2-ylidene)amino]hexanoic acid" BROAD []
synonym: "(E)-N~6~-[3-carboxy-1-(hydroxymethyl)propylidene]-L-lysine" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: FHL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: OC/C(=N/CCCC[C@@H](C(=O)[O-])[NH3+])/CCC(=O)[O-]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:FIO
name: n~5~-[(1e)-2-fluoroethanimidoyl]-l-ornithine
synonym: "(2S)-2-azanyl-5-(2-fluoranylethanimidoylamino)pentanoic acid" BROAD []
synonym: "N~5~-[(1E)-2-fluoroethanimidoyl]-L-ornithine" BROAD []
synonym: "pdb-ccd: FIO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: FCC(=[NH2+])NCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:FLA
name: trifluoroalanine
synonym: "(2S)-2-amino-3,3,3-trifluoro-propanoic acid" BROAD []
synonym: "3,3,3-trifluoro-D-alanine" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: FLA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: N[C@H](C(F)(F)F)C(=O)[O-]
l_bond_atoms: N1
l_displaced_atoms: H1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:FLE
name: furoyl-leucine
synonym: "(2S)-2-(furan-2-ylcarbonylamino)-4-methyl-pentanoic acid" BROAD []
synonym: "L" BROAD []
synonym: "N-(furan-2-ylcarbonyl)-L-leucine" BROAD []
synonym: "pdb-ccd: FLE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: CC(C[C@@H](C(=O)[O-])NC(=O)c1ccco1)C
l_bond_atoms: N9
l_displaced_atoms: H9
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:FLT
name: fluoromalonyl tyrosine
synonym: "2-[4-[(2S)-2-amino-3-hydroxy-3-oxo-propyl]phenoxy]-2-fluoro-propanedioic acid" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: FLT" EXACT []
synonym: "{4-[(2S)-2-amino-2-carboxyethyl]phenoxy}(fluoro)propanedioic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [NH3+][C@H](C(=O)[O-])Cc1ccc(cc1)OC(C(=O)[O-])(C(=O)[O-])F
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:FOE
name: 2-(2-amino-3-oxo-propylsulfanyl)-n-(4-fluoro-phenyl)-n-isopropyl-acetamide
synonym: "(2R)-2-amino-3-[2-[(4-fluorophenyl)-propan-2-yl-amino]-2-oxo-ethyl]sulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-{2-[(4-fluorophenyl)(1-methylethyl)amino]-2-oxoethyl}-L-cysteine" BROAD []
synonym: "pdb-ccd: FOE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: CC(N(c1ccc(cc1)F)C(=O)CSC[C@@H](C(=O)[O-])[NH3+])C
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C18
r_displaced_atoms: O20-1

[Term]
id: BpForms:protein:FP9
name: (4r)-4-fluoro-l-proline
synonym: "(2S,4R)-4-fluoranylpyrrolidine-2-carboxylic acid" BROAD []
synonym: "(4R)-4-fluoro-L-proline" BROAD []
synonym: "P" BROAD []
synonym: "pdb-ccd: FP9" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [O-]C(=O)[C@@H]1C[C@H](C[NH2+]1)F
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:FPK
name: 1-formyl-l-proline
synonym: "(2S)-1-methanoylpyrrolidine-2-carboxylic acid" BROAD []
synonym: "1-formyl-L-proline" BROAD []
synonym: "P" BROAD []
synonym: "pdb-ccd: FPK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: O=CN1CCC[C@H]1C(=O)[O-]
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:FPR
name: (3s)-3-amino-4-oxo-7-phenylheptanoic acid
synonym: "(3S)-3-amino-4-oxo-7-phenylheptanoic acid" BROAD []
synonym: "(3S)-3-azanyl-4-oxo-7-phenyl-heptanoic acid" BROAD []
synonym: "pdb-ccd: FPR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)C[C@@H](C(=O)CCCc1ccccc1)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:FRD
name: 1-phenyl-2-aminopropane
synonym: "(2R)-1-phenylpropan-2-amine" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: FRD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: C[C@H](Cc1ccccc1)[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1

[Term]
id: BpForms:protein:FT6
name: 6-fluoro-l-tryptophan
synonym: "(2S)-2-amino-3-(6-fluoro-1H-indol-3-yl)propanoic acid" BROAD []
synonym: "6-fluoro-L-tryptophan" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: FT6" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@H](Cc1c[nH]c2c1ccc(c2)F)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:FTR
name: fluorotryptophane
synonym: "(2S)-2-amino-3-(5-fluoro-1H-indol-3-yl)propanoic acid" BROAD []
synonym: "5-fluoro-L-tryptophan" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: FTR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@@H]([NH3+])Cc1c[nH]c2c1cc(F)cc2
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:FTY
name: deoxy-difluoromethelene-phosphotyrosine
synonym: "(2S)-2-amino-3-[4-(difluoro-phosphono-methyl)phenyl]propanoic acid" BROAD []
synonym: "4-[difluoro(phosphono)methyl]-L-phenylalanine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: FTY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@H](Cc1ccc(cc1)C(P(=O)([O-])[O-])(F)F)[NH3+]
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:FVA
name: n-formyl-l-valine
synonym: "(2S)-2-formamido-3-methyl-butanoic acid" BROAD []
synonym: "N-formyl-L-valine" BROAD []
synonym: "V" BROAD []
synonym: "pdb-ccd: FVA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:V ! L-valine
structure: O=CN[C@H](C(=O)[O-])C(C)C
l_bond_atoms: N3
l_displaced_atoms: H3
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:FY2
name: 2,3-difluoro-l-tyrosine
synonym: "(2S)-2-azanyl-3-[2,3-bis(fluoranyl)-4-oxidanyl-phenyl]propanoic acid" BROAD []
synonym: "2,3-difluoro-L-tyrosine" BROAD []
synonym: "pdb-ccd: FY2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@@H]([NH3+])Cc1ccc(c(c1F)F)O
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:FY3
name: 2,3,5-trifluoro-l-tyrosine
synonym: "(2S)-2-azanyl-3-[2,3,5-tris(fluoranyl)-4-oxidanyl-phenyl]propanoic acid" BROAD []
synonym: "2,3,5-trifluoro-L-tyrosine" BROAD []
synonym: "pdb-ccd: FY3" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [NH3+][C@H](C(=O)[O-])Cc1cc(F)c(c(c1F)F)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:FZN
name: (2s)-2-amino-6-{[(1z)-1-{[(2r,3r,4s,5r)-5-({[(r)-{[(r)-{[(2r,3s,4r,5r)-5-(6-amino-9h-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methoxy}(hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]oxy}methyl)-3,4-dihydroxytetrahydrofuran-2-yl]sulfanyl}ethylidene]amino}hexanoic acid
synonym: "(2S)-2-amino-6-[1-[(2R,3R,4S,5R)-5-[[[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl]oxy-hydroxy-phosphoryl]oxymethyl]-3,4-dihydroxy-oxolan-2-yl]sulfanylethylideneamino]hexanoic acid" BROAD []
synonym: "(2S)-2-amino-6-{[(1Z)-1-{[(2R,3R,4S,5R)-5-({[(R)-{[(R)-{[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methoxy}(hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]oxy}methyl)-3,4-dihydroxytetrahydrofuran-2-yl]sulfanyl}ethylidene]amino}hexanoic acid (non-preferred name)" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: FZN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)[C@H](CCCC/N=C(\S[C@H]1O[C@@H]([C@H]([C@H]1O)O)CO[P@](=O)(O[P@@](=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1ncnc2N)[O-])[O-])/C)[NH3+]
l_bond_atoms: N57-1
l_displaced_atoms: H57
l_displaced_atoms: H57+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:G3M
name: (3s)-n~6~-carbamimidoyl-3-hydroxy-l-lysine
synonym: "(2~{S},3~{S})-2-azanyl-6-carbamimidamido-3-oxidanyl-hexanoic acid" BROAD []
synonym: "(3S)-N~6~-carbamimidoyl-3-hydroxy-L-lysine" BROAD []
synonym: "pdb-ccd: G3M" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: O[C@H]([C@@H](C(=O)[O-])[NH3+])CCCNC(=[NH2+])N
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:G8M
name: (1s,2r)-2-[(s)-amino(carboxy)methyl]cyclobutanecarboxylic acid
synonym: "(1S,2R)-2-[(1S)-1-azanyl-2-oxidanyl-2-oxidanylidene-ethyl]cyclobutane-1-carboxylic acid" BROAD []
synonym: "(1S,2R)-2-[(S)-amino(carboxy)methyl]cyclobutanecarboxylic acid" BROAD []
synonym: "pdb-ccd: G8M" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: [NH3+][C@@H]([C@@H]1CC[C@@H]1C(=O)[O-])C(=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C16
r_displaced_atoms: O18-1

[Term]
id: BpForms:protein:GAU
name: (4s)-4-amino-5-hydroxypentanoic acid
synonym: "(4S)-4-amino-5-hydroxy-pentanoic acid" BROAD []
synonym: "(4S)-4-amino-5-hydroxypentanoic acid" BROAD []
synonym: "E" BROAD []
synonym: "pdb-ccd: GAU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: [O-]C(=O)CC[C@H]([NH3+])CO
l_bond_atoms: N8-1
l_displaced_atoms: H8
l_displaced_atoms: H8+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:GEE
name: ethyl glycinate
synonym: "ethyl 2-azanylethanoate" BROAD []
synonym: "ethyl glycinate" BROAD []
synonym: "pdb-ccd: GEE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CCOC(=O)CN
l_bond_atoms: N7
l_displaced_atoms: H7

[Term]
id: BpForms:protein:GFT
name: (2s)-2-azanyl-3-[cyclohexyloxy(methyl)phosphoryl]oxy-propanoic acid
synonym: "(2S)-2-azanyl-3-[cyclohexyloxy(methyl)phosphoryl]oxy-propanoic acid" BROAD []
synonym: "O-[(S)-(cyclohexyloxy)(methyl)phosphoryl]-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: GFT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [O-]C(=O)[C@H](CO[P@](=O)(OC1CCCCC1)C)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:GHC
name: n-({4-[(2-amino-6-ethyl-4-oxo-3,4-dihydrothieno[2,3-d]pyrimidin-5-yl)sulfanyl]phenyl}carbonyl)-l-glutamic acid
synonym: "(2S)-2-[[4-[(2-amino-6-ethyl-4-oxo-3H-thieno[5,4-d]pyrimidin-5-yl)sulfanyl]phenyl]carbonylamino]pentanedioic acid" BROAD []
synonym: "N-({4-[(2-amino-6-ethyl-4-oxo-3,4-dihydrothieno[2,3-d]pyrimidin-5-yl)sulfanyl]phenyl}carbonyl)-L-glutamic acid" BROAD []
synonym: "pdb-ccd: GHC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: CCc1sc2c(c1Sc1ccc(cc1)C(=O)N[C@H](C(=O)[O-])CCC(=O)[O-])c(=O)[nH]c(n2)N
l_bond_atoms: N17
l_displaced_atoms: H17
r_bond_atoms: C20
r_displaced_atoms: O22-1

[Term]
id: BpForms:protein:GHG
name: (2s,4s)-2,5-diamino-4-hydroxy-5-oxopentanoic acid (non-preferred name)
synonym: "(2S,4S)-2,5-bis(azanyl)-4-hydroxy-5-oxo-pentanoic acid" BROAD []
synonym: "(2S,4S)-2,5-diamino-4-hydroxy-5-oxopentanoic acid (non-preferred name)" BROAD []
synonym: "Q" BROAD []
synonym: "pdb-ccd: GHG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Q ! L-glutamine
structure: [NH3+][C@H](C(=O)[O-])C[C@@H](C(=O)N)O
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:GHW
name: n-({4-[(2-amino-6-methyl-4-oxo-3,4-dihydrothieno[2,3-d]pyrimidin-5-yl)sulfanyl]phenyl}carbonyl)-l-glutamic acid
synonym: "(2S)-2-[[4-[(2-amino-6-methyl-4-oxo-3H-thieno[5,4-d]pyrimidin-5-yl)sulfanyl]phenyl]carbonylamino]pentanedioic acid" BROAD []
synonym: "N-({4-[(2-amino-6-methyl-4-oxo-3,4-dihydrothieno[2,3-d]pyrimidin-5-yl)sulfanyl]phenyl}carbonyl)-L-glutamic acid" BROAD []
synonym: "pdb-ccd: GHW" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: [O-]C(=O)CC[C@@H](C(=O)[O-])NC(=O)c1ccc(cc1)Sc1c(C)sc2c1c(=O)[nH]c(n2)N
l_bond_atoms: N11
l_displaced_atoms: H11
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:GLJ
name: 5,5-dihydroxy-l-norvaline
synonym: "(2S)-2-azanyl-5,5-dihydroxy-pentanoic acid" BROAD []
synonym: "5,5-dihydroxy-L-norvaline" BROAD []
synonym: "E" BROAD []
synonym: "pdb-ccd: GLJ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: [NH3+][C@H](C(=O)[O-])CCC(O)O
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:GLZ
name: amino-acetaldehyde
synonym: "2-aminoethanal" BROAD []
synonym: "G" BROAD []
synonym: "aminoacetaldehyde" BROAD []
synonym: "pdb-ccd: GLZ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)C[NH3+]
l_bond_atoms: N5-1
l_displaced_atoms: H5
l_displaced_atoms: H5+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:GME
name: 5-o-methyl-glutamic acid
synonym: "(2S)-2-amino-5-methoxy-5-oxopentanoic acid (non-preferred name)" BROAD []
synonym: "(2S)-2-azanyl-5-methoxy-5-oxo-pentanoic acid" BROAD []
synonym: "pdb-ccd: GME" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: COC(=O)CC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:GMO
name: {(4z)-2-[(1r,2r)-1-amino-2-hydroxypropyl]-4-[(4-nitrophenyl)methylidene]-5-oxo-4,5-dihydro-1h-imidazol-1-yl}acetic acid
synonym: "2-[(4~{Z})-2-[(1~{R},2~{R})-1-azanyl-2-oxidanyl-propyl]-4-[(4-nitrophenyl)methylidene]-5-oxidanylidene-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "pdb-ccd: GMO" EXACT []
synonym: "{(4Z)-2-[(1R,2R)-1-amino-2-hydroxypropyl]-4-[(4-nitrophenyl)methylidene]-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=O)/C(=C/c2ccc(cc2)[N+](=O)[O-])/N=C1[C@H]([C@H](O)C)[NH3+]
l_bond_atoms: N19
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:GNC
name: n~2~-methyl-l-glutamine
synonym: "(2S)-5-azanyl-2-(methylamino)-5-oxidanylidene-pentanoic acid" BROAD []
synonym: "N~2~-methyl-L-glutamine" BROAD []
synonym: "pdb-ccd: GNC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Q ! L-glutamine
structure: C[NH2+][C@H](C(=O)[O-])CCC(=O)N
l_bond_atoms: N2-1
l_displaced_atoms: H2
l_displaced_atoms: H2+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:GSC
name: 2-ethylthio glycine
synonym: "(2S)-2-amino-2-ethylsulfanyl-ethanoic acid" BROAD []
synonym: "(2S)-amino(ethylsulfanyl)ethanoic acid" BROAD []
synonym: "G" BROAD []
synonym: "pdb-ccd: GSC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])SCC
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:GSU
name: o5'-(l-glutamyl-sulfamoyl)-adenosine
synonym: "(4S)-4-amino-5-[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxysulfonylamino]-5-oxo-pentanoic acid" BROAD []
synonym: "5'-O-(L-alpha-glutamylsulfamoyl)adenosine" BROAD []
synonym: "E" BROAD []
synonym: "pdb-ccd: GSU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: [O-]C(=O)CC[C@@H](C(=O)[N-]S(=O)(=O)OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1ncnc2N)N
l_bond_atoms: N29
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:GT9
name: s-nonyl-cysteine
synonym: "(2R)-2-amino-3-nonylsulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-nonyl-L-cysteine" BROAD []
synonym: "pdb-ccd: GT9" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: CCCCCCCCCSC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:GVL
name: o-[(r)-{[(3r)-4-amino-3-hydroxy-2,2-dimethyl-4-oxobutyl]oxy}(hydroxy)phosphoryl]-l-serine
synonym: "(2S)-2-amino-3-[[(3R)-4-amino-3-hydroxy-2,2-dimethyl-4-oxo-butoxy]-hydroxy-phosphoryl]oxy-propanoic acid" BROAD []
synonym: "O-[(R)-{[(3R)-4-amino-3-hydroxy-2,2-dimethyl-4-oxobutyl]oxy}(hydroxy)phosphoryl]-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: GVL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [NH3+][C@H](C(=O)[O-])COP(=O)(OCC([C@H](C(=O)N)O)(C)C)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:GZB
name: 2-benzamidoethanoic acid
synonym: "2-benzamidoethanoic acid" BROAD []
synonym: "pdb-ccd: GZB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: O=C(c1ccccc1)NCC(=O)[O-]
l_bond_atoms: N9
l_displaced_atoms: H9
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:H14
name: (2s,3r)-beta-hydroxy-phenylalanine
synonym: "(2S,3R)-2-amino-3-hydroxy-3-phenyl-propanoic acid" BROAD []
synonym: "(betaR)-beta-hydroxy-L-phenylalanine" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: H14" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: O[C@@H]([C@@H](C(=O)[O-])[NH3+])c1ccccc1
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:H5M
name: trans-3-hydroxy-5-methylproline
synonym: "(2S,3S,5S)-3-hydroxy-5-methyl-pyrrolidine-2-carboxylic acid" BROAD []
synonym: "(3S,5S)-3-hydroxy-5-methyl-L-proline" BROAD []
synonym: "P" BROAD []
synonym: "pdb-ccd: H5M" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: O[C@H]1C[C@@H]([NH2+][C@@H]1C(=O)[O-])C
l_bond_atoms: N7-1
l_displaced_atoms: H7
l_displaced_atoms: H7+1
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:H7V
name: 3-cyclohexyl-n-methyl-l-alanine
synonym: "(2~{S})-3-cyclohexyl-2-(methylamino)propanoic acid" BROAD []
synonym: "3-cyclohexyl-N-methyl-L-alanine" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: H7V" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@H](CC1CCCCC1)[NH2+]C
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:HAR
name: n-omega-hydroxy-l-arginine
synonym: "(2S)-2-amino-5-[(N-hydroxycarbamimidoyl)amino]pentanoic acid" BROAD []
synonym: "N~5~-(N-hydroxycarbamimidoyl)-L-ornithine" BROAD []
synonym: "R" BROAD []
synonym: "pdb-ccd: HAR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: ONC(=[NH2+])NCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:HBN
name: n-(2-naphthyl)histidinamide
synonym: "2-amino-3-(3H-imidazol-4-yl)-N-naphthalen-2-yl-propanamide" BROAD []
synonym: "H" BROAD []
synonym: "N-naphthalen-2-yl-D-histidinamide" BROAD []
synonym: "pdb-ccd: HBN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: O=C(C(Cc1cnc[nH]1)[NH3+])Nc1ccc2c(c1)cccc2
l_bond_atoms: N7

[Term]
id: BpForms:protein:HCL
name: (2s)-2-azanyl-2-[2-chloranyl-3,5-bis(oxidanyl)phenyl]ethanoic acid
synonym: "(2S)-2-azanyl-2-[2-chloranyl-3,5-bis(oxidanyl)phenyl]ethanoic acid" BROAD []
synonym: "pdb-ccd: HCL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: Oc1cc(O)c(c(c1)[C@@H](C(=O)[O-])[NH3+])Cl
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:HCM
name: (2s)-2-amino-4-(methyldisulfanyl)butanoic acid
synonym: "(2S)-2-amino-4-(methyldisulfanyl)butanoic acid" BROAD []
synonym: "(2S)-2-azanyl-4-(methyldisulfanyl)butanoic acid" BROAD []
synonym: "pdb-ccd: HCM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: CSSCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:HCS
name: 2-amino-4-mercapto-butyric acid
synonym: "(2S)-2-amino-4-sulfanyl-butanoic acid" BROAD []
synonym: "L-homocysteine" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: HCS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])CCS
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:HG7
name: (2s)-2-azanyl-n-[3-(dimethylamino)propyl]-2-(3-hydroxyphenyl)ethanamide
synonym: "(2S)-2-azanyl-N-[3-(dimethylamino)propyl]-2-(3-hydroxyphenyl)ethanamide" BROAD []
synonym: "pdb-ccd: HG7" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: C[NH+](CCCNC(=O)[C@H](c1cccc(c1)O)[NH3+])C
l_bond_atoms: N7
l_displaced_atoms: H7

[Term]
id: BpForms:protein:HGL
name: (2s)-2-amino-4-(2-amino-6-oxo-1,6-dihydro-9h-purin-9-yl)butanoic acid
synonym: "(2S)-2-amino-4-(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)butanoic acid" BROAD []
synonym: "(2S)-2-amino-4-(2-amino-6-oxo-1H-purin-9-yl)butanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: HGL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](CCn1cnc2c1nc(N)[nH]c2=O)[NH3+]
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:HHK
name: (2s)-2,8-diaminooctanoic acid
synonym: "(2S)-2,8-diaminooctanoic acid" BROAD []
synonym: "AK" BROAD []
synonym: "pdb-ccd: HHK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]CCCCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:HIX
name: 3-(1h-1,2,3-triazol-5-yl)-l-alanine
synonym: "(2S)-2-azanyl-3-(1H-1,2,3-triazol-5-yl)propanoic acid" BROAD []
synonym: "3-(1H-1,2,3-triazol-5-yl)-L-alanine" BROAD []
synonym: "pdb-ccd: HIX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@H](Cc1cnn[nH]1)[NH3+]
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:HL2
name: (2s,3r)-2-amino-3-hydroxy-4-methylpentanoic acid
synonym: "(2S,3R)-2-amino-3-hydroxy-4-methylpentanoic acid (non-preferred name)" BROAD []
synonym: "(2S,3R)-2-azanyl-3-hydroxy-4-methyl-pentanoic acid" BROAD []
synonym: "L" BROAD []
synonym: "pdb-ccd: HL2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: CC([C@H]([C@@H](C(=O)[O-])[NH3+])O)C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:HLU
name: beta-hydroxyleucine
synonym: "(2S,3S)-2-amino-3-hydroxy-4-methyl-pentanoic acid" BROAD []
synonym: "(2S,3S)-2-amino-3-hydroxy-4-methylpentanoic acid (non-preferred name)" BROAD []
synonym: "L" BROAD []
synonym: "pdb-ccd: HLU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: CC([C@@H]([C@@H](C(=O)[O-])[NH3+])O)C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:HLX
name: 5-methyl-l-norleucine
synonym: "(2S)-2-azanyl-5-methyl-hexanoic acid" BROAD []
synonym: "5-methyl-L-norleucine" BROAD []
synonym: "pdb-ccd: HLX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@H](C(=O)[O-])CCC(C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:HLY
name: (3~{r})-5-[[(5~{s})-5-azanyl-6-oxidanyl-6-oxidanylidene-hexyl]amino]-3-methyl-3-oxidanyl-5-oxidanylidene-pentanoic acid
synonym: "(3~{R})-5-[[(5~{S})-5-azanyl-6-oxidanyl-6-oxidanylidene-hexyl]amino]-3-methyl-3-oxidanyl-5-oxidanylidene-pentanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: HLY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O=C(C[C@](CC(=O)[O-])(O)C)NCCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C18
r_displaced_atoms: O20-1

[Term]
id: BpForms:protein:HM8
name: 2-[(1s,2r)-1-amino-2-(sulfooxy)propyl]-5-hydroxy-1,3-oxazole-4-carbothioic o-acid
synonym: "2-[(1S,2R)-1-amino-2-(sulfooxy)propyl]-5-hydroxy-1,3-oxazole-4-carbothioic O-acid" BROAD []
synonym: "2-[(1S,2R)-1-azanyl-2-sulfooxy-propyl]-5-hydroxy-1,3-oxazole-4-carbothioic O-acid" BROAD []
synonym: "pdb-ccd: HM8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: C[C@H]([C@@H](c1oc(c(n1)C(=S)O)[O-])N)OS(=O)(=O)[O-]
l_bond_atoms: N10

[Term]
id: BpForms:protein:HM9
name: 6-(3-carbamimidamidopropyl)-3,5-dihydroxypyrazine-2-carbothioic s-acid
synonym: "6-(3-carbamimidamidopropyl)-3,5-dihydroxy-pyrazine-2-carbothioic S-acid" BROAD []
synonym: "6-(3-carbamimidamidopropyl)-3,5-dihydroxypyrazine-2-carbothioic S-acid" BROAD []
synonym: "pdb-ccd: HM9" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: Oc1nc(O)c(nc1CCCNC(=[NH2+])N)C(=O)[S-]
l_bond_atoms: N3

[Term]
id: BpForms:protein:HMR
name: beta-homoarginine
synonym: "(3S)-3-amino-6-carbamimidamido-hexanoic acid" BROAD []
synonym: "(3S)-3-amino-6-carbamimidamidohexanoic acid" BROAD []
synonym: "R" BROAD []
synonym: "pdb-ccd: HMR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: [O-]C(=O)C[C@H](CCCNC(=[NH2+])N)[NH3+]
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:HNC
name: s-[(1s,2r)-2-hydroxy-1-(2-oxoethyl)heptyl]-l-cysteine
synonym: "(2R)-2-azanyl-3-[(3S,4R)-4-hydroxy-1-oxo-nonan-3-yl]sulfanyl-propanoic acid" BROAD []
synonym: "S-[(3S,4R)-4-hydroxy-1-oxononan-3-yl]-L-cysteine" BROAD []
synonym: "pdb-ccd: HNC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: CCCCC[C@H]([C@@H](SC[C@@H](C(=O)[O-])[NH3+])CC=O)O
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:HOX
name: 4-amino-l-phenylalanine
synonym: "(2S)-3-(4-aminophenyl)-2-azanyl-propanoic acid" BROAD []
synonym: "4-amino-L-phenylalanine" BROAD []
synonym: "pdb-ccd: HOX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [NH3+][C@H](C(=O)[O-])Cc1ccc(cc1)N
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:HPE
name: homophenylalanine
synonym: "(2S)-2-amino-4-phenyl-butanoic acid" BROAD []
synonym: "(2S)-2-amino-4-phenylbutanoic acid" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: HPE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [NH3+][C@H](C(=O)[O-])CCc1ccccc1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:HPQ
name: homophenylalaninylmethane
synonym: "(3S)-3-amino-5-phenyl-pentan-2-one" BROAD []
synonym: "(3S)-3-amino-5-phenylpentan-2-one" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: HPQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [NH3+][C@H](C(=O)C)CCc1ccccc1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1

[Term]
id: BpForms:protein:HQA
name: 3-(8-hydroxyquinolin-3-yl)-l-alanine
synonym: "(2S)-2-amino-3-(8-hydroxyquinolin-3-yl)propanoic acid" BROAD []
synonym: "3-(8-hydroxyquinolin-3-yl)-L-alanine" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: HQA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@H](Cc1cnc2c(c1)cccc2O)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:HR7
name: (3s)-3-amino-6-[(diaminomethylidene)amino]hexanoic acid
synonym: "(3S)-3-amino-6-[(diaminomethylidene)amino]hexanoic acid" BROAD []
synonym: "(3S)-3-azanyl-6-[bis(azanyl)methylideneamino]hexanoic acid" BROAD []
synonym: "R" BROAD []
synonym: "pdb-ccd: HR7" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: [O-]C(=O)C[C@H](CCC[NH+]=C(N)N)[NH3+]
l_bond_atoms: N13
l_displaced_atoms: H13
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:HRG
name: l-homoarginine
synonym: "(2S)-2-amino-6-carbamimidamido-hexanoic acid" BROAD []
synonym: "N~6~-carbamimidoyl-L-lysine" BROAD []
synonym: "R" BROAD []
synonym: "pdb-ccd: HRG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: NC(=[NH2+])NCCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:HRP
name: 5-hydroxy-l-tryptophan
synonym: "(2R)-2-amino-3-(5-hydroxy-1H-indol-3-yl)propanoic acid" BROAD []
synonym: "5-hydroxy-D-tryptophan" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: HRP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@H]([NH3+])Cc1c[nH]c2c1cc(O)cc2
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:HS8
name: 3-(1-sulfo-1h-imidazol-3-ium-4-yl)-l-alanine
synonym: "(2S)-2-amino-3-(1-sulfoimidazol-3-ium-4-yl)propanoic acid" BROAD []
synonym: "3-(1-sulfo-1H-imidazol-3-ium-4-yl)-L-alanine" BROAD []
synonym: "H" BROAD []
synonym: "pdb-ccd: HS8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: [O-]C(=O)[C@H](Cc1ncn(c1)S(=O)(=O)[O-])[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:HS9
name: n-alpha-methyl-l-histidinamide
synonym: "(2S)-3-(1H-imidazol-4-yl)-2-methylamino-propanamide" BROAD []
synonym: "H" BROAD []
synonym: "Nalpha-methyl-L-histidinamide" BROAD []
synonym: "pdb-ccd: HS9" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: C[NH2+][C@H](C(=O)N)Cc1c[nH]cn1
l_bond_atoms: N2-1
l_displaced_atoms: H2
l_displaced_atoms: H2+1

[Term]
id: BpForms:protein:HSE
name: l-homoserine
synonym: "(2S)-2-amino-4-hydroxy-butanoic acid" BROAD []
synonym: "L-homoserine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: HSE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [O-]C(=O)[C@@H]([NH3+])CCO
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:HSK
name: 3-hydroxy-l-histidine
synonym: "(2S)-2-azanyl-3-(3-oxidanylimidazol-4-yl)propanoic acid" BROAD []
synonym: "3-hydroxy-L-histidine" BROAD []
synonym: "pdb-ccd: HSK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: [O-]C(=O)[C@@H]([NH3+])Cc1cncn1O
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:HSL
name: homoserine lactone
synonym: "(3S)-3-aminodihydrofuran-2(3H)-one" BROAD []
synonym: "(3S)-3-aminooxolan-2-one" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: HSL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: O=C1OCC[C@@H]1[NH3+]
l_bond_atoms: N8-1
l_displaced_atoms: H8
l_displaced_atoms: H8+1

[Term]
id: BpForms:protein:HSO
name: l-histidinol
synonym: "(2S)-2-azanyl-3-(1H-imidazol-3-ium-4-yl)propan-1-ol" BROAD []
synonym: "4-[(2S)-2-amino-3-hydroxypropyl]-1H-imidazol-3-ium" BROAD []
synonym: "H" BROAD []
synonym: "pdb-ccd: HSO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: OC[C@@H]([NH3+])Cc1c[nH]cn1
l_bond_atoms: N5-1
l_displaced_atoms: H5
l_displaced_atoms: H5+1

[Term]
id: BpForms:protein:HSV
name: l-histidinal
synonym: "(2S)-2-azanyl-3-(1H-imidazol-3-ium-4-yl)propanal" BROAD []
synonym: "4-[(2S)-2-amino-3-oxopropyl]-1H-imidazol-3-ium" BROAD []
synonym: "H" BROAD []
synonym: "pdb-ccd: HSV" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: [O-]C(=O)[C@@H]([NH3+])Cc1c[nH]cn1
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:HT7
name: (3s)-3-amino-4-(1h-indol-3-yl)butanoic acid
synonym: "(3S)-3-amino-4-(1H-indol-3-yl)butanoic acid" BROAD []
synonym: "(3S)-3-azanyl-4-(1H-indol-3-yl)butanoic acid" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: HT7" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)C[C@H](Cc1c[nH]c2c1cccc2)[NH3+]
l_bond_atoms: N10
l_displaced_atoms: H10
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:HTI
name: (4s)-4-{[(2s)-2-amino-3-oxopropyl]sulfanyl}-l-homoserine
synonym: "(2S,4R)-2-amino-4-[(2R)-2-amino-3-hydroxy-3-oxo-propyl]sulfanyl-4-hydroxy-butanoic acid" BROAD []
synonym: "(4R)-4-{[(2R)-2-amino-2-carboxyethyl]sulfanyl}-L-homoserine" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: HTI" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O[C@@H](C[C@@H](C(=O)[O-])[NH3+])SC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:HZP
name: (4s)-4-hydroxy-l-proline
synonym: "(2S,4S)-4-hydroxypyrrolidine-2-carboxylic acid" BROAD []
synonym: "(4S)-4-hydroxy-L-proline" BROAD []
synonym: "P" BROAD []
synonym: "pdb-ccd: HZP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [O-]C(=O)[C@@H]1C[C@@H](C[NH2+]1)O
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:I2M
name: 3-methyl-l-alloisoleucine
synonym: "(2S)-2-amino-3,3-dimethyl-pentanoic acid" BROAD []
synonym: "3-methyl-L-alloisoleucine" BROAD []
synonym: "I" BROAD []
synonym: "pdb-ccd: I2M" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:I ! L-isoleucine
structure: CCC([C@@H](C(=O)[O-])[NH3+])(C)C
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:I4G
name: n-(2-methylpropyl)glycine
synonym: "2-(2-methylpropylamino)ethanoic acid" BROAD []
synonym: "N-(2-methylpropyl)glycine" BROAD []
synonym: "pdb-ccd: I4G" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CC(C[NH2+]CC(=O)[O-])C
l_bond_atoms: N4-1
l_displaced_atoms: H4
l_displaced_atoms: H4+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:I58
name: 4r-fluoro-n6-ethanimidoyl-l-lysine
synonym: "(2S,4R)-2-amino-6-(ethanimidoylamino)-4-fluoro-hexanoic acid" BROAD []
synonym: "(4R)-N~6~-[(1Z)-ethanimidoyl]-4-fluoro-L-lysine" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: I58" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: F[C@@H](C[C@@H](C(=O)[O-])[NH3+])CCNC(=[NH2+])C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:IAM
name: 4-[(isopropylamino)methyl]phenylalanine
synonym: "(2S)-2-amino-3-[4-[(propan-2-ylamino)methyl]phenyl]propanoic acid" BROAD []
synonym: "4-{[(1-methylethyl)amino]methyl}-L-phenylalanine" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: IAM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: CC([NH2+]Cc1ccc(cc1)C[C@@H](C(=O)[O-])[NH3+])C
l_bond_atoms: N19-1
l_displaced_atoms: H19
l_displaced_atoms: H19+1
r_bond_atoms: C16
r_displaced_atoms: O18-1

[Term]
id: BpForms:protein:ICY
name: s-(2-iodobenzyl)-l-cysteine
synonym: "(2R)-2-azanyl-3-[(2-iodophenyl)methylsulfanyl]propanoic acid" BROAD []
synonym: "S-(2-iodobenzyl)-L-cysteine" BROAD []
synonym: "pdb-ccd: ICY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@H](CSCc1ccccc1I)[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:IEL
name: n~6~-[(1z)-ethanimidoyl]-l-lysine
synonym: "(2S)-2-amino-6-(ethanimidoylamino)hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "N~6~-[(1Z)-ethanimidoyl]-L-lysine" BROAD []
synonym: "pdb-ccd: IEL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: CC(=[NH2+])NCCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:IEY
name: 2-((1e)-2-(5-imidazolyl)ethenyl)-4-(p-hydroxybenzylidene)-5-imidazolinone
synonym: "2-[5-hydroxy-4-[(4-hydroxyphenyl)methyl]-2-[(E)-2-(1H-imidazol-4-yl)ethenyl]imidazol-1-yl]ethanoic acid" BROAD []
synonym: "HYG" BROAD []
synonym: "pdb-ccd: IEY" EXACT []
synonym: "{5-hydroxy-4-(4-hydroxybenzyl)-2-[(E)-2-(1H-imidazol-4-yl)ethenyl]-1H-imidazol-1-yl}acetic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)Cn1c(/C=C/c2c[nH]cn2)[nH+]c(c1O)Cc1ccc(cc1)O
l_bond_atoms: N11
l_displaced_atoms: H11
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:IGL
name: alpha-amino-2-indanacetic acid
synonym: "(2R)-2-amino-2-(2,3-dihydro-1H-inden-2-yl)ethanoic acid" BROAD []
synonym: "(2R)-amino(2,3-dihydro-1H-inden-2-yl)ethanoic acid" BROAD []
synonym: "G" BROAD []
synonym: "pdb-ccd: IGL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@@H](C(=O)[O-])C1Cc2c(C1)cccc2
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:IIC
name: 4-imidazolmethylene-5-imidazolone chromophore
synonym: "2-[2-[(1R)-1-amino-2-hydroxy-ethyl]-4-(3H-imidazol-4-ylmethyl)-5-oxo-2H-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "SHG" BROAD []
synonym: "[(2S)-2-[(1R)-1-amino-2-hydroxyethyl]-4-(1H-imidazol-5-ylmethyl)-5-oxo-2,5-dihydro-1H-imidazol-1-yl]acetic acid" BROAD []
synonym: "pdb-ccd: IIC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: OC[C@@H](C1N=C(C(=O)N1CC(=O)[O-])Cc1cnc[nH]1)[NH3+]
l_bond_atoms: N6
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:IIL
name: iso-isoleucine
synonym: "(2S,3R)-2-amino-3-methyl-pentanoic acid" BROAD []
synonym: "I" BROAD []
synonym: "L-alloisoleucine" BROAD []
synonym: "pdb-ccd: IIL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:I ! L-isoleucine
structure: CC[C@H]([C@@H](C(=O)[O-])[NH3+])C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:ILM
name: methyl l-isoleucinate
synonym: "methyl (2S,3S)-2-azanyl-3-methyl-pentanoate" BROAD []
synonym: "methyl L-isoleucinate" BROAD []
synonym: "pdb-ccd: ILM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:I ! L-isoleucine
structure: CC[C@@H]([C@@H](C(=O)OC)[NH3+])C
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1

[Term]
id: BpForms:protein:IOR
name: n~5~-[(5r)-5-methyl-4-oxo-4,5-dihydro-1h-imidazol-2-yl]-l-ornithine
synonym: "(2S)-2-azanyl-5-[[(5R)-5-methyl-4-oxidanylidene-1,5-dihydroimidazol-2-yl]amino]pentanoic acid" BROAD []
synonym: "N~5~-[(5R)-5-methyl-4-oxo-4,5-dihydro-1H-imidazol-2-yl]-L-ornithine" BROAD []
synonym: "pdb-ccd: IOR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: [O-]C(=O)[C@H](CCCNC1=[NH+]C(=O)[C@H](N1)C)[NH3+]
l_bond_atoms: N19-1
l_displaced_atoms: H19
l_displaced_atoms: H19+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:IPG
name: n-isopropyl glycine
synonym: "2-(propan-2-ylamino)ethanoic acid" BROAD []
synonym: "G" BROAD []
synonym: "N-(1-methylethyl)glycine" BROAD []
synonym: "pdb-ccd: IPG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CC([NH2+]CC(=O)[O-])C
l_bond_atoms: N3-1
l_displaced_atoms: H3
l_displaced_atoms: H3+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:IZO
name: (2s)-2-aminohex-5-ynoic acid
synonym: "(2S)-2-aminohex-5-ynoic acid" BROAD []
synonym: "M" BROAD []
synonym: "pdb-ccd: IZO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: [O-]C(=O)[C@@H]([NH3+])CCC#C
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:J9Y
name: (2s)-2-amino-5-{[(e)-amino(methylamino)methylidene](hydroxy)azaniumyl}pentanoate
synonym: "(2S)-2-amino-5-{[(E)-amino(methylamino)methylidene](hydroxy)azaniumyl}pentanoate" BROAD []
synonym: "(2~{S})-2-azanyl-5-[(~{E})-[azanyl(methylamino)methylidene]-oxidanyl-azaniumyl]pentanoate" BROAD []
synonym: "pdb-ccd: J9Y" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: CN/C(=[N+](\CCC[C@@H](C(=O)[O-])[NH3+])/[O-])/[NH3+]
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:JJJ
name: s-(pyridin-3-ylcarbonyl)-l-cysteine
synonym: "(2R)-2-azanyl-3-pyridin-3-ylcarbonylsulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-(pyridin-3-ylcarbonyl)-L-cysteine" BROAD []
synonym: "pdb-ccd: JJJ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@H](CSC(=O)c1cccnc1)[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:JJK
name: s-[(s)-hydroxy(pyridin-3-yl)methyl]-l-cysteine
synonym: "(2R)-2-azanyl-3-[(S)-hydroxy(pyridin-3-yl)methyl]sulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-[(S)-hydroxy(pyridin-3-yl)methyl]-L-cysteine" BROAD []
synonym: "pdb-ccd: JJK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@H](CS[C@@H](c1cccnc1)O)[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:JJL
name: s-[(s)-hydroxy(5-methoxypyridin-3-yl)methyl]-l-cysteine
synonym: "(2R)-2-azanyl-3-[(S)-hydroxy-(5-methoxypyridin-3-yl)methyl]sulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-[(S)-hydroxy(5-methoxypyridin-3-yl)methyl]-L-cysteine" BROAD []
synonym: "pdb-ccd: JJL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: COc1cncc(c1)[C@H](SC[C@@H](C(=O)[O-])[NH3+])O
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C15
r_displaced_atoms: O17-1

[Term]
id: BpForms:protein:K1R
name: (2s)-2-amino-4-[({[(2r)-2-amino-2-carboxyethyl]thio}amino)sulfinyl]butanoic acid
synonym: "(2S)-2-amino-4-[(2R)-2-amino-3-hydroxy-3-oxo-propyl]sulfanylsulfinamoyl-butanoic acid" BROAD []
synonym: "(2S)-2-amino-4-[(R)-({[(2R)-2-amino-2-carboxyethyl]sulfanyl}amino)sulfinyl]butanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: K1R" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=[S@](CC[C@@H](C(=O)[O-])[NH3+])NSC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:K5L
name: (2~{r})-2-azanyl-3-(3-oxidanyl-3-oxidanylidene-propanoyl)oxy-propanoic acid
synonym: "(2~{R})-2-azanyl-3-(3-oxidanyl-3-oxidanylidene-propanoyl)oxy-propanoic acid" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: K5L" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [O-]C(=O)CC(=O)OC[C@H](C(=O)[O-])[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:KBE
name: beta-lysine
synonym: "(3S)-3,6-bis(azanyl)hexanoic acid" BROAD []
synonym: "pdb-ccd: KBE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+]CCC[C@@H](CC(=O)[O-])[NH3+]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:KCR
name: n-6-crotonyl-l-lysine
synonym: "(2S)-2-azanyl-6-[[(E)-but-2-enoyl]amino]hexanoic acid" BROAD []
synonym: "N~6~-[(2E)-but-2-enoyl]-L-lysine" BROAD []
synonym: "pdb-ccd: KCR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: C/C=C/C(=O)NCCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:KEO
name: e(r)-beta-lysyl-hydroxylysine
synonym: "(2~{S},4~{S})-2-azanyl-6-[[(3~{S})-3,6-bis(azanyl)hexanoyl]amino]-4-oxidanyl-hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: KEO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+]CCC[C@@H](CC(=O)NCC[C@@H](C[C@@H](C(=O)[O-])[NH3+])O)[NH3+]
l_bond_atoms: N24-1
l_displaced_atoms: H24
l_displaced_atoms: H24+1
r_bond_atoms: C21
r_displaced_atoms: O23-1

[Term]
id: BpForms:protein:KGC
name: n~6~-[(2r)-2-carboxy-5-oxotetrahydrofuran-2-yl]-l-lysine
synonym: "(2R)-2-[[(5S)-5-amino-6-hydroxy-6-oxo-hexyl]amino]-5-oxo-oxolane-2-carboxylic acid" BROAD []
synonym: "K" BROAD []
synonym: "N~6~-[(2R)-2-carboxy-5-oxotetrahydrofuran-2-yl]-L-lysine" BROAD []
synonym: "pdb-ccd: KGC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O=C1CC[C@](O1)(NCCCC[C@@H](C(=O)[O-])[NH3+])C(=O)[O-]
l_bond_atoms: N7
l_displaced_atoms: H7
r_bond_atoms: C21
r_displaced_atoms: O23-1

[Term]
id: BpForms:protein:KHB
name: n~6~-[(3s)-3-hydroxybutanoyl]-l-lysine
synonym: "(2~{S})-2-azanyl-6-[[(3~{S})-3-oxidanylbutanoyl]amino]hexanoic acid" BROAD []
synonym: "N~6~-[(3S)-3-hydroxybutanoyl]-L-lysine" BROAD []
synonym: "pdb-ccd: KHB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: C[C@@H](CC(=O)NCCCC[C@@H](C(=O)[O-])[NH3+])O
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:KNB
name: 3-(methylsulfonyl)-l-alanine
synonym: "(2R)-2-azanyl-3-methylsulfonyl-propanoic acid" BROAD []
synonym: "3-(methylsulfonyl)-L-alanine" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: KNB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@H](CS(=O)(=O)C)[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:KOR
name: l-homocysteine-s-n-s-l-cysteine
synonym: "(2S)-2-amino-4-[[(R)-[(2R)-2-amino-3-hydroxy-3-oxo-propyl]sulfinyl]amino]sulfanyl-butanoic acid" BROAD []
synonym: "M" BROAD []
synonym: "S-({(R)-[(2R)-2-amino-2-carboxyethyl]sulfinyl}amino)-L-homocysteine" BROAD []
synonym: "pdb-ccd: KOR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: O=[S@](C[C@@H](C(=O)[O-])[NH3+])[N-]SCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:KPF
name: n-(1-carboxy-2-fluoro-ethenyl) lysine
synonym: "(2S)-2-azanyl-6-[(Z)-(3-fluoranyl-1-oxidanyl-1-oxidanylidene-propan-2-ylidene)amino]hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: KPF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: FC/C(=N\CCCC[C@@H](C(=O)[O-])[NH3+])/C(=O)[O-]
l_bond_atoms: N4
r_bond_atoms: C18
r_displaced_atoms: O20-1

[Term]
id: BpForms:protein:KPY
name: (2r)-2-azanyl-3-[2-[(e)-(1-oxidanyl-1-oxidanylidene-propan-2-ylidene)amino]ethylsulfanyl]propanoic acid
synonym: "(2R)-2-azanyl-3-[2-[(E)-(1-oxidanyl-1-oxidanylidene-propan-2-ylidene)amino]ethylsulfanyl]propanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "S-{2-[(E)-(1-carboxyethylidene)amino]ethyl}-L-cysteine" BROAD []
synonym: "pdb-ccd: KPY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+][C@H](C(=O)[O-])CSCC/N=C(/C(=O)[O-])\C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:KST
name: n~6~-(5-carboxy-3-thienyl)-l-lysine
synonym: "4-[[(5S)-5-amino-6-hydroxy-6-oxo-hexyl]amino]thiophene-2-carboxylic acid" BROAD []
synonym: "K" BROAD []
synonym: "N~6~-(5-carboxythiophen-3-yl)-L-lysine" BROAD []
synonym: "pdb-ccd: KST" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+][C@H](C(=O)[O-])CCCCNc1csc(c1)C(=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:KWS
name: {2-[(1r,2r)-1-amino-2-hydroxypropyl]-4-methylidene-5-oxo-4,5-dihydro-1h-imidazol-1-yl}acetic acid
synonym: "2-[2-[(1R,2R)-1-azanyl-2-oxidanyl-propyl]-4-methylidene-5-oxidanylidene-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "pdb-ccd: KWS" EXACT []
synonym: "{2-[(1R,2R)-1-amino-2-hydroxypropyl]-4-methylidene-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=O)C(=C)N=C1[C@H]([C@H](O)C)[NH3+]
l_bond_atoms: N10
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:KYN
name: (2s)-2-amino-4-(2-aminophenyl)-4-oxobutanoic acid
synonym: "(2S)-2-amino-4-(2-aminophenyl)-4-oxobutanoic acid" BROAD []
synonym: "(2S)-4-(2-aminophenyl)-2-azanyl-4-oxidanylidene-butanoic acid" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: KYN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@H](CC(=O)c1ccccc1N)[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:KYQ
name: (e)-n~6~-(1-carboxy-2-hydroxyethylidene)-l-lysine
synonym: "(2S)-2-amino-6-[(1,3-dihydroxy-1-oxo-propan-2-ylidene)amino]hexanoic acid" BROAD []
synonym: "(E)-N~6~-(1-carboxy-2-hydroxyethylidene)-L-lysine" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: KYQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: OC/C(=N\CCCC[C@@H](C(=O)[O-])[NH3+])/C(=O)[O-]
l_bond_atoms: N4
r_bond_atoms: C18
r_displaced_atoms: O20-1

[Term]
id: BpForms:protein:L2A
name: (2s,5s,8s,11s,15e,20s)-20-amino-2-(carboxymethyl)-11,20-dimethyl-5,8-bis(2-methylpropyl)-3,6,9,21-tetraoxo-1,4,7,10-tetraazacyclohenicos-15-ene-11-carboxylic acid
synonym: "(2S,5S,8S,11S,15E,20S)-20-amino-2-(carboxymethyl)-11,20-dimethyl-5,8-bis(2-methylpropyl)-3,6,9,21-tetraoxo-1,4,7,10-tetraazacyclohenicos-15-ene-11-carboxylic acid" BROAD []
synonym: "(2S,5S,8S,11S,15E,20S)-20-amino-2-(carboxymethyl)-11,20-dimethyl-5,8-bis(2-methylpropyl)-3,6,9,21-tetraoxo-1,4,7,10-tetrazacyclohenicos-15-ene-11-carboxylic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: L2A" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CC(C[C@@H]1NC(=O)[C@H](CC(=O)[O-])NC(=O)[C@@](C)([NH3+])CCC/C=C/CCC[C@@](NC(=O)[C@@H](NC1=O)CC(C)C)(C)C(=O)[O-])C
l_bond_atoms: N33
l_displaced_atoms: H33
r_bond_atoms: C46
r_displaced_atoms: O48-1

[Term]
id: BpForms:protein:L3O
name: (2s,3s)-3-amino-2-hydroxy-5-methylhexanoic acid
synonym: "(2S,3S)-3-amino-2-hydroxy-5-methyl-hexanoic acid" BROAD []
synonym: "(2S,3S)-3-amino-2-hydroxy-5-methylhexanoic acid" BROAD []
synonym: "L" BROAD []
synonym: "pdb-ccd: L3O" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: [NH3+][C@H]([C@@H](C(=O)[O-])O)CC(C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:L5P
name: (2s)-2-azanyl-6-[[(3r,4r)-3,4-bis(oxidanyl)-2-oxidanylidene-5-phosphonooxy-pentyl]amino]hexanoic acid
synonym: "(2S)-2-amino-6-{[(3R,4R)-3,4-dihydroxy-2-oxo-5-(phosphonooxy)pentyl]amino}hexanoic acid (non-preferred name)" BROAD []
synonym: "(2S)-2-azanyl-6-[[(3R,4R)-3,4-bis(oxidanyl)-2-oxidanylidene-5-phosphonooxy-pentyl]amino]hexanoic acid" BROAD []
synonym: "pdb-ccd: L5P" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O[C@@H]([C@H](C(=O)C[NH2+]CCCC[C@@H](C(=O)[O-])[NH3+])O)COP(=O)([O-])[O-]
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C18
r_displaced_atoms: O20-1

[Term]
id: BpForms:protein:LA2
name: n~6~-[(6r)-6,8-disulfanyloctanoyl]-l-lysine
synonym: "(2S)-2-amino-6-[[(6R)-6,8-bis-sulfanyloctanoyl]amino]hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "N~6~-[(6R)-6,8-disulfanyloctanoyl]-L-lysine" BROAD []
synonym: "pdb-ccd: LA2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: SCC[C@@H](CCCCC(=O)NCCCC[C@@H](C(=O)[O-])[NH3+])S
l_bond_atoms: N22-1
l_displaced_atoms: H22
l_displaced_atoms: H22+1
r_bond_atoms: C19
r_displaced_atoms: O21-1

[Term]
id: BpForms:protein:LAY
name: n-acetyl-l-leucine
synonym: "(2S)-2-acetamido-4-methyl-pentanoic acid" BROAD []
synonym: "L" BROAD []
synonym: "N-acetyl-L-leucine" BROAD []
synonym: "pdb-ccd: LAY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: CC(C[C@@H](C(=O)[O-])NC(=O)C)C
l_bond_atoms: N9
l_displaced_atoms: H9
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:LBY
name: n~6~-(tert-butoxycarbonyl)-l-lysine
synonym: "(2S)-2-azanyl-6-[(2-methylpropan-2-yl)oxycarbonylamino]hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "N~6~-(tert-butoxycarbonyl)-L-lysine" BROAD []
synonym: "pdb-ccd: LBY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O=C(OC(C)(C)C)NCCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C15
r_displaced_atoms: O17-1

[Term]
id: BpForms:protein:LCK
name: (z)-n~6~-(2-carboxy-1-methylethylidene)-l-lysine
synonym: "(2S)-2-amino-6-[(4-hydroxy-4-oxo-butan-2-ylidene)amino]hexanoic acid" BROAD []
synonym: "(Z)-N~6~-(2-carboxy-1-methylethylidene)-L-lysine" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: LCK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)C/C(=[NH+]\CCCC[C@@H](C(=O)[O-])[NH3+])/C
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:LDH
name: n~6~-ethyl-l-lysine
synonym: "(2S)-2-amino-6-ethylamino-hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "N~6~-ethyl-L-lysine" BROAD []
synonym: "pdb-ccd: LDH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: CC[NH2+]CCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:LE1
name: 3-sulfanyl-l-valine
synonym: "(2R)-2-amino-3-methyl-3-sulfanyl-butanoic acid" BROAD []
synonym: "3-sulfanyl-L-valine" BROAD []
synonym: "pdb-ccd: LE1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:V ! L-valine
structure: [NH3+][C@@H](C(S)(C)C)C(=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:LEF
name: (4s)-5-fluoro-l-leucine
synonym: "(2S,4S)-2-amino-5-fluoro-4-methyl-pentanoic acid" BROAD []
synonym: "(4S)-5-fluoro-L-leucine" BROAD []
synonym: "L" BROAD []
synonym: "pdb-ccd: LEF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: FC[C@H](C[C@@H](C(=O)[O-])[NH3+])C
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:LEH
name: n-[12-(1h-imidazol-1-yl)dodecanoyl]-l-leucine
synonym: "(2S)-2-(12-imidazol-1-yldodecanoylamino)-4-methyl-pentanoic acid" BROAD []
synonym: "L" BROAD []
synonym: "N-[12-(1H-imidazol-1-yl)dodecanoyl]-L-leucine" BROAD []
synonym: "pdb-ccd: LEH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: CC(C[C@@H](C(=O)[O-])NC(=O)CCCCCCCCCCCn1ccnc1)C
l_bond_atoms: N9
l_displaced_atoms: H9
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:LEN
name: 3-methylbutan-1-amine
synonym: "3-methylbutan-1-amine" BROAD []
synonym: "L" BROAD []
synonym: "pdb-ccd: LEN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: [NH3+]CCC(C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1

[Term]
id: BpForms:protein:LET
name: (z)-n^6-{3-carboxy-1-[(4-carboxy-2-oxobutoxy)methyl]propylidene}-l-lysine
synonym: "(2S)-2-amino-6-[[5-hydroxy-1-(5-hydroxy-2,5-dioxo-pentoxy)-5-oxo-pentan-2-ylidene]amino]hexanoic acid" BROAD []
synonym: "(E)-N~6~-{3-carboxy-1-[(4-carboxy-2-oxobutoxy)methyl]propylidene}-L-lysine" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: LET" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)CC/C(=N\CCCC[C@@H](C(=O)[O-])[NH3+])/COCC(=O)CCC(=O)[O-]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:LGY
name: (e)-n~6~-(4-oxobutylidene)-l-lysine
synonym: "(2S)-2-azanyl-6-[(E)-4-oxobutylideneamino]hexanoic acid" BROAD []
synonym: "(E)-N~6~-(4-oxobutylidene)-L-lysine" BROAD []
synonym: "pdb-ccd: LGY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O=CCC/C=[NH+]/CCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:LHC
name: (2s)-2-amino-4-(4-amino-2-oxopyrimidin-1(2h)-yl)butanoic acid
synonym: "(2S)-2-amino-4-(4-amino-2-oxo-pyrimidin-1-yl)butanoic acid" BROAD []
synonym: "(2S)-2-amino-4-(4-amino-2-oxopyrimidin-1(2H)-yl)butanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: LHC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])CCn1ccc(nc1=O)N
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:LLO
name: n~6~-[(1s)-3-hydroxy-1,3-dimethylbutyl]-l-lysine
synonym: "(2S)-2-azanyl-6-[[(2S)-4-hydroxy-4-methyl-pentan-2-yl]amino]hexanoic acid" BROAD []
synonym: "N~6~-[(2S)-4-hydroxy-4-methylpentan-2-yl]-L-lysine" BROAD []
synonym: "pdb-ccd: LLO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)[C@H](CCCC[NH2+][C@H](CC(O)(C)C)C)[NH3+]
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:LLY
name: nz-(dicarboxymethyl)lysine
synonym: "2-[[(5S)-5-amino-6-hydroxy-6-oxo-hexyl]amino]propanedioic acid" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: LLY" EXACT []
synonym: "{[(5S)-5-amino-5-carboxypentyl]amino}propanedioic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)[C@H](CCCC[NH2+]C(C(=O)[O-])C(=O)[O-])[NH3+]
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:LLZ
name: n~6~-[(1s)-3-(6-methoxynaphthalen-2-yl)-1-methyl-3-oxopropyl]-l-lysine
synonym: "(2S)-2-azanyl-6-[[(2S)-4-(6-methoxynaphthalen-2-yl)-4-oxo-butan-2-yl]amino]hexanoic acid" BROAD []
synonym: "N~6~-[(2S)-4-(6-methoxynaphthalen-2-yl)-4-oxobutan-2-yl]-L-lysine" BROAD []
synonym: "pdb-ccd: LLZ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: COc1ccc2c(c1)ccc(c2)C(=O)C[C@@H]([NH2+]CCCC[C@@H](C(=O)[O-])[NH3+])C
l_bond_atoms: N30-1
l_displaced_atoms: H30
l_displaced_atoms: H30+1
r_bond_atoms: C27
r_displaced_atoms: O29-1

[Term]
id: BpForms:protein:LME
name: (2s,3r)-2-azanyl-3-methyl-pentanedioic acid
synonym: "(2S,3R)-2-azanyl-3-methyl-pentanedioic acid" BROAD []
synonym: "(3R)-3-methyl-L-glutamic acid" BROAD []
synonym: "E" BROAD []
synonym: "pdb-ccd: LME" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: [O-]C(=O)C[C@H]([C@@H](C(=O)[O-])[NH3+])C
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:LMQ
name: (3s)-3-methyl-l-glutamine
synonym: "(2S,3S)-2,5-diamino-3-methyl-5-oxo-pentanoic acid" BROAD []
synonym: "(3S)-3-methyl-L-glutamine" BROAD []
synonym: "Q" BROAD []
synonym: "pdb-ccd: LMQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Q ! L-glutamine
structure: NC(=O)C[C@@H]([C@@H](C(=O)[O-])[NH3+])C
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:LNE
name: n-ethyl-l-leucinamide
synonym: "(2S)-2-azanyl-N-ethyl-4-methyl-pentanamide" BROAD []
synonym: "N-ethyl-L-leucinamide" BROAD []
synonym: "pdb-ccd: LNE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: CCNC(=O)[C@H](CC(C)C)[NH3+]
l_bond_atoms: N3
l_displaced_atoms: H3

[Term]
id: BpForms:protein:LNM
name: n-methyl-l-leucinamide
synonym: "(2S)-2-azanyl-N,4-dimethyl-pentanamide" BROAD []
synonym: "N-methyl-L-leucinamide" BROAD []
synonym: "pdb-ccd: LNM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: CNC(=O)[C@H](CC(C)C)[NH3+]
l_bond_atoms: N2
l_displaced_atoms: H2

[Term]
id: BpForms:protein:LP6
name: 6-piperidin-1-yl-l-norleucine
synonym: "(2S)-2-amino-6-piperidin-1-yl-hexanoic acid" BROAD []
synonym: "6-piperidin-1-yl-L-norleucine" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: LP6" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)[C@H](CCCC[NH+]1CCCCC1)[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:LPG
name: l-propargylglycine
synonym: "(2S)-2-aminobut-3-ynoic acid" BROAD []
synonym: "G" BROAD []
synonym: "pdb-ccd: LPG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])C#C
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:LPH
name: l-propargylglycine
synonym: "(2S)-2-aminopent-4-ynoic acid" BROAD []
synonym: "(2S)-2-azanylpent-4-ynoic acid" BROAD []
synonym: "pdb-ccd: LPH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])CC#C
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:LPL
name: leu-hydroxyethylene-leu
synonym: "(2R,4S,5S)-5-amino-4-hydroxy-7-methyl-2-(2-methylpropyl)octanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: LPL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CC(C[C@@H]([C@H](C[C@H](C(=O)[O-])CC(C)C)O)[NH3+])C
l_bond_atoms: N19-1
l_displaced_atoms: H19
l_displaced_atoms: H19+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:LPS
name: o-{hydroxy[((2r)-2-hydroxy-3-{[(1s)-1-hydroxypentadecyl]oxy}propyl)oxy]phosphoryl}-l-serine
synonym: "(2S)-2-amino-3-[hydroxy-[(2R)-2-hydroxy-3-(1-hydroxypentadecoxy)propoxy]phosphoryl]oxy-propanoic acid" BROAD []
synonym: "O-[(R)-hydroxy{[(2R)-2-hydroxy-3-{[(1R)-1-hydroxypentadecyl]oxy}propyl]oxy}phosphoryl]-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: LPS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: CCCCCCCCCCCCCCC(OC[C@H](COP(=O)(OC[C@@H](C(=O)[O-])[NH3+])[O-])O)O
l_bond_atoms: N31-1
l_displaced_atoms: H31
l_displaced_atoms: H31+1
r_bond_atoms: C28
r_displaced_atoms: O30-1

[Term]
id: BpForms:protein:LRK
name: (2s)-2-azanyl-6-[[(2r,4r)-1,4-bis(oxidanyl)-3-oxidanylidene-5-phosphonooxy-pentan-2-yl]amino]hexanoic acid
synonym: "(2S)-2-amino-6-{[(2R,4R)-1,4-dihydroxy-3-oxo-5-(phosphonooxy)pentan-2-yl]amino}hexanoic acid (non-preferred name)" BROAD []
synonym: "(2S)-2-azanyl-6-[[(2R,4R)-1,4-bis(oxidanyl)-3-oxidanylidene-5-phosphonooxy-pentan-2-yl]amino]hexanoic acid" BROAD []
synonym: "pdb-ccd: LRK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: OC[C@H](C(=O)[C@@H](COP(=O)([O-])[O-])O)[NH2+]CCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N28-1
l_displaced_atoms: H28
l_displaced_atoms: H28+1
r_bond_atoms: C25
r_displaced_atoms: O27-1

[Term]
id: BpForms:protein:LSO
name: (z)-n~6~-(3-carboxy-1-{[(4-carboxy-2-oxobutyl)sulfonyl]methyl}propylidene)-l-lysine
synonym: "(2S)-2-amino-6-[[5-hydroxy-1-(5-hydroxy-2,5-dioxo-pentyl)sulfonyl-5-oxo-pentan-2-ylidene]amino]hexanoic acid" BROAD []
synonym: "(E)-N~6~-(3-carboxy-1-{[(4-carboxy-2-oxobutyl)sulfonyl]methyl}propylidene)-L-lysine" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: LSO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)CC/C(=N\CCCC[C@@H](C(=O)[O-])[NH3+])/CS(=O)(=O)CC(=O)CCC(=O)[O-]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:LTA
name: 4,8-diamino-3-hydroxy-octanoic acid ethyl ester
synonym: "X" BROAD []
synonym: "ethyl (3S,4S)-4,8-diamino-3-hydroxy-octanoate" BROAD []
synonym: "ethyl (3S,4S)-4,8-diamino-3-hydroxyoctanoate" BROAD []
synonym: "pdb-ccd: LTA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CCOC(=O)C[C@@H]([C@H](CCCC[NH3+])[NH3+])O
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1

[Term]
id: BpForms:protein:LVG
name: l-vinylglycine
synonym: "(2S)-2-aminobut-3-enoic acid" BROAD []
synonym: "G" BROAD []
synonym: "pdb-ccd: LVG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])C=C
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:LVN
name: (3s)-4-oxo-l-valine
synonym: "(2S,3S)-2-azanyl-3-methyl-4-oxo-butanoic acid" BROAD []
synonym: "V" BROAD []
synonym: "pdb-ccd: LVN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:V ! L-valine
structure: O=C[C@H]([C@@H](C(=O)[O-])[NH3+])C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:LWY
name: 1-[(r)-hydroxy(methyl)phosphoryl]-l-proline
synonym: "(2S)-1-[hydroxy(methyl)phosphoryl]pyrrolidine-2-carboxylic acid" BROAD []
synonym: "pdb-ccd: LWY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [O-]C(=O)[C@@H]1CCCN1P(=O)(C)[O-]
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:LYF
name: (2e,4s)-2-{[(5s)-5-amino-5-carboxypentyl]imino}-4-hydroxyheptanedioic acid
synonym: "(2E,4S)-2-[(5S)-5-azanyl-6-oxidanyl-6-oxidanylidene-hexyl]imino-4-oxidanyl-heptanedioic acid" BROAD []
synonym: "(2E,4S)-2-{[(5S)-5-amino-5-carboxypentyl]imino}-4-hydroxyheptanedioic acid" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: LYF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O[C@H](C/C(=[NH+]\CCCC[C@@H](C(=O)[O-])[NH3+])/C(=O)[O-])CCC(=O)[O-]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:LYH
name: 3,4 ene-lysine
synonym: "(2S,3E)-2,6-diaminohex-3-enoic acid" BROAD []
synonym: "(E,2S)-2,6-bis(azanyl)hex-3-enoic acid" BROAD []
synonym: "pdb-ccd: LYH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]CC/C=C/[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:LYO
name: 4-hydroxy-lysine
synonym: "(2S)-2,6-bis(azanyl)-4-hydroxy-hexanoic acid" BROAD []
synonym: "(4S)-4-hydroxy-L-lysine" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: LYO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)[C@@H]([NH3+])CC(CC[NH3+])O
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:LYU
name: n~6~-(4-methylpentyl)-l-lysine
synonym: "(2S)-2-azanyl-6-(4-methylpentylamino)hexanoic acid" BROAD []
synonym: "N~6~-(4-methylpentyl)-L-lysine" BROAD []
synonym: "pdb-ccd: LYU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: CC(CCC[NH2+]CCCC[C@@H](C(=O)[O-])[NH3+])C
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C15
r_displaced_atoms: O17-1

[Term]
id: BpForms:protein:LYV
name: o-phosphono-l-seryl-n-[(3s)-3-amino-3-carboxypropyl]glycinamide
synonym: "(2S)-2-azanyl-4-[2-[[(2S)-2-azanyl-3-phosphonooxy-propanoyl]amino]ethanoylamino]butanoic acid" BROAD []
synonym: "O-phosphono-L-seryl-N-[(3S)-3-amino-3-carboxypropyl]glycinamide" BROAD []
synonym: "pdb-ccd: LYV" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: O=C(CNC(=O)[C@H](COP(=O)([O-])[O-])[NH3+])NCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N27-1
l_displaced_atoms: H27
l_displaced_atoms: H27+1
r_bond_atoms: C24
r_displaced_atoms: O26-1

[Term]
id: BpForms:protein:LYX
name: n''-(2-coenzyme a)-propanoyl-lysine
synonym: "(2S)-2-amino-6-[[(2S)-2-[2-[3-[[(2R)-4-[[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-4-hydroxy-3-phosphonooxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl]oxy-hydroxy-phosphoryl]oxy-2-hydroxy-3,3-dimethyl-butanoyl]amino]propanoylamino]ethylsulfanyl]propanoyl]amino]hexanoic acid" BROAD []
synonym: "(3S,5R,9R,19S,26S)-26-amino-1-[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-4-hydroxy-3-(phosphonooxy)tetrahydrofuran-2-yl]-3,5,9-trihydroxy-8,8,19-trimethyl-10,14,20-trioxo-2,4,6-trioxa-18-thia-11,15,21-triaza-3,5-diphosphaheptacosan-27-oic acid 3,5-dioxide (non-preferred name)" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: LYX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O=C(NCCS[C@H](C(=O)NCCCC[C@@H](C(=O)[O-])[NH3+])C)CCNC(=O)[C@@H](C(COP(=O)(OP(=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1OP(=O)([O-])[O-])O)n1cnc2c1ncnc2N)[O-])[O-])(C)C)O
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C18
r_displaced_atoms: O20-1

[Term]
id: BpForms:protein:M0H
name: s-(hydroxymethyl)-l-cysteine
synonym: "(2R)-2-amino-3-(hydroxymethylsulfanyl)propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-(hydroxymethyl)-L-cysteine" BROAD []
synonym: "pdb-ccd: M0H" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@@H]([NH3+])CSCO
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:M2L
name: (2r)-2-amino-3-(2-dimethylaminoethylsulfanyl)propanoic acid
synonym: "(2R)-2-amino-3-(2-dimethylaminoethylsulfanyl)propanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "S-[2-(dimethylamino)ethyl]-L-cysteine" BROAD []
synonym: "pdb-ccd: M2L" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: C[NH+](CCSC[C@@H](C(=O)[O-])[NH3+])C
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:M2S
name: 3-{[(r)-methylsulfinyl]methyl}-l-valine
synonym: "(2S)-2-amino-3,3-dimethyl-4-[(R)-methylsulfinyl]butanoic acid" BROAD []
synonym: "3-{[(R)-methylsulfinyl]methyl}-L-valine" BROAD []
synonym: "M" BROAD []
synonym: "pdb-ccd: M2S" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: C[S@@](=O)CC([C@@H](C(=O)[O-])[NH3+])(C)C
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:M3R
name: methyl phosphonated l-arginine
synonym: "(2S)-5-carbamimidamido-2-[(hydroxy-methyl-phosphoryl)amino]pentanoic acid" BROAD []
synonym: "N~2~-[(R)-hydroxy(methyl)phosphoryl]-L-arginine" BROAD []
synonym: "pdb-ccd: M3R" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)[C@@H](NP(=O)(C)[O-])CCCNC(=[NH2+])N
l_bond_atoms: N6
l_displaced_atoms: H6
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:MA
name: methyl l-alaninate
synonym: "A" BROAD []
synonym: "methyl (2S)-2-aminopropanoate" BROAD []
synonym: "methyl L-alaninate" BROAD []
synonym: "pdb-ccd: MA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: COC(=O)[C@@H]([NH3+])C
l_bond_atoms: N7-1
l_displaced_atoms: H7
l_displaced_atoms: H7+1

[Term]
id: BpForms:protein:MBQ
name: 2-hydroxy-5-({1-[(4-methylphenoxy)methyl]-3-oxoprop-1-enyl}amino)-l-tyrosine
synonym: "(2S)-2-amino-3-[2,4-dihydroxy-5-[[(E)-1-(4-methylphenoxy)-4-oxo-but-2-en-2-yl]amino]phenyl]propanoic acid" BROAD []
synonym: "2-hydroxy-5-({(1E)-1-[(4-methylphenoxy)methyl]-3-oxoprop-1-en-1-yl}amino)-L-tyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: MBQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: O=C/C=C(/Nc1cc(C[C@@H](C(=O)[O-])[NH3+])c(cc1O)O)\COc1ccc(cc1)C
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:MCG
name: (s)-(alpha)-methyl-4-carboxyphenylglycine
synonym: "4-[(1S)-1-amino-1-carboxyethyl]benzoic acid" BROAD []
synonym: "4-[(2S)-2-amino-1-hydroxy-1-oxo-propan-2-yl]benzoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: MCG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)c1ccc(cc1)[C@@](C(=O)[O-])([NH3+])C
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:MCS
name: malonyl cysteine
synonym: "(2R)-2-amino-3-(3-hydroxy-3-oxo-propanoyl)sulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-(carboxyacetyl)-L-cysteine" BROAD []
synonym: "pdb-ccd: MCS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)CC(=O)SC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:MD3
name: n-(carboxycarbonyl)-s-(naphthalen-2-ylmethyl)-l-cysteine
synonym: "(2R)-2-(carboxycarbonylamino)-3-(naphthalen-2-ylmethylsulfanyl)propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "N-(carboxycarbonyl)-S-(naphthalen-2-ylmethyl)-L-cysteine" BROAD []
synonym: "pdb-ccd: MD3" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@@H](NC(=O)C(=O)[O-])CSCc1ccc2c(c1)cccc2
l_bond_atoms: N6
l_displaced_atoms: H6
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:MD5
name: n-(carboxycarbonyl)-s-(3-nitrobenzyl)-l-cysteine
synonym: "(2R)-2-(carboxycarbonylamino)-3-[(3-nitrophenyl)methylsulfanyl]propanoic acid" BROAD []
synonym: "N-(carboxycarbonyl)-S-(3-nitrobenzyl)-L-cysteine" BROAD []
synonym: "pdb-ccd: MD5" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@@H](NC(=O)C(=O)[O-])CSCc1cccc(c1)[N+](=O)[O-]
l_bond_atoms: N6
l_displaced_atoms: H6
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:MDF
name: meta, meta'-di-hydroxy-phenylalanine
synonym: "Y" BROAD []
synonym: "methyl (2S)-2-amino-2-(3,5-dihydroxyphenyl)ethanoate" BROAD []
synonym: "methyl (2S)-amino(3,5-dihydroxyphenyl)ethanoate" BROAD []
synonym: "pdb-ccd: MDF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: COC(=O)[C@H](c1cc(O)cc(c1)O)N
l_bond_atoms: N15
l_displaced_atoms: H15

[Term]
id: BpForms:protein:MDO
name: {2-[(1s)-1-aminoethyl]-4-methylidene-5-oxo-4,5-dihydro-1h-imidazol-1-yl}acetic acid
synonym: "2-[2-[(1S)-1-azanylethyl]-4-methylidene-5-oxidanylidene-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "ASG" BROAD []
synonym: "pdb-ccd: MDO" EXACT []
synonym: "{2-[(1S)-1-aminoethyl]-4-methylidene-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=O)C(=C)N=C1[C@@H]([NH3+])C
l_bond_atoms: N10
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:ME0
name: hydroxy-l-methionine
synonym: "(2S)-2-azanyl-4-(hydroxymethylsulfanyl)butanoic acid" BROAD []
synonym: "hydroxy-L-methionine" BROAD []
synonym: "pdb-ccd: ME0" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: OCSCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:MEG
name: (2s,3s)-2-azanyl-3-methyl-pentanedioic acid
synonym: "(2S,3S)-2-azanyl-3-methyl-pentanedioic acid" BROAD []
synonym: "(3S)-3-methyl-L-glutamic acid" BROAD []
synonym: "E" BROAD []
synonym: "pdb-ccd: MEG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: [O-]C(=O)C[C@@H]([C@@H](C(=O)[O-])[NH3+])C
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:MF3
name: 2-amino-4-trifluoromethylsulfanyl-butyric acid
synonym: "(2S)-2-amino-4-(trifluoromethylsulfanyl)butanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: MF3" EXACT []
synonym: "trifluoro-L-methionine" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](CCSC(F)(F)F)[NH3+]
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:MFC
name: 5-[1-(3-fluoro-4-hydroxy-phenyl)-meth-(z)-ylidene]-3,5-dihydro-imidazol-4-one
synonym: "2-[(4Z)-2-[(1R,2R)-1-amino-2-hydroxy-propyl]-4-[(3-fluoro-4-hydroxy-phenyl)methylidene]-5-oxo-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "GYG" BROAD []
synonym: "pdb-ccd: MFC" EXACT []
synonym: "{(4Z)-2-[(1R,2R)-1-amino-2-hydroxypropyl]-4-[(3-fluoro-4-hydroxyphenyl)methylidene]-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=O)/C(=C/c2ccc(c(c2)F)O)/N=C1[C@H]([C@H](O)C)[NH3+]
l_bond_atoms: N18
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:MGG
name: 2-(2-carboxy-acetylamino)-5-guanidino-pentanoic acid
synonym: "R" BROAD []
synonym: "[amino-[[(4R)-5-hydroxy-4-[(3-hydroxy-3-oxo-propanoyl)amino]-5-oxo-pentyl]amino]methylidene]azanium" BROAD []
synonym: "amino({(4R)-4-carboxy-4-[(carboxyacetyl)amino]butyl}amino)methaniminium" BROAD []
synonym: "pdb-ccd: MGG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: O=C(N[C@@H](C(=O)[O-])CCCNC(=[NH2+])N)CC(=O)[O-]
l_bond_atoms: N3
l_displaced_atoms: H3
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:MH8
name: (2s)-2-amino-2-methylhept-6-enoic acid
synonym: "(2S)-2-amino-2-methylhept-6-enoic acid" BROAD []
synonym: "(2S)-2-azanyl-2-methyl-hept-6-enoic acid" BROAD []
synonym: "pdb-ccd: MH8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: C=CCCC[C@@](C(=O)[O-])([NH3+])C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:MHE
name: 5,5-dimethyl-2-oxohexanoic acid
synonym: "5,5-dimethyl-2-oxo-hexanoic acid" BROAD []
synonym: "5,5-dimethyl-2-oxohexanoic acid" BROAD []
synonym: "pdb-ccd: MHE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: O=C(C(=O)[O-])CCC(C)(C)C
r_bond_atoms: C3
r_displaced_atoms: O5-1

[Term]
id: BpForms:protein:MHL
name: n-methyl-4-hydroxy-leucine
synonym: "(2S)-4-hydroxy-4-methyl-2-methylamino-pentanoic acid" BROAD []
synonym: "4-hydroxy-N-methyl-L-leucine" BROAD []
synonym: "L" BROAD []
synonym: "pdb-ccd: MHL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: C[NH2+][C@H](C(=O)[O-])CC(O)(C)C
l_bond_atoms: N2-1
l_displaced_atoms: H2
l_displaced_atoms: H2+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:MHO
name: s-oxymethionine
synonym: "(2S)-2-amino-4-[(S)-methylsulfinyl]butanoic acid" BROAD []
synonym: "M" BROAD []
synonym: "pdb-ccd: MHO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: C[S@](=O)CC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:MHU
name: 4-n,n-(dimethylamino)-l-phenylalanine
synonym: "(2S)-3-(4-dimethylaminophenyl)-2-methylamino-propanoic acid" BROAD []
synonym: "4-(dimethylamino)-N-methyl-L-phenylalanine" BROAD []
synonym: "pdb-ccd: MHU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: C[NH2+][C@H](C(=O)[O-])Cc1ccc(cc1)N(C)C
l_bond_atoms: N2-1
l_displaced_atoms: H2
l_displaced_atoms: H2+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:MHV
name: 4-oxo-l-pipecolic acid
synonym: "(2S)-4-oxopiperidine-2-carboxylic acid" BROAD []
synonym: "pdb-ccd: MHV" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: O=C1CC[NH2+][C@@H](C1)C(=O)[O-]
l_bond_atoms: N5-1
l_displaced_atoms: H5
l_displaced_atoms: H5+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:MIR
name: monoethylphosphorylserine
synonym: "(2S)-2-amino-3-(ethoxy-hydroxy-phosphoryl)oxy-propanoic acid" BROAD []
synonym: "O-[(S)-ethoxy(hydroxy)phosphoryl]-L-serine" BROAD []
synonym: "pdb-ccd: MIR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [O-]P(=O)(OCC)OC[C@H]([NH3+])C(=O)[O-]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C15
r_displaced_atoms: O17-1

[Term]
id: BpForms:protein:MIS
name: monoisopropylphosphorylserine
synonym: "(2S)-2-amino-3-(hydroxy-propan-2-yloxy-phosphoryl)oxy-propanoic acid" BROAD []
synonym: "O-[(R)-hydroxy(1-methylethoxy)phosphoryl]-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: MIS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [NH3+][C@H](C(=O)[O-])COP(=O)(OC(C)C)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:MK8
name: 2-methyl-l-norleucine
synonym: "(2S)-2-azanyl-2-methyl-hexanoic acid" BROAD []
synonym: "2-methyl-L-norleucine" BROAD []
synonym: "L" BROAD []
synonym: "pdb-ccd: MK8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: [O-]C(=O)[C@@]([NH3+])(CCCC)C
l_bond_atoms: N5-1
l_displaced_atoms: H5
l_displaced_atoms: H5+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:MKD
name: (2s)-2-amino-2-methyloctanoic acid
synonym: "(2S)-2-amino-2-methyloctanoic acid" BROAD []
synonym: "(2S)-2-azanyl-2-methyl-octanoic acid" BROAD []
synonym: "pdb-ccd: MKD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CCCCCC[C@@](C(=O)[O-])([NH3+])C
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:ML3
name: 2-{[(2r)-2-amino-2-carboxyethyl]sulfanyl}-n,n,n-trimethylethanaminium
synonym: "2-[(2R)-2-amino-3-hydroxy-3-oxo-propyl]sulfanylethyl-trimethyl-azanium" BROAD []
synonym: "2-{[(2R)-2-amino-2-carboxyethyl]sulfanyl}-N,N,N-trimethylethanaminium" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: ML3" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)[C@H](CSCC[N+](C)(C)C)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:MMO
name: n~2~-methyl-l-arginine
synonym: "(2S)-5-carbamimidamido-2-(methylamino)pentanoic acid" BROAD []
synonym: "N~2~-methyl-L-arginine" BROAD []
synonym: "R" BROAD []
synonym: "pdb-ccd: MMO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: C[NH2+][C@H](C(=O)[O-])CCCNC(=[NH2+])N
l_bond_atoms: N2-1
l_displaced_atoms: H2
l_displaced_atoms: H2+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:MNL
name: 4,n-dimethylnorleucine
synonym: "(2S,4R)-4-methyl-2-methylamino-hexanoic acid" BROAD []
synonym: "(4R)-N,4-dimethyl-L-norleucine" BROAD []
synonym: "L" BROAD []
synonym: "pdb-ccd: MNL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: CC[C@H](C[C@@H](C(=O)[O-])[NH2+]C)C
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:MOD
name: l-methionyl adenylate
synonym: "5'-O-[(S)-{[(2S)-2-amino-4-(methylsulfanyl)butyl]oxy}(hydroxy)phosphoryl]adenosine" BROAD []
synonym: "X" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(6-amino-1,4-dihydropurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl [(2S)-2-amino-4-methylsulfanyl-butyl] hydrogen phosphate" BROAD []
synonym: "pdb-ccd: MOD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CSCC[C@@H](CO[P@@](=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)N1C=NC2=C(NC=NC12)N)[O-])[NH3+]
l_bond_atoms: N26

[Term]
id: BpForms:protein:MP4
name: (2s)-amino(3,5-dihydroxy-4-methylphenyl)ethanoic acid
synonym: "(2S)-2-azanyl-2-[4-methyl-3,5-bis(oxidanyl)phenyl]ethanoic acid" BROAD []
synonym: "(2S)-amino(3,5-dihydroxy-4-methylphenyl)ethanoic acid" BROAD []
synonym: "pdb-ccd: MP4" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@@H](c1cc(O)c(c(c1)O)C)C(=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C16
r_displaced_atoms: O18-1

[Term]
id: BpForms:protein:MP8
name: (4r)-4-methyl-l-proline
synonym: "(2S,4R)-4-methylpyrrolidine-2-carboxylic acid" BROAD []
synonym: "(4R)-4-methyl-L-proline" BROAD []
synonym: "P" BROAD []
synonym: "pdb-ccd: MP8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [O-]C(=O)[C@@H]1C[C@H](C[NH2+]1)C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:MPH
name: (1-amino-3-methylsulfanyl-propyl)-phosphonic acid
synonym: "X" BROAD []
synonym: "[(1R)-1-amino-3-(methylsulfanyl)propyl]phosphonic acid" BROAD []
synonym: "[(1R)-1-amino-3-methylsulfanyl-propyl]phosphonic acid" BROAD []
synonym: "pdb-ccd: MPH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CSCC[C@@H](P(=O)([O-])[O-])[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1

[Term]
id: BpForms:protein:MPJ
name: (1-amino-3-methylsulfanyl-propyl)-phosphinic acid
synonym: "(R)-[(1R)-1-amino-3-(methylsulfanyl)propyl]phosphinic acid" BROAD []
synonym: "X" BROAD []
synonym: "[(1R)-1-amino-3-methylsulfanyl-propyl]phosphinic acid" BROAD []
synonym: "pdb-ccd: MPJ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]P(=O)[C@@H]([NH3+])CCSC
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1

[Term]
id: BpForms:protein:MPQ
name: n-methyl-alpha-phenyl-glycine
synonym: "(2S)-(methylamino)(phenyl)ethanoic acid" BROAD []
synonym: "(2S)-2-(methylamino)-2-phenyl-ethanoic acid" BROAD []
synonym: "G" BROAD []
synonym: "pdb-ccd: MPQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](c1ccccc1)[NH2+]C
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:MSA
name: (2-s-methyl) sarcosine
synonym: "(2R)-(methylamino)(methylsulfanyl)ethanoic acid" BROAD []
synonym: "(2R)-2-methylamino-2-methylsulfanyl-ethanoic acid" BROAD []
synonym: "G" BROAD []
synonym: "pdb-ccd: MSA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CS[C@H](C(=O)[O-])[NH2+]C
l_bond_atoms: N8-1
l_displaced_atoms: H8
l_displaced_atoms: H8+1
r_bond_atoms: C5
r_displaced_atoms: O7-1

[Term]
id: BpForms:protein:MSE
name: selenomethionine
synonym: "(2S)-2-amino-4-(methylselanyl)butanoic acid" BROAD []
synonym: "(2S)-2-amino-4-methylselanyl-butanoic acid" BROAD []
synonym: "M" BROAD []
synonym: "pdb-ccd: MSE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: [O-]C(=O)[C@@H]([NH3+])CC[Se]C
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:MSL
name: (2s)-2-amino-4-(methylsulfonimidoyl)butanoic acid
synonym: "(2S)-2-amino-4-(S-methylsulfonimidoyl)butanoic acid" BROAD []
synonym: "(2S)-2-amino-4-(methylsulfonimidoyl)butanoic acid" BROAD []
synonym: "M" BROAD []
synonym: "pdb-ccd: MSL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: [O-]C(=O)[C@H](CC[S@](=O)(=N)C)[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:MSO
name: selenomethionine selenoxide
synonym: "(2S)-2-amino-4-(methylseleninyl)butanoic acid" BROAD []
synonym: "(2S)-2-amino-4-[(R)-methylseleninyl]butanoic acid" BROAD []
synonym: "M" BROAD []
synonym: "pdb-ccd: MSO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: C[Se](=O)CC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:MSP
name: 5'-o-[(l-methionyl)-sulphamoyl]adenosine
synonym: "5'-O-(L-methionylsulfamoyl)adenosine" BROAD []
synonym: "X" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(6-amino-1,4-dihydropurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl N-[(2S)-2-amino-4-methylsulfanyl-butanoyl]sulfamate" BROAD []
synonym: "pdb-ccd: MSP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CSCC[C@@H](C(=O)[N-]S(=O)(=O)OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)N1C=NC2=C(NC=NC12)N)N
l_bond_atoms: N28

[Term]
id: BpForms:protein:MT2
name: [(3s)-3-amino-3-carboxypropyl](ethyl)methylsulfonium
synonym: "M" BROAD []
synonym: "[(3S)-3-amino-3-carboxypropyl](ethyl)methylsulfonium" BROAD []
synonym: "[(3S)-3-amino-4-hydroxy-4-oxo-butyl]-ethyl-methyl-sulfanium" BROAD []
synonym: "pdb-ccd: MT2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:M ! L-methionine
structure: CC[S@+](CC[C@@H](C(=O)[O-])[NH3+])C
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:MTY
name: meta-tyrosine
synonym: "(2S)-2-amino-3-(3-hydroxyphenyl)propanoic acid" BROAD []
synonym: "3-hydroxy-L-phenylalanine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: MTY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@H](Cc1cccc(c1)O)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:MVA
name: n-methylvaline
synonym: "(2S)-3-methyl-2-(methylamino)butanoic acid" BROAD []
synonym: "N-methyl-L-valine" BROAD []
synonym: "V" BROAD []
synonym: "pdb-ccd: MVA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:V ! L-valine
structure: C[NH2+][C@H](C(=O)[O-])C(C)C
l_bond_atoms: N2-1
l_displaced_atoms: H2
l_displaced_atoms: H2+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:MYN
name: (2s)-amino[(4r)-2-amino-1,4,5,6-tetrahydropyrimidin-4-yl]ethanoic acid
synonym: "(2S)-2-azanyl-2-[(4R)-2-azanyl-1,4,5,6-tetrahydropyrimidin-4-yl]ethanoic acid" BROAD []
synonym: "pdb-ccd: MYN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: [O-]C(=O)[C@H]([C@H]1CCNC(=[NH+]1)N)N
l_bond_atoms: N15
l_displaced_atoms: H15
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:N10
name: o-[(hexylamino)carbonyl]-l-serine
synonym: "(2S)-2-amino-3-(hexylcarbamoyloxy)propanoic acid" BROAD []
synonym: "O-(hexylcarbamoyl)-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: N10" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: CCCCCCNC(=O)OC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:N2C
name: n,s-dimethylcysteine
synonym: "(2R)-2-methylamino-3-methylsulfanyl-propanoic acid" BROAD []
synonym: "N,S-dimethyl-L-cysteine" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: N2C" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CSC[C@@H](C(=O)[O-])[NH2+]C
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:N7P
name: 1-acetyl-l-proline
synonym: "(2~{S})-1-ethanoylpyrrolidine-2-carboxylic acid" BROAD []
synonym: "1-acetyl-L-proline" BROAD []
synonym: "P" BROAD []
synonym: "pdb-ccd: N7P" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: CC(=O)N1CCC[C@H]1C(=O)[O-]
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:N80
name: 1-ethenyl-l-proline
synonym: "(2S)-1-ethenylpyrrolidine-2-carboxylic acid" BROAD []
synonym: "1-ethenyl-L-proline" BROAD []
synonym: "P" BROAD []
synonym: "pdb-ccd: N80" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: C=C[NH+]1CCC[C@H]1C(=O)[O-]
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:NA8
name: (1s)-1-carboxy-2-naphthalen-2-ylethanaminium
synonym: "(1S)-1-carboxy-2-naphthalen-2-ylethanaminium" BROAD []
synonym: "A" BROAD []
synonym: "[(2S)-1-hydroxy-3-naphthalen-2-yl-1-oxo-propan-2-yl]azanium" BROAD []
synonym: "pdb-ccd: NA8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@H](Cc1ccc2c(c1)cccc2)[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:NAL
name: beta-(2-naphthyl)-alanine
synonym: "(2S)-2-amino-3-(naphthalen-2-yl)propanoic acid (non-preferred name)" BROAD []
synonym: "(2S)-2-azanyl-3-naphthalen-2-yl-propanoic acid" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: NAL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@H](Cc1ccc2c(c1)cccc2)[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:NB8
name: 5'-o-[(r)-{[(2s)-2-amino-4-(hydroxyamino)-4-oxobutanoyl]oxy}(hydroxy)phosphoryl]adenosine
synonym: "5'-O-[(R)-{[(2S)-2-amino-4-(hydroxyamino)-4-oxobutanoyl]oxy}(hydroxy)phosphoryl]adenosine" BROAD []
synonym: "N" BROAD []
synonym: "[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl] (2S)-2-amino-4-(hydroxyamino)-4-oxo-butanoate" BROAD []
synonym: "pdb-ccd: NB8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: ONC(=O)C[C@@H](C(=O)OP(=O)(OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1ncnc2N)[O-])N
l_bond_atoms: N2
l_displaced_atoms: H2

[Term]
id: BpForms:protein:NBQ
name: 2-hydroxy-5-({1-[(2-naphthyloxy)methyl]-3-oxoprop-1-enyl}amino)tyrosine
synonym: "(2S)-2-amino-3-[2,4-dihydroxy-5-[[(E)-1-naphthalen-2-yloxy-4-oxo-but-2-en-2-yl]amino]phenyl]propanoic acid" BROAD []
synonym: "2-hydroxy-5-({(1E)-1-[(naphthalen-2-yloxy)methyl]-3-oxoprop-1-en-1-yl}amino)-L-tyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: NBQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: O=C/C=C(/Nc1cc(C[C@@H](C(=O)[O-])[NH3+])c(cc1O)O)\COc1ccc2c(c1)cccc2
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:NC1
name: nitrocefin acyl-serine
synonym: "(2R)-2-[(1R)-2-[(2S)-2-amino-3-oxido-3-oxo-propoxy]-2-oxo-1-(2-thiophen-2-ylethanoylamino)ethyl]-5-[(E)-2-(2,4-dinitrophenyl)ethenyl]-3,6-dihydro-2H-1,3-thiazine-4-carboxylate" BROAD []
synonym: "(2R)-2-{(1R)-2-[(2S)-2-amino-2-carboxylatoethoxy]-2-oxo-1-[(thiophen-2-ylacetyl)amino]ethyl}-5-[(E)-2-(2,4-dinitrophenyl)ethenyl]-3,6-dihydro-2H-1,3-thiazine-4-carboxylate" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: NC1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: O=C(N[C@@H]([C@H]1SCC(=C([NH2+]1)C(=O)[O-])/C=C/c1ccc(cc1[N+](=O)[O-])[N+](=O)[O-])C(=O)OC[C@@H](C(=O)[O-])[NH3+])Cc1cccs1
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C15
r_displaced_atoms: O17-1

[Term]
id: BpForms:protein:NCB
name: n-carbamoyl-alanine
synonym: "(2R)-2-(aminocarbonylamino)propanoic acid" BROAD []
synonym: "A" BROAD []
synonym: "N-carbamoyl-D-alanine" BROAD []
synonym: "pdb-ccd: NCB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: NC(=O)N[C@@H](C(=O)[O-])C
l_bond_atoms: N4
l_displaced_atoms: H4
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:NCY
name: n-methylcysteine
synonym: "(2R)-2-methylamino-3-sulfanyl-propanoic acid" BROAD []
synonym: "N-methyl-L-cysteine" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: NCY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH2+]C)CS
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:NKS
name: n-(3-{[2-(4-chlorophenyl)-5-methyl-1,3-oxazol-4-yl]methoxy}benzyl)-n-[(4-methylphenoxy)carbonyl]glycine
synonym: "2-[[3-[[2-(4-chlorophenyl)-5-methyl-1,3-oxazol-4-yl]methoxy]phenyl]methyl-(4-methylphenoxy)carbonyl-amino]ethanoic acid" BROAD []
synonym: "N-(3-{[2-(4-chlorophenyl)-5-methyl-1,3-oxazol-4-yl]methoxy}benzyl)-N-[(4-methylphenoxy)carbonyl]glycine" BROAD []
synonym: "pdb-ccd: NKS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN(C(=O)Oc1ccc(cc1)C)Cc1cccc(c1)OCc1nc(oc1C)c1ccc(cc1)Cl
l_bond_atoms: N26
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:NLB
name: 6-(benzyloxy)-l-norleucine
synonym: "(2S)-2-azanyl-6-phenylmethoxy-hexanoic acid" BROAD []
synonym: "6-(benzyloxy)-L-norleucine" BROAD []
synonym: "pdb-ccd: NLB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: [O-]C(=O)[C@H](CCCCOCc1ccccc1)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:NLE
name: norleucine
synonym: "(2S)-2-aminohexanoic acid" BROAD []
synonym: "L" BROAD []
synonym: "L-norleucine" BROAD []
synonym: "pdb-ccd: NLE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: [O-]C(=O)[C@@H]([NH3+])CCCC
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:NLN
name: norleucine amide
synonym: "(2S)-2-aminohexanamide" BROAD []
synonym: "L" BROAD []
synonym: "L-norleucinamide" BROAD []
synonym: "pdb-ccd: NLN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: CCCC[C@H]([NH3+])C(=O)N
l_bond_atoms: N7-1
l_displaced_atoms: H7
l_displaced_atoms: H7+1

[Term]
id: BpForms:protein:NLO
name: o-methyl-l-norleucine
synonym: "L" BROAD []
synonym: "methyl (2S)-2-aminohexanoate" BROAD []
synonym: "methyl L-norleucinate" BROAD []
synonym: "pdb-ccd: NLO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: CCCC[C@@H](C(=O)OC)[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1

[Term]
id: BpForms:protein:NLP
name: (1-amino-pentyl)-phosphonic acid
synonym: "L" BROAD []
synonym: "[(1R)-1-aminopentyl]phosphonic acid" BROAD []
synonym: "pdb-ccd: NLP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: CCCC[C@@H](P(=O)([O-])[O-])[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1

[Term]
id: BpForms:protein:NLQ
name: n~2~-acetyl-l-glutamine
synonym: "(2S)-2-acetamido-5-amino-5-oxo-pentanoic acid" BROAD []
synonym: "N~2~-acetyl-L-glutamine" BROAD []
synonym: "Q" BROAD []
synonym: "pdb-ccd: NLQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Q ! L-glutamine
structure: NC(=O)CC[C@@H](C(=O)[O-])NC(=O)C
l_bond_atoms: N11
l_displaced_atoms: H11
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:NMC
name: n-cyclopropylmethyl glycine
synonym: "2-(cyclopropylmethylamino)ethanoic acid" BROAD []
synonym: "G" BROAD []
synonym: "N-(cyclopropylmethyl)glycine" BROAD []
synonym: "pdb-ccd: NMC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)C[NH2+]CC1CC1
l_bond_atoms: N5-1
l_displaced_atoms: H5
l_displaced_atoms: H5+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:NMM
name: (2s)-2-amino-5-[(n-methylcarbamimidoyl)amino]pentanoic acid
synonym: "(2S)-2-amino-5-[(N-methylcarbamimidoyl)amino]pentanoic acid" BROAD []
synonym: "N~5~-(N-methylcarbamimidoyl)-L-ornithine" BROAD []
synonym: "R" BROAD []
synonym: "pdb-ccd: NMM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: CNC(=[NH2+])NCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:NNH
name: nor-n-omega-hydroxy-l-arginine
synonym: "(2S)-2-amino-4-(N'-hydroxycarbamimidamido)butanoic acid" BROAD []
synonym: "(2S)-2-amino-4-[(N-hydroxycarbamimidoyl)amino]butanoic acid" BROAD []
synonym: "R" BROAD []
synonym: "pdb-ccd: NNH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: [O-]C(=O)[C@@H]([NH3+])CCNC(=[NH2+])NO
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:NOT
name: 6-azido-l-norleucine
synonym: "(2S)-2-amino-6-azido-hexanoic acid" BROAD []
synonym: "6-azido-L-norleucine" BROAD []
synonym: "pdb-ccd: NOT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: [N-]=[N+]=NCCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:NPH
name: cysteine-methylene-carbamoyl-1,10-phenanthroline
synonym: "(2R)-2-amino-3-[2-oxo-2-(1,10-phenanthrolin-5-ylamino)ethyl]sulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-[2-oxo-2-(1,10-phenanthrolin-5-ylamino)ethyl]-L-cysteine" BROAD []
synonym: "pdb-ccd: NPH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: O=C(Nc1cc2cccnc2c2c1cccn2)CSC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N26-1
l_displaced_atoms: H26
l_displaced_atoms: H26+1
r_bond_atoms: C23
r_displaced_atoms: O25-1

[Term]
id: BpForms:protein:NPI
name: (2s)-2-aminoheptanedioic acid
synonym: "(2S)-2-aminoheptanedioic acid" BROAD []
synonym: "(2S)-2-azanylheptanedioic acid" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: NPI" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)CCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:NRG
name: n-omega-nitro-l-arginine
synonym: "(2S)-2-amino-5-[(N-nitrocarbamimidoyl)amino]pentanoic acid" BROAD []
synonym: "N~5~-(N-nitrocarbamimidoyl)-L-ornithine" BROAD []
synonym: "pdb-ccd: NRG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-][N+](=O)NC(=[NH2+])NCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C15
r_displaced_atoms: O17-1

[Term]
id: BpForms:protein:NRP
name: {4-[(4-hydroxyphenyl)methylidene]-2-[(1e)-3-methylbutanimidoyl]-5-oxo-4,5-dihydro-1h-imidazol-1-yl}acetic acid
synonym: "2-[4-[(4-hydroxyphenyl)methylidene]-2-(3-methylbutanimidoyl)-5-oxo-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "LYG" BROAD []
synonym: "pdb-ccd: NRP" EXACT []
synonym: "{(4E)-4-(4-hydroxybenzylidene)-2-[(1E)-3-methylbutanimidoyl]-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CC(CC(=N)C1=NC(=Cc2ccc(cc2)O)C(=O)N1CC(=O)[O-])C
l_bond_atoms: N7
r_bond_atoms: C21
r_displaced_atoms: O23-1

[Term]
id: BpForms:protein:NSK
name: n-succinyl lysine
synonym: "(2S)-6-amino-2-[(4-hydroxy-4-oxo-butanoyl)amino]hexanoic acid" BROAD []
synonym: "N~2~-(3-carboxypropanoyl)-L-lysine" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: NSK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]CCCC[C@@H](C(=O)[O-])NC(=O)CCC(=O)[O-]
l_bond_atoms: N14
l_displaced_atoms: H14
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:NTR
name: meta-hydroxy beta nor-tyrosine
synonym: "(2R)-2-amino-2-(3,4-dihydroxyphenyl)ethanoic acid" BROAD []
synonym: "(2R)-amino(3,4-dihydroxyphenyl)ethanoic acid" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: NTR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@@H](c1ccc(c(c1)O)O)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:NVA
name: norvaline
synonym: "(2S)-2-aminopentanoic acid" BROAD []
synonym: "L-norvaline" BROAD []
synonym: "V" BROAD []
synonym: "pdb-ccd: NVA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:V ! L-valine
structure: [O-]C(=O)[C@@H]([NH3+])CCC
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:NWD
name: 3-(5-nitro-2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)-l-alanine
synonym: "(2S)-2-azanyl-3-[5-nitro-2,4-bis(oxidanylidene)pyrimidin-1-yl]propanoic acid" BROAD []
synonym: "3-(5-nitro-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-L-alanine" BROAD []
synonym: "pdb-ccd: NWD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@H](CN1CC([N+](=O)[O-])C(=O)[N-]C1=O)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:NYB
name: n-methyl-s-[(1r)-1-methylpropyl]-l-cysteine
synonym: "(2R)-3-[(2R)-butan-2-yl]sulfanyl-2-methylamino-propanoic acid" BROAD []
synonym: "N-methyl-S-[(1R)-1-methylpropyl]-L-cysteine" BROAD []
synonym: "pdb-ccd: NYB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: CC[C@H](SC[C@@H](C(=O)[O-])[NH2+]C)C
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:NYS
name: s-{5-[(1r)-2-amino-1-hydroxyethyl]-2,3-dihydroxyphenyl}-l-cysteine
synonym: "(2R)-2-amino-3-[5-[(1R)-2-amino-1-hydroxy-ethyl]-2,3-dihydroxy-phenyl]sulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-{5-[(1R)-2-amino-1-hydroxyethyl]-2,3-dihydroxyphenyl}-L-cysteine" BROAD []
synonym: "pdb-ccd: NYS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [NH3+]C[C@@H](c1cc(SC[C@@H](C(=O)[O-])[NH3+])c(c(c1)O)O)O
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C15
r_displaced_atoms: O17-1

[Term]
id: BpForms:protein:NZC
name: n-methylidene-l-threonine
synonym: "(2S,3R)-2-(methylamino)-3-oxidanyl-butanoic acid" BROAD []
synonym: "N-methyl-L-threonine" BROAD []
synonym: "T" BROAD []
synonym: "pdb-ccd: NZC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: C[NH2+][C@H](C(=O)[O-])[C@H](O)C
l_bond_atoms: N2-1
l_displaced_atoms: H2
l_displaced_atoms: H2+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:NZH
name: (2s)-2-amino-3-[1-(1h-tetraazol-5-yl)-1h-imidazol-4-yl]propanal
synonym: "(2S)-2-amino-3-[1-(1H-1,2,3,4-tetrazol-5-yl)imidazol-4-yl]propanal" BROAD []
synonym: "(2S)-2-amino-3-[1-(1H-tetrazol-5-yl)-1H-imidazol-4-yl]propanal" BROAD []
synonym: "H" BROAD []
synonym: "pdb-ccd: NZH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: [O-]C(=O)[C@H](Cc1ncn(c1)c1[n-]nnn1)[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:O12
name: n~5~-dodecanoyl-l-ornithine
synonym: "(2S)-2-amino-5-(dodecanoylamino)pentanoic acid" BROAD []
synonym: "N~5~-dodecanoyl-L-ornithine" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: O12" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CCCCCCCCCCCC(=O)NCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N23-1
l_displaced_atoms: H23
l_displaced_atoms: H23+1
r_bond_atoms: C20
r_displaced_atoms: O22-1

[Term]
id: BpForms:protein:OBF
name: (2s)-2-amino-4,4-difluorobutanoic acid
synonym: "(2S)-2-amino-4,4-difluoro-butanoic acid" BROAD []
synonym: "(2S)-2-amino-4,4-difluorobutanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: OBF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@H](C(=O)[O-])CC(F)F
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:OBS
name: (z)-n^6-[(4s,5r)-5-(2-carboxyethyl)-4-(carboxymethyl)-1-hydroxydihydro-2h-thiopyranium-3(4h)-ylidene]-l-lysine
synonym: "(2S)-2-amino-6-[[(1S,4R,5S)-5-(2-carboxyethyl)-4-(carboxymethyl)-1-oxo-thian-3-ylidene]amino]hexanoic acid" BROAD []
synonym: "(E)-N~6~-[(1S,4R,5S)-5-(2-carboxyethyl)-4-(carboxymethyl)-1-oxidodihydro-2H-thiopyran-3(4H)-ylidene]-L-lysine" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: OBS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)C[C@@H]1[C@H](CCC(=O)[O-])C[S@](=O)C/C/1=N/CCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N29-1
l_displaced_atoms: H29
l_displaced_atoms: H29+1
r_bond_atoms: C26
r_displaced_atoms: O28-1

[Term]
id: BpForms:protein:OCY
name: hydroxyethylcysteine
synonym: "(2R)-2-amino-3-(2-hydroxyethylsulfanyl)propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-(2-hydroxyethyl)-L-cysteine" BROAD []
synonym: "pdb-ccd: OCY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@@H]([NH3+])CSCCO
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:OFM
name: [(4z)-2-{(2r,5r)-2-[(1s)-1-amino-2-phenylethyl]-2-hydroxy-5-methyl-2,5-dihydro-1,3-oxazol-4-yl}-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1h-imidazol-1-yl]acetic acid
synonym: "2-[(4Z)-2-[(2R,5R)-2-[(1S)-1-azanyl-2-phenyl-ethyl]-5-methyl-2-oxidanyl-5H-1,3-oxazol-4-yl]-4-[(4-hydroxyphenyl)methylidene]-5-oxidanylidene-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "[(4Z)-2-{(2R,5R)-2-[(1S)-1-amino-2-phenylethyl]-2-hydroxy-5-methyl-2,5-dihydro-1,3-oxazol-4-yl}-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1H-imidazol-1-yl]acetic acid" BROAD []
synonym: "pdb-ccd: OFM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=N/C(=C\c2ccc(cc2)O)/C1=O)C1=N[C@@](O[C@@H]1C)(O)[C@H](Cc1ccccc1)[NH3+]
l_bond_atoms: N7
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:OHI
name: 3-(2-oxo-2h-imidazol-4-yl)-l-alanine
synonym: "(2S)-2-amino-3-(2-oxoimidazol-4-yl)propanoic acid" BROAD []
synonym: "3-(2-oxo-2H-imidazol-4-yl)-L-alanine" BROAD []
synonym: "H" BROAD []
synonym: "pdb-ccd: OHI" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: [O-]C(=O)[C@H](CC1=NC(=O)N=C1)[NH3+]
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:OIC
name: octahydroindole-2-carboxylic acid
synonym: "(2S,3aS,7aS)-2,3,3a,4,5,6,7,7a-octahydro-1H-indole-2-carboxylic acid" BROAD []
synonym: "(2S,3aS,7aS)-octahydro-1H-indole-2-carboxylic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: OIC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]1C[C@H]2[C@@H]([NH2+]1)CCCC2
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:OIM
name: [(4z)-2-{(2r,5r)-2-[(1s,2s)-1-amino-2-methylbutyl]-2-hydroxy-5-methyl-2,5-dihydro-1,3-oxazol-4-yl}-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1h-imidazol-1-yl]acetic acid
synonym: "2-[(4Z)-2-[(2R,5R)-2-[(1S,2S)-1-azanyl-2-methyl-butyl]-5-methyl-2-oxidanyl-5H-1,3-oxazol-4-yl]-4-[(4-hydroxyphenyl)methylidene]-5-oxidanylidene-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "[(4Z)-2-{(2R,5R)-2-[(1S,2S)-1-amino-2-methylbutyl]-2-hydroxy-5-methyl-2,5-dihydro-1,3-oxazol-4-yl}-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1H-imidazol-1-yl]acetic acid" BROAD []
synonym: "pdb-ccd: OIM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CC[C@@H]([C@@H]([C@]1(O)N=C([C@H](O1)C)C1=N/C(=C\c2ccc(cc2)O)/C(=O)N1CC(=O)[O-])[NH3+])C
l_bond_atoms: N9
r_bond_atoms: C30
r_displaced_atoms: O32-1

[Term]
id: BpForms:protein:OLD
name: 3-[2-(4-bromophenyl)-2-oxoethyl]-l-histidine
synonym: "(2S)-2-amino-3-[3-[2-(4-bromophenyl)-2-oxo-ethyl]imidazol-4-yl]propanoic acid" BROAD []
synonym: "3-[2-(4-bromophenyl)-2-oxoethyl]-L-histidine" BROAD []
synonym: "pdb-ccd: OLD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: [O-]C(=O)[C@H](Cc1cncn1CC(=O)c1ccc(cc1)Br)[NH3+]
l_bond_atoms: N22-1
l_displaced_atoms: H22
l_displaced_atoms: H22+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:OLZ
name: o-(2-aminoethyl)-l-serine
synonym: "(2S)-2-amino-3-(2-aminoethoxy)propanoic acid" BROAD []
synonym: "O-(2-aminoethyl)-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: OLZ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [O-]C(=O)[C@@H]([NH3+])COCC[NH3+]
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:OMH
name: o-[(s)-hydroxy(methoxy)phosphoryl]-l-serine
synonym: "(2S)-2-amino-3-(hydroxy-methoxy-phosphoryl)oxy-propanoic acid" BROAD []
synonym: "O-[(S)-hydroxy(methoxy)phosphoryl]-L-serine" BROAD []
synonym: "pdb-ccd: OMH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [O-]P(=O)(OC)OC[C@H]([NH3+])C(=O)[O-]
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:OMX
name: (betar)-beta-hydroxy-l-tyrosine
synonym: "(2S,3R)-2-azanyl-3-(4-hydroxyphenyl)-3-oxidanyl-propanoic acid" BROAD []
synonym: "(betaR)-beta-hydroxy-L-tyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: OMX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: O[C@@H]([C@@H](C(=O)[O-])[NH3+])c1ccc(cc1)O
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:OMY
name: (betar)-3-chloro-beta-hydroxy-l-tyrosine
synonym: "(2S,3R)-2-amino-3-(3-chloro-4-hydroxy-phenyl)-3-hydroxy-propanoic acid" BROAD []
synonym: "(betaR)-3-chloro-beta-hydroxy-L-tyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: OMY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@H]([C@@H](c1ccc(c(c1)Cl)O)O)[NH3+]
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:ONH
name: n~5~-hydroxy-l-ornithine
synonym: "(2S)-2-azanyl-5-(oxidanylamino)pentanoic acid" BROAD []
synonym: "A" BROAD []
synonym: "N~5~-hydroxy-L-ornithine" BROAD []
synonym: "pdb-ccd: ONH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: ONCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:ONL
name: 5-oxo-l-norleucine
synonym: "(2S)-2-amino-5-oxo-hexanoic acid" BROAD []
synonym: "5-oxo-L-norleucine" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: ONL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CC(=O)CC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:ORN
name: l-ornithine
synonym: "(2S)-2,5-bis(azanyl)pentanoic acid" BROAD []
synonym: "A" BROAD []
synonym: "L-ornithine" BROAD []
synonym: "pdb-ccd: ORN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@@H]([NH3+])CCC[NH3+]
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:ORQ
name: n~5~-acetyl-l-ornithine
synonym: "(2S)-5-acetamido-2-amino-pentanoic acid" BROAD []
synonym: "N~5~-acetyl-L-ornithine" BROAD []
synonym: "R" BROAD []
synonym: "pdb-ccd: ORQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: CC(=O)NCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:OTH
name: n,o-dimethyl-l-threonine
synonym: "(2S,3R)-3-methoxy-2-(methylamino)butanoic acid" BROAD []
synonym: "N,O-dimethyl-L-threonine" BROAD []
synonym: "T" BROAD []
synonym: "pdb-ccd: OTH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: CO[C@@H]([C@@H](C(=O)[O-])[NH2+]C)C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:OTY
name: 2-hydroxy-l-tyrosine
synonym: "(2S)-2-azanyl-3-[2,4-bis(oxidanyl)phenyl]propanoic acid" BROAD []
synonym: "2-hydroxy-L-tyrosine" BROAD []
synonym: "pdb-ccd: OTY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](Cc1ccc(cc1O)O)[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:OXX
name: oxalyl-aspartyl anhydride
synonym: "2-[(3S)-3-amino-4-hydroxy-4-oxo-butanoyl]oxy-2-oxo-ethanoate" BROAD []
synonym: "D" BROAD []
synonym: "pdb-ccd: OXX" EXACT []
synonym: "{[(3S)-3-amino-3-carboxypropanoyl]oxy}(oxo)acetate (non-preferred name)" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:D ! L-aspartic acid
structure: O=C(OC(=O)C(=O)[O-])C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:OYL
name: 1-ethyl-l-histidine
synonym: "(2S)-2-azanyl-3-(1-ethylimidazol-4-yl)propanoic acid" BROAD []
synonym: "1-ethyl-L-histidine" BROAD []
synonym: "pdb-ccd: OYL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: [O-]C(=O)[C@@H]([NH3+])Cc1cn(cn1)CC
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:OZT
name: (4s,5r)-5-methyl-2-oxo-1,3-oxazolidine-4-carboxylic acid
synonym: "(4S,5R)-5-methyl-2-oxo-1,3-oxazolidine-4-carboxylic acid" BROAD []
synonym: "pdb-ccd: OZT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: O=C1O[C@@H]([C@H](N1)C(=O)[O-])C
l_bond_atoms: N8
l_displaced_atoms: H8
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:P2Q
name: 2-hydroxy-5-{[(1s,2e)-1-formyl-4-phenoxybut-2-en-1yl]amino}-l-tyrosine
synonym: "(2S)-2-azanyl-3-[2,4-dihydroxy-5-[[(E,2S)-1-oxo-5-phenoxy-pent-3-en-2-yl]amino]phenyl]propanoic acid" BROAD []
synonym: "pdb-ccd: P2Q" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: O=C[C@@H](Nc1cc(C[C@@H](C(=O)[O-])[NH3+])c(cc1O)O)/C=C/COc1ccccc1
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:P2Y
name: (2s)-pyrrolidin-2-ylmethylamine
synonym: "1-[(2S)-pyrrolidin-2-yl]methanamine" BROAD []
synonym: "P" BROAD []
synonym: "[(2S)-pyrrolidin-2-yl]methanamine" BROAD []
synonym: "pdb-ccd: P2Y" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [NH3+]C[C@@H]1CCC[NH2+]1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1

[Term]
id: BpForms:protein:P3Q
name: 2-hydroxy-5-{[(1e)-1-(2-oxoethylidene)-4-phenylbutyl]amino}-l-tyrosine
synonym: "(2S)-2-azanyl-3-[2,4-dihydroxy-5-[[(E)-1-oxo-6-phenyl-hex-2-en-3-yl]amino]phenyl]propanoic acid" BROAD []
synonym: "pdb-ccd: P3Q" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: O=C/C=C(/Nc1cc(C[C@@H](C(=O)[O-])[NH3+])c(cc1O)O)\CCCc1ccccc1
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:P4E
name: (2s,4e)-2-amino-5-phenylpent-4-enoic acid
synonym: "(2S)-2-azanyl-5-phenyl-pent-4-enoic acid" BROAD []
synonym: "(2S,4E)-2-amino-5-phenylpent-4-enoic acid" BROAD []
synonym: "pdb-ccd: P4E" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](CC=Cc1ccccc1)[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:P9S
name: dihydroxypropylcysteine
synonym: "(2~{R})-2-azanyl-3-[(2~{R})-2,3-bis(oxidanyl)propyl]sulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: P9S" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: OC[C@H](CSC[C@@H](C(=O)[O-])[NH3+])O
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:PAQ
name: 2-oxy-4-hydroxy-5-(2-hydrazinopyridine)phenylalanine
synonym: "(2S)-2-amino-3-[4-hydroxy-6-oxo-3-(2-pyridin-2-ylhydrazinyl)-1-cyclohexa-2,4-dienyl]propanoic acid" BROAD []
synonym: "3-[(1R)-4-hydroxy-6-oxo-3-(2-pyridin-2-ylhydrazino)cyclohexa-2,4-dien-1-yl]-L-alanine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: PAQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@H](C[C-]1C=C([NH2+]Nc2cccc[nH+]2)C(=CC1=O)[O-])[NH3+]
l_bond_atoms: N26-1
l_displaced_atoms: H26
l_displaced_atoms: H26+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:PAT
name: alpha-phosphono-tryptophan
synonym: "(2R)-2-amino-3-(1H-indol-3-yl)-2-phosphono-propanoic acid" BROAD []
synonym: "W" BROAD []
synonym: "alpha-phosphono-L-tryptophan" BROAD []
synonym: "pdb-ccd: PAT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@](P(=O)([O-])[O-])(Cc1c[nH]c2c1cccc2)[NH3+]
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:PBB
name: s-(4-bromobenzyl)cysteine
synonym: "(2R)-2-amino-3-[(4-bromophenyl)methylsulfanyl]propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-(4-bromobenzyl)-L-cysteine" BROAD []
synonym: "pdb-ccd: PBB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [NH3+][C@H](C(=O)[O-])CSCc1ccc(cc1)Br
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:PBF
name: para-(benzoyl)-phenylalanine
synonym: "(2S)-2-amino-3-[4-(phenylcarbonyl)phenyl]propanoic acid" BROAD []
synonym: "4-(phenylcarbonyl)-L-phenylalanine" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: PBF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [NH3+][C@H](C(=O)[O-])Cc1ccc(cc1)C(=O)c1ccccc1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:PCE
name: 2-(3-amino-4-cyclohexyl-2-hydroxy-butyl)-pent-4-ynoic acid
synonym: "(2R,4R,5S)-5-amino-6-cyclohexyl-4-hydroxy-2-prop-2-yn-1-ylhexanoic acid" BROAD []
synonym: "(4R,5S)-5-amino-6-cyclohexyl-4-hydroxy-2-prop-2-ynyl-hexanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: PCE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: C#CCC(C(=O)[O-])C[C@H]([C@H](CC1CCCCC1)[NH3+])O
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C5
r_displaced_atoms: O7-1

[Term]
id: BpForms:protein:PCS
name: phenylalanylmethylchloride
synonym: "(3S)-3-amino-1-chloro-4-phenyl-butan-2-one" BROAD []
synonym: "(3S)-3-amino-1-chloro-4-phenylbutan-2-one" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: PCS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: ClCC(=O)[C@H](Cc1ccccc1)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1

[Term]
id: BpForms:protein:PE1
name: n~2~-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)-l-lysine
synonym: "(2S)-6-azanyl-2-[[2-methyl-3-oxidanyl-5-(phosphonooxymethyl)pyridin-4-yl]methylamino]hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "N~2~-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)-L-lysine" BROAD []
synonym: "pdb-ccd: PE1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+]CCCC[C@@H](C(=O)[O-])[NH2+]Cc1c(cnc(c1O)C)COP(=O)([O-])[O-]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:PEC
name: s,s-pentylthiocysteine
synonym: "(2R)-2-amino-3-pentyldisulfanyl-propanoic acid" BROAD []
synonym: "3-(pentyldisulfanyl)-L-alanine" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: PEC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: CCCCCSSC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:PF5
name: 2,3,4,5,6-pentafluoro-l-phenylalanine
synonym: "(2S)-2-amino-3-(2,3,4,5,6-pentafluorophenyl)propanoic acid" BROAD []
synonym: "2,3,4,5,6-pentafluoro-L-phenylalanine" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: PF5" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [NH3+][C@H](C(=O)[O-])Cc1c(F)c(F)c(c(c1F)F)F
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:PFF
name: 4-fluoro-l-phenylalanine
synonym: "(2S)-2-amino-3-(4-fluorophenyl)propanoic acid" BROAD []
synonym: "4-fluoro-L-phenylalanine" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: PFF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [NH3+][C@H](C(=O)[O-])Cc1ccc(cc1)F
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:PFX
name: (2s)-1-({2-[2-(carboxymethoxy)ethoxy]ethyl}amino)-1-oxo-3-(4-phosphonophenyl)propan-2-aminium
synonym: "(2S)-1-({2-[2-(carboxymethoxy)ethoxy]ethyl}amino)-1-oxo-3-(4-phosphonophenyl)propan-2-aminium" BROAD []
synonym: "X" BROAD []
synonym: "[(2S)-1-[2-[2-(carboxymethyloxy)ethoxy]ethylamino]-1-oxo-3-(4-phosphonophenyl)propan-2-yl]azanium" BROAD []
synonym: "pdb-ccd: PFX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)COCCOCCNC(=O)[C@H](Cc1ccc(cc1)P(=O)([O-])[O-])[NH3+]
l_bond_atoms: N11
l_displaced_atoms: H11
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:PG1
name: penicillin g acyl-serine
synonym: "(2R,4S)-2-[(1R)-2-[(2S)-2-amino-3-oxido-3-oxo-propoxy]-2-oxo-1-(2-phenylethanoylamino)ethyl]-5,5-dimethyl-1,3-thiazolidine-4-carboxylate" BROAD []
synonym: "(2R,4S)-2-{(1R)-2-[(2S)-2-amino-2-carboxylatoethoxy]-2-oxo-1-[(phenylacetyl)amino]ethyl}-5,5-dimethyl-1,3-thiazolidine-4-carboxylate" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: PG1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: O=C(N[C@@H]([C@@H]1[NH2+][C@H](C(S1)(C)C)C(=O)[O-])C(=O)OC[C@@H](C(=O)[O-])[NH3+])Cc1ccccc1
l_bond_atoms: N8-1
l_displaced_atoms: H8
l_displaced_atoms: H8+1
r_bond_atoms: C17
r_displaced_atoms: O19-1

[Term]
id: BpForms:protein:PH6
name: (4s)-4-cyclohexyl-l-proline
synonym: "(2S,4S)-4-cyclohexylpyrrolidine-2-carboxylic acid" BROAD []
synonym: "(4S)-4-cyclohexyl-L-proline" BROAD []
synonym: "P" BROAD []
synonym: "pdb-ccd: PH6" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [O-]C(=O)[C@H]1[NH2+]C[C@@H](C1)C1CCCCC1
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:PH8
name: 5-phenyl-l-norvaline
synonym: "(2S)-2-azanyl-5-phenyl-pentanoic acid" BROAD []
synonym: "5-phenyl-L-norvaline" BROAD []
synonym: "pdb-ccd: PH8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](CCCc1ccccc1)[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:PHA
name: phenylalaninal
synonym: "(2S)-2-amino-3-phenyl-propanal" BROAD []
synonym: "(2S)-2-amino-3-phenylpropanal" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: PHA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [NH3+][C@H](C(=O)[O-])Cc1ccccc1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:PHI
name: iodo-phenylalanine
synonym: "(2S)-2-amino-3-(4-iodophenyl)propanoic acid" BROAD []
synonym: "4-iodo-L-phenylalanine" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: PHI" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [NH3+][C@H](C(=O)[O-])Cc1ccc(cc1)I
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:PHL
name: l-phenylalaninol
synonym: "(2S)-2-amino-3-phenyl-propan-1-ol" BROAD []
synonym: "(2S)-2-amino-3-phenylpropan-1-ol" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: PHL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: OC[C@H](Cc1ccccc1)[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1

[Term]
id: BpForms:protein:PIA
name: [(4z)-2-[(1s)-1-aminoethyl]-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1h-imidazol-1-yl]acetic acid
synonym: "2-[(4Z)-2-[(1S)-1-azanylethyl]-4-[(4-hydroxyphenyl)methylidene]-5-oxidanylidene-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "AYG" BROAD []
synonym: "[(4Z)-2-[(1S)-1-aminoethyl]-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1H-imidazol-1-yl]acetic acid" BROAD []
synonym: "pdb-ccd: PIA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: C[C@@H](C1=N/C(=C\c2ccc(cc2)O)/C(=O)N1CC(=O)[O-])[NH3+]
l_bond_atoms: N5
r_bond_atoms: C19
r_displaced_atoms: O21-1

[Term]
id: BpForms:protein:PIV
name: pivalic acid
synonym: "2,2-dimethylpropanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: PIV" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)C(C)(C)C
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:PLJ
name: methyl l-prolinate
synonym: "methyl (2S)-pyrrolidine-2-carboxylate" BROAD []
synonym: "methyl L-prolinate" BROAD []
synonym: "pdb-ccd: PLJ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: COC(=O)[C@@H]1CCC[NH2+]1
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1

[Term]
id: BpForms:protein:PM3
name: 2-amino-3-(4-phosphonomethyl-phenyl)-propionic acid
synonym: "(2S)-2-amino-3-[4-(phosphonomethyl)phenyl]propanoic acid" BROAD []
synonym: "4-(phosphonomethyl)-L-phenylalanine" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: PM3" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [O-]C(=O)[C@H](Cc1ccc(cc1)CP(=O)(O)[O-])[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:PNZ
name: p-nitro-benzylamine
synonym: "(4-nitrophenyl)methanamine" BROAD []
synonym: "1-(4-nitrophenyl)methanamine" BROAD []
synonym: "pdb-ccd: PNZ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]Cc1ccc(cc1)[N+](=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1

[Term]
id: BpForms:protein:POM
name: cis-5-methyl-4-oxoproline
synonym: "(2S,5S)-5-methyl-4-oxo-pyrrolidine-2-carboxylic acid" BROAD []
synonym: "(5S)-5-methyl-4-oxo-L-proline" BROAD []
synonym: "P" BROAD []
synonym: "pdb-ccd: POM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [O-]C(=O)[C@@H]1CC(=O)[C@@H]([NH2+]1)C
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:PPN
name: para-nitrophenylalanine
synonym: "(2S)-2-amino-3-(4-nitrophenyl)propanoic acid" BROAD []
synonym: "4-nitro-L-phenylalanine" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: PPN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [O-]C(=O)[C@H](Cc1ccc(cc1)[N+](=O)[O-])[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:PR3
name: s,s-propylthiocysteine
synonym: "(2R)-2-amino-3-(propyldisulfanyl)propanal" BROAD []
synonym: "(2R)-2-amino-3-propyldisulfanyl-propanal" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: PR3" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@@H]([NH3+])CSSCCC
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:PR4
name: 1-[(2r)-2-carboxy-2-hydroxyethyl]-l-proline
synonym: "(1S,2S)-1-[(2R)-2,3-dihydroxy-3-oxo-propyl]pyrrolidine-2-carboxylic acid" BROAD []
synonym: "1-[(2R)-2-carboxy-2-hydroxyethyl]-L-proline" BROAD []
synonym: "pdb-ccd: PR4" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: O[C@@H](C(=O)[O-])C[NH+]1CCC[C@H]1C(=O)[O-]
r_bond_atoms: C4
r_displaced_atoms: O6-1

[Term]
id: BpForms:protein:PR7
name: 1-[(2s)-2-carboxy-2-hydroxyethyl]-l-proline
synonym: "(1S,2S)-1-[(2S)-2,3-dihydroxy-3-oxo-propyl]pyrrolidine-2-carboxylic acid" BROAD []
synonym: "1-[(2S)-2-carboxy-2-hydroxyethyl]-L-proline" BROAD []
synonym: "pdb-ccd: PR7" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: O[C@H](C(=O)[O-])C[NH+]1CCC[C@H]1C(=O)[O-]
r_bond_atoms: C4
r_displaced_atoms: O6-1

[Term]
id: BpForms:protein:PRJ
name: (2s,3as,6r,7as)-6-hydroxyoctahydro-1h-indole-2-carboxylic acid
synonym: "(2S,3aS,6R,7aS)-6-hydroxy-2,3,3a,4,5,6,7,7a-octahydro-1H-indole-2-carboxylic acid" BROAD []
synonym: "(2S,3aS,6R,7aS)-6-hydroxyoctahydro-1H-indole-2-carboxylic acid" BROAD []
synonym: "pdb-ccd: PRJ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: O[C@@H]1CC[C@@H]2[C@H](C1)[NH2+][C@@H](C2)C(=O)[O-]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C17
r_displaced_atoms: O19-1

[Term]
id: BpForms:protein:PRR
name: 3-(methyl-pyridinium)alanine
synonym: "(2S)-2-azanyl-3-(1-methylpyridin-1-ium-3-yl)propanoic acid" BROAD []
synonym: "3-(1-methylpyridinium-3-yl)-L-alanine" BROAD []
synonym: "pdb-ccd: PRR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](Cc1ccc[n+](c1)C)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:PRS
name: thioproline
synonym: "(4R)-1,3-thiazolidine-4-carboxylic acid" BROAD []
synonym: "P" BROAD []
synonym: "pdb-ccd: PRS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [O-]C(=O)[C@@H]1CSC[NH2+]1
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:PRV
name: (2r)-amino(2-nitrophenyl)ethanoic acid
synonym: "(2R)-2-amino-2-(2-nitrophenyl)ethanoic acid" BROAD []
synonym: "(2R)-amino(2-nitrophenyl)ethanoic acid" BROAD []
synonym: "G" BROAD []
synonym: "pdb-ccd: PRV" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H](c1ccccc1[N+](=O)[O-])[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:PSH
name: 1-thiophosphono-l-histidine
synonym: "(2S)-2-amino-3-[1-(hydroxy-sulfanyl-phosphoryl)imidazol-4-yl]propanoic acid" BROAD []
synonym: "1-thiophosphono-L-histidine" BROAD []
synonym: "H" BROAD []
synonym: "pdb-ccd: PSH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: [O-]C(=O)[C@H](Cc1ncn(c1)P(=O)(S)[O-])[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:PSW
name: 3-(sulfanylselanyl)-l-alanine
synonym: "(2R)-2-amino-3-sulfanylselanyl-propanoic acid" BROAD []
synonym: "3-(sulfanylselanyl)-L-alanine" BROAD []
synonym: "U" BROAD []
synonym: "pdb-ccd: PSW" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:SEC ! selenocysteine
structure: [O-]C(=O)[C@@H]([NH3+])C[Se]S
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:PTH
name: ce1-methylene-hydroxy-phosphotyrosine
synonym: "(2S)-2-amino-3-[3-(hydroxymethyl)-4-phosphonooxy-phenyl]propanoic acid" BROAD []
synonym: "3-(hydroxymethyl)-O-phosphono-L-tyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: PTH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: OCc1cc(ccc1OP(=O)([O-])[O-])C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C17
r_displaced_atoms: O19-1

[Term]
id: BpForms:protein:PTM
name: alpha-methyl-o-phosphotyrosine
synonym: "(2S)-2-amino-2-methyl-3-(4-phosphonooxyphenyl)propanoic acid" BROAD []
synonym: "Y" BROAD []
synonym: "alpha-methyl-O-phosphono-L-tyrosine" BROAD []
synonym: "pdb-ccd: PTM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@](Cc1ccc(cc1)OP(=O)([O-])[O-])([NH3+])C
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:PVH
name: histidine-methyl-ester
synonym: "H" BROAD []
synonym: "methyl (2S)-2-amino-3-(1H-imidazol-3-ium-4-yl)propanoate" BROAD []
synonym: "methyl 3-(1H-imidazol-3-ium-4-yl)-L-alaninate" BROAD []
synonym: "pdb-ccd: PVH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: COC(=O)[C@H](Cc1c[nH]cn1)N
l_bond_atoms: N10
l_displaced_atoms: H10

[Term]
id: BpForms:protein:PVO
name: 2,2-bis(oxidanyl)propanoic acid
synonym: "2,2-bis(oxidanyl)propanoic acid" BROAD []
synonym: "pdb-ccd: PVO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)C(O)(O)C
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:PYA
name: 3-(1,10-phenanthrol-2-yl)-l-alanine
synonym: "(2S)-2-amino-3-(1,10-phenanthrolin-2-yl)propanoic acid" BROAD []
synonym: "3-(1,10-phenanthrolin-2-yl)-L-alanine" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: PYA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@H](Cc1ccc2c(n1)c1ncccc1cc2)[NH3+]
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:PYL
name: pyrrolysine
synonym: "(2S)-2-azanyl-6-[[(2R,3R)-3-methyl-3,4-dihydro-2H-pyrrol-2-yl]carbonylamino]hexanoic acid" BROAD []
synonym: "N~6~-{[(2R,3R)-3-methyl-3,4-dihydro-2H-pyrrol-2-yl]carbonyl}-L-lysine" BROAD []
synonym: "O" BROAD []
synonym: "pdb-ccd: PYL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](CCCCNC(=O)[C@@H]1N=CC[C@H]1C)[NH3+]
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:PYX
name: s-[s-thiopyridoxaminyl]cysteine
synonym: "(2R)-2-amino-3-[[4-(aminomethyl)-5-hydroxy-6-methyl-pyridin-3-yl]methyldisulfanyl]propanoic acid" BROAD []
synonym: "3-({[4-(aminomethyl)-5-hydroxy-6-methylpyridin-3-yl]methyl}disulfanyl)-L-alanine" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: PYX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [NH3+]Cc1c(CSSC[C@@H](C(=O)[O-])[NH3+])cnc(c1O)C
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:QAC
name: n-[4-(hydroxymethyl)benzoyl]-beta-alanine
synonym: "3-[[4-(hydroxymethyl)phenyl]carbonylamino]propanoic acid" BROAD []
synonym: "N-[4-(hydroxymethyl)benzoyl]-beta-alanine" BROAD []
synonym: "pdb-ccd: QAC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: OCc1ccc(cc1)C(=O)NCCC(=O)[O-]
l_bond_atoms: N11
l_displaced_atoms: H11
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:QFG
name: {(4e)-2-[(1e)-4-amino-4-oxobutanimidoyl]-4-benzylidene-5-oxo-4,5-dihydro-1h-imidazol-1-yl}acetic acid
synonym: "2-[(4E)-2-(4-azanyl-4-oxidanylidene-butanimidoyl)-5-oxidanylidene-4-(phenylmethylidene)imidazol-1-yl]ethanoic acid" BROAD []
synonym: "QFG" BROAD []
synonym: "pdb-ccd: QFG" EXACT []
synonym: "{(4E)-2-[(1E)-4-amino-4-oxobutanimidoyl]-4-benzylidene-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=N/C(=C/c2ccccc2)/C1=O)C(=N)CCC(=O)N
l_bond_atoms: N7
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:QIL
name: n-formyl-l-isoleucine
synonym: "(2S,3S)-2-formamido-3-methyl-pentanoic acid" BROAD []
synonym: "N-formyl-L-isoleucine" BROAD []
synonym: "pdb-ccd: QIL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:I ! L-isoleucine
structure: [O-]C(=O)[C@H]([C@H](CC)C)NC=O
l_bond_atoms: N11
l_displaced_atoms: H11
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:QLG
name: [(4z)-2-[(1z)-4-amino-4-oxobutanimidoyl]-4-(2-methylpropylidene)-5-oxo-4,5-dihydro-1h-imidazol-1-yl]acetic acid
synonym: "2-[2-(4-amino-4-oxo-butanimidoyl)-4-(2-methylpropylidene)-5-oxo-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "QLG" BROAD []
synonym: "[(4E)-2-[(1Z)-4-amino-4-oxobutanimidoyl]-4-(2-methylpropylidene)-5-oxo-4,5-dihydro-1H-imidazol-1-yl]acetic acid" BROAD []
synonym: "pdb-ccd: QLG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=NC(=CC(C)C)C1=O)C(=N)CCC(=O)N
l_bond_atoms: N7
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:QMM
name: n,n-dimethyl-l-glutamine
synonym: "(2S)-2-azanyl-5-(dimethylamino)-5-oxo-pentanoic acid" BROAD []
synonym: "N,N-dimethyl-L-glutamine" BROAD []
synonym: "Q" BROAD []
synonym: "pdb-ccd: QMM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Q ! L-glutamine
structure: [O-]C(=O)[C@H](CCC(=O)N(C)C)[NH3+]
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:QPH
name: n-formyl-l-phenylalanine
synonym: "(2S)-2-formamido-3-phenyl-propanoic acid" BROAD []
synonym: "F" BROAD []
synonym: "N-formyl-L-phenylalanine" BROAD []
synonym: "pdb-ccd: QPH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: O=CN[C@H](C(=O)[O-])Cc1ccccc1
l_bond_atoms: N3
l_displaced_atoms: H3
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:R1A
name: 3-{[(2,2,5,5-tetramethyl-1-oxo-2,5-dihydro-1h-pyrrolium-3-yl)methyl]disulfanyl}-d-alanine
synonym: "(2R)-2-amino-3-[(2,2,5,5-tetramethyl-1-oxo-pyrrol-1-ium-3-yl)methyldisulfanyl]propanoic acid" BROAD []
synonym: "3-{[(2,2,5,5-tetramethyl-1-oxo-2,5-dihydro-1H-pyrrolium-3-yl)methyl]disulfanyl}-L-alanine" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: R1A" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@H](CSSCC1=CC([N+](=O)C1(C)C)(C)C)[NH3+]
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:R2T
name: beta,gamma-dihydroxyglutamine
synonym: "(2S,3R,4S)-2,5-bis(azanyl)-3,4-bis(oxidanyl)-5-oxidanylidene-pentanoic acid" BROAD []
synonym: "(2S,3R,4S)-2,5-diamino-3,4-dihydroxy-5-oxopentanoic acid (non-preferred name)" BROAD []
synonym: "pdb-ccd: R2T" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@@H]([C@H]([C@@H](C(=O)N)O)O)C(=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C16
r_displaced_atoms: O18-1

[Term]
id: BpForms:protein:R4K
name: (2s,3r)-2-azanyl-3-hydroxy-3-[(3s)-3-hydroxy-2-oxo-1h-indol-3-yl]propanoic acid
synonym: "(2S,3R)-2-azanyl-3-oxidanyl-3-[(3S)-3-oxidanyl-2-oxidanylidene-1H-indol-3-yl]propanoic acid" BROAD []
synonym: "(3R)-3-[(3S)-3-hydroxy-2-oxo-2,3-dihydro-1H-indol-3-yl]-L-serine" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: R4K" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@H]([C@H]([C@]1(O)C(=O)Nc2c1cccc2)O)[NH3+]
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:RC7
name: {(2r)-4-(4-hydroxybenzyl)-2-[2-(1h-imidazol-4-yl)ethyl]-5-oxo-2,5-dihydro-1h-imidazol-1-yl}acetaldehyde
synonym: "2-[4-[(4-hydroxyphenyl)methyl]-2-[2-(1H-imidazol-4-yl)ethyl]-5-oxo-2H-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "HYG" BROAD []
synonym: "pdb-ccd: RC7" EXACT []
synonym: "{(2R)-4-(4-hydroxybenzyl)-2-[2-(1H-imidazol-4-yl)ethyl]-5-oxo-2,5-dihydro-1H-imidazol-1-yl}acetic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(CCc2c[nH]cn2)N=C(C1=O)Cc1ccc(cc1)O
l_bond_atoms: N11
l_displaced_atoms: H11
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:RE0
name: 3-[(3r)-3-hydroxy-2-oxo-2,3-dihydro-1h-indol-3-yl]-l-alanine
synonym: "(2S)-2-azanyl-3-[(3R)-3-hydroxy-2-oxo-1H-indol-3-yl]propanoic acid" BROAD []
synonym: "3-[(3R)-3-hydroxy-2-oxo-2,3-dihydro-1H-indol-3-yl]-L-alanine" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: RE0" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@H](C[C@]1(O)C(=O)Nc2c1cccc2)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:RE3
name: 3-[(3s)-3-hydroxy-2-oxo-2,3-dihydro-1h-indol-3-yl]-l-alanine
synonym: "(2S)-2-azanyl-3-[(3S)-3-hydroxy-2-oxo-1H-indol-3-yl]propanoic acid" BROAD []
synonym: "3-[(3S)-3-hydroxy-2-oxo-2,3-dihydro-1H-indol-3-yl]-L-alanine" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: RE3" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@H](C[C@@]1(O)C(=O)Nc2c1cccc2)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:RGL
name: arginal
synonym: "R" BROAD []
synonym: "[amino-[[(4S)-4-amino-5-oxo-pentyl]amino]methylidene]azanium" BROAD []
synonym: "amino{[(4S)-4-amino-5-oxopentyl]amino}methaniminium" BROAD []
synonym: "pdb-ccd: RGL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: [O-]C(=O)[C@H](CCCNC(=[NH2+])N)[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:RPI
name: phospho-arginine
synonym: "(2~{S})-2-azanyl-5-[(~{N}-phosphonocarbamimidoyl)amino]pentanoic acid" BROAD []
synonym: "R" BROAD []
synonym: "pdb-ccd: RPI" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: [O-]C(=O)[C@H](CCCNC(=[NH2+])NP(=O)([O-])[O-])[NH3+]
l_bond_atoms: N19-1
l_displaced_atoms: H19
l_displaced_atoms: H19+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:RT0
name: (2s,4s)-4-[4-(4-fluorophenyl)-1,2,3-triazol-1-yl]pyrrolidine-2-carboxylic acid
synonym: "(2S,4S)-4-[4-(4-fluorophenyl)-1,2,3-triazol-1-yl]pyrrolidine-2-carboxylic acid" BROAD []
synonym: "(4S)-4-[4-(4-fluorophenyl)-1H-1,2,3-triazol-1-yl]-L-proline" BROAD []
synonym: "pdb-ccd: RT0" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [O-]C(=O)[C@H]1[NH2+]C[C@H](C1)n1nnc(c1)c1ccc(cc1)F
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:RVX
name: o-[methyl(2-methylpropoxy)phosphoryl]-l-serine
synonym: "(2S)-2-azanyl-3-[methyl(2-methylpropoxy)phosphoryl]oxy-propanoic acid" BROAD []
synonym: "O-[(R)-methyl(2-methylpropoxy)phosphoryl]-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: RVX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [NH3+][C@H](C(=O)[O-])CO[P@](=O)(OCC(C)C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:RZ4
name: o-tert-butyl-l-serine
synonym: "(2S)-2-azanyl-3-[(2-methylpropan-2-yl)oxy]propanoic acid" BROAD []
synonym: "O-tert-butyl-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: RZ4" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [NH3+][C@H](C(=O)[O-])COC(C)(C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:S12
name: o-[(s)-hydroxy{[(2s)-2-hydroxy-3-(octadec-9-enoyloxy)propyl]oxy}phosphoryl]-l-serine
synonym: "(2S)-2-azanyl-3-[[(2S)-3-octadec-9-enoyloxy-2-oxidanyl-propoxy]-oxidanyl-phosphoryl]oxy-propanoic acid" BROAD []
synonym: "O-[(S)-hydroxy{[(2S)-2-hydroxy-3-(octadec-9-enoyloxy)propyl]oxy}phosphoryl]-L-serine" BROAD []
synonym: "pdb-ccd: S12" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: CCCCCCCCC=CCCCCCCCC(=O)OC[C@@H](CO[P@](=O)(OC[C@@H](C(=O)[O-])[NH3+])[O-])O
l_bond_atoms: N35-1
l_displaced_atoms: H35
l_displaced_atoms: H35+1
r_bond_atoms: C32
r_displaced_atoms: O34-1

[Term]
id: BpForms:protein:S1H
name: 1-hexadecanosulfonyl-o-l-serine
synonym: "(2S)-2-amino-3-hexadecylsulfonyloxy-propanoic acid" BROAD []
synonym: "O-(hexadecylsulfonyl)-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: S1H" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: CCCCCCCCCCCCCCCCS(=O)(=O)OC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N27-1
l_displaced_atoms: H27
l_displaced_atoms: H27+1
r_bond_atoms: C24
r_displaced_atoms: O26-1

[Term]
id: BpForms:protein:S2C
name: s-2-(boronoethyl)-l-cysteine
synonym: "(2-{[(2R)-2-amino-2-carboxyethyl]sulfanyl}ethyl)(trihydroxy)borate(1-)" BROAD []
synonym: "2-[(2R)-2-azanyl-3-hydroxy-3-oxo-propyl]sulfanylethyl-trihydroxy-boranuide" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: S2C" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@H](CSCC[B-](O)(O)O)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:S2P
name: (2s)-2-amino-3-(4-hydroxy-1,2,5-thiadiazol-3-yl)propanoic acid
synonym: "(2S)-2-amino-3-(4-hydroxy-1,2,5-thiadiazol-3-yl)propanoic acid" BROAD []
synonym: "3-(4-hydroxy-1,2,5-thiadiazol-3-yl)-L-alanine" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: S2P" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@H](Cc1nsnc1[O-])[NH3+]
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:SAH
name: s-adenosyl-l-homocysteine
synonym: "(2S)-2-amino-4-({[(2S,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl}sulfanyl)butanoic acid (non-preferred name)" BROAD []
synonym: "(2S)-2-amino-4-[[(2S,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methylsulfanyl]butanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: SAH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@H](CCSC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1ncnc2N)[NH3+]
l_bond_atoms: N31-1
l_displaced_atoms: H31
l_displaced_atoms: H31+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:SAO
name: 5'-s-[(3s)-3-azaniumyl-3-carboxypropyl]-5'-thioadenosine
synonym: "5'-S-[(3S)-3-azaniumyl-3-carboxypropyl]-5'-thioadenosine" BROAD []
synonym: "[(2~{S})-4-[[(2~{S},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methylsulfanyl]-1-oxidanyl-1-oxidanylidene-butan-2-yl]azanium" BROAD []
synonym: "pdb-ccd: SAO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](CCSC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1ncnc2N)[NH3+]
l_bond_atoms: N31-1
l_displaced_atoms: H31
l_displaced_atoms: H31+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:SBL
name: l-naphthyl-1-acetamido boronic acid alanine
synonym: "S" BROAD []
synonym: "[(1R)-1-(acetylamino)-2-naphthalen-1-ylethyl](dihydroxy)(L-serinato-kappaO~3~)borate(1-)" BROAD []
synonym: "[(1R)-1-acetamido-2-naphthalen-1-yl-ethyl]-[(2S)-2-amino-3-hydroxy-3-oxo-propoxy]-dihydroxy-boron" BROAD []
synonym: "pdb-ccd: SBL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: CC(=O)N[C@H]([B-](OC[C@@H](C(=O)[O-])[NH3+])(O)O)Cc1cccc2c1cccc2
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:SCS
name: 3-(ethyldisulfanyl)-l-alanine
synonym: "(2R)-2-amino-3-ethyldisulfanyl-propanoic acid" BROAD []
synonym: "3-(ethyldisulfanyl)-L-alanine" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: SCS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@@H]([NH3+])CSSCC
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:SD2
name: n-(sulfanylacetyl)tyrosylprolylmethioninamide
synonym: "(2S)-N-[(2S)-1-amino-4-methylsulfanyl-1-oxo-butan-2-yl]-1-[(2S)-3-(4-hydroxyphenyl)-2-(2-sulfanylethanoylamino)propanoyl]pyrrolidine-2-carboxamide" BROAD []
synonym: "N-(sulfanylacetyl)-L-tyrosyl-L-prolyl-L-methioninamide" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: SD2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CSCC[C@@H](C(=O)N)NC(=O)[C@@H]1CCCN1C(=O)[C@H](Cc1ccc(cc1)O)NC(=O)CS
l_bond_atoms: N9
l_displaced_atoms: H9

[Term]
id: BpForms:protein:SD4
name: n-hydroxy-l-asparagine
synonym: "(2S)-2-azanyl-4-(oxidanylamino)-4-oxidanylidene-butanoic acid" BROAD []
synonym: "pdb-ccd: SD4" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:N ! L-asparagine
structure: [O-]C(=O)[C@@H]([NH3+])CC(=O)NO
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:SDP
name: 2-amino-3-(diethoxy-phosphoryloxy)-propionic acid
synonym: "(2S)-2-amino-3-diethoxyphosphoryloxy-propanoic acid" BROAD []
synonym: "O-(diethoxyphosphoryl)-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: SDP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: CCOP(=O)(OCC)OC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:SE7
name: 2-amino-3-selenino-propionic acid
synonym: "(2R)-2-azanyl-3-selenino-propanoic acid" BROAD []
synonym: "3-selenino-L-alanine" BROAD []
synonym: "U" BROAD []
synonym: "pdb-ccd: SE7" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:SEC ! selenocysteine
structure: [O-][Se](=O)C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:SEB
name: o-benzylsulfonyl-serine
synonym: "(2S)-2-amino-3-(phenylmethylsulfonyloxy)propanoic acid" BROAD []
synonym: "O-(benzylsulfonyl)-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: SEB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [NH3+][C@H](C(=O)[O-])COS(=O)(=O)Cc1ccccc1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:SEC
name: selenocysteine
synonym: "(2R)-2-azanyl-3-selanyl-propanoic acid" BROAD []
synonym: "3-selanyl-L-alanine" BROAD []
synonym: "U" BROAD []
synonym: "pdb-ccd: SEC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@@H]([NH3+])C[SeH]
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:SEE
name: trihydroxy(l-serinato-kappao~3~)borate(1-)
synonym: "[(2S)-2-amino-3-hydroxy-3-oxo-propoxy]-trihydroxy-boron" BROAD []
synonym: "pdb-ccd: SEE" EXACT []
synonym: "trihydroxy(L-serinato-kappaO~3~)borate(1-)" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: O[B-](OC[C@@H](C(=O)[O-])[NH3+])(O)O
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:SEL
name: 2-amino-1,3-propanediol
synonym: "2-aminopropane-1,3-diol" BROAD []
synonym: "2-azanylpropane-1,3-diol" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: SEL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OCC(CO)[NH3+]
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1

[Term]
id: BpForms:protein:SEM
name: o-benzyl-l-serine
synonym: "(2S)-2-azanyl-3-phenylmethoxy-propanoic acid" BROAD []
synonym: "O-benzyl-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: SEM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [NH3+][C@H](C(=O)[O-])COCc1ccccc1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:SEN
name: o-[n,n-dimethylphosphoramidate]-l-serine
synonym: "(2S)-2-amino-3-(dimethylamino-hydroxy-phosphoryl)oxy-propanoic acid" BROAD []
synonym: "O-[(S)-(dimethylamino)(hydroxy)phosphoryl]-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: SEN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [NH3+][C@H](C(=O)[O-])COP(=O)(N(C)C)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:SGB
name: o-[(s)-methyl(1-methylethoxy)phosphoryl]-l-serine
synonym: "(2S)-2-amino-3-(methyl-propan-2-yloxy-phosphoryl)oxy-propanoic acid" BROAD []
synonym: "O-[(S)-methyl(1-methylethoxy)phosphoryl]-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: SGB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [NH3+][C@H](C(=O)[O-])CO[P@](=O)(OC(C)C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:SHC
name: s-hexylcysteine
synonym: "(2R)-2-amino-3-hexylsulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-hexyl-L-cysteine" BROAD []
synonym: "pdb-ccd: SHC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: CCCCCCSC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:SHP
name: (4-hydroxymaltosephenyl)glycine
synonym: "(2S)-2-amino-2-[4-[(2R,3S,4S,5S,6R)-4,5-dihydroxy-6-(hydroxymethyl)-3-[(2R,3S,4S,5S,6R)-3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]oxy-oxan-2-yl]oxyphenyl]ethanoic acid" BROAD []
synonym: "(2S)-amino{4-[(2-O-alpha-D-mannopyranosyl-alpha-D-mannopyranosyl)oxy]phenyl}ethanoic acid" BROAD []
synonym: "G" BROAD []
synonym: "pdb-ccd: SHP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: OC[C@H]1O[C@H](Oc2ccc(cc2)[C@@H](C(=O)[O-])[NH3+])[C@H]([C@H]([C@@H]1O)O)O[C@H]1O[C@H](CO)[C@H]([C@@H]([C@@H]1O)O)O
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C17
r_displaced_atoms: O19-1

[Term]
id: BpForms:protein:SHR
name: n-(5-amino-5-carboxypentyl)glutamic acid
synonym: "(2S)-2-[[(5S)-5-amino-6-hydroxy-6-oxo-hexyl]amino]pentanedioic acid" BROAD []
synonym: "K" BROAD []
synonym: "N-[(5S)-5-amino-5-carboxypentyl]-L-glutamic acid" BROAD []
synonym: "pdb-ccd: SHR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)CC[C@@H](C(=O)[O-])[NH2+]CCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:SIB
name: (2s)-2-amino-4-({[(2s,3s,4r,5r)-3,4-dihydroxy-5-(6-oxo-1,6-dihydro-9h-purin-9-yl)tetrahydrofuran-2-yl]methyl}thio)butanoic acid
synonym: "(2S)-2-amino-4-({[(2S,3S,4R,5R)-3,4-dihydroxy-5-(6-oxo-1,6-dihydro-9H-purin-9-yl)tetrahydrofuran-2-yl]methyl}sulfanyl)butanoic acid (non-preferred name)" BROAD []
synonym: "(2S)-2-amino-4-[[(2S,3S,4R,5R)-3,4-dihydroxy-5-(6-oxo-1H-purin-9-yl)oxolan-2-yl]methylsulfanyl]butanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: SIB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@H](CCSC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1nc[nH]c2=O)[NH3+]
l_bond_atoms: N32-1
l_displaced_atoms: H32
l_displaced_atoms: H32+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:SKH
name: (3~{s})-5-[[(5~{s})-5-azanyl-6-oxidanyl-6-oxidanylidene-hexyl]amino]-3-methyl-3-oxidanyl-5-oxidanylidene-pentanoic acid
synonym: "(3~{S})-5-[[(5~{S})-5-azanyl-6-oxidanyl-6-oxidanylidene-hexyl]amino]-3-methyl-3-oxidanyl-5-oxidanylidene-pentanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: SKH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O=C(C[C@@](CC(=O)[O-])(O)C)NCCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C18
r_displaced_atoms: O20-1

[Term]
id: BpForms:protein:SLL
name: (2s)-2-azanyl-6-[(4-hydroxy-4-oxo-butanoyl)amino]hexanoic acid
synonym: "(2S)-2-azanyl-6-[(4-hydroxy-4-oxo-butanoyl)amino]hexanoic acid" BROAD []
synonym: "N~6~-(3-carboxypropanoyl)-L-lysine" BROAD []
synonym: "pdb-ccd: SLL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: O=C(CCC(=O)[O-])NCCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C15
r_displaced_atoms: O17-1

[Term]
id: BpForms:protein:SLZ
name: l-thialysine
synonym: "(2R)-2-amino-3-(2-aminoethylsulfanyl)propanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "S-(2-aminoethyl)-L-cysteine" BROAD []
synonym: "pdb-ccd: SLZ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)[C@@H]([NH3+])CSCC[NH3+]
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:SMF
name: 4-sulfomethyl-l-phenylalanine
synonym: "(2S)-2-amino-3-[4-(sulfomethyl)phenyl]propanoic acid" BROAD []
synonym: "4-(sulfomethyl)-L-phenylalanine" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: SMF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [O-]C(=O)[C@H](Cc1ccc(cc1)CS(=O)(=O)[O-])[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:SOC
name: dioxyselenocysteine
synonym: "3-(dioxidoselanyl)-L-alanine" BROAD []
synonym: "U" BROAD []
synonym: "pdb-ccd: SOC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:SEC ! selenocysteine
structure: O=[Se-](=O)C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:SRZ
name: propoxy-l-serine
synonym: "(2S)-2-azanyl-3-(3-oxidanylpropoxy)propanoic acid" BROAD []
synonym: "O-(3-hydroxypropyl)-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: SRZ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OCCCOC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:SUB
name: 3-phenyl-2-{[4-(toluene-4-sulfonyl)-thiomorpholine-3-carbonyl]-amino}-propionic acid ethyl ester
synonym: "X" BROAD []
synonym: "ethyl 2-[[(3R,4R)-4-(4-methylphenyl)sulfonylthiomorpholin-3-yl]carbonylamino]-3-phenyl-propanoate" BROAD []
synonym: "ethyl N-({(3R)-4-[(4-methylphenyl)sulfonyl]thiomorpholin-3-yl}carbonyl)-L-phenylalaninate" BROAD []
synonym: "pdb-ccd: SUB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CCOC(=O)C(Cc1ccccc1)NC(=O)[C@@H]1CSCCN1S(=O)(=O)c1ccc(cc1)C
l_bond_atoms: N14
l_displaced_atoms: H14

[Term]
id: BpForms:protein:SUI
name: (3-amino-2,5-dioxo-1-pyrrolidinyl)acetic acid
synonym: "2-[(3S)-3-amino-2,5-dioxo-pyrrolidin-1-yl]ethanoic acid" BROAD []
synonym: "DG" BROAD []
synonym: "[(3S)-3-amino-2,5-dioxopyrrolidin-1-yl]acetic acid" BROAD []
synonym: "pdb-ccd: SUI" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=O)C[C@@H](C1=O)N
l_bond_atoms: N13
l_displaced_atoms: H13
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:SUN
name: o-[(r)-(dimethylamino)(ethoxy)phosphoryl]-l-serine
synonym: "(2S)-2-amino-3-(dimethylamino-ethoxy-phosphoryl)oxy-propanoic acid" BROAD []
synonym: "O-[(R)-(dimethylamino)(ethoxy)phosphoryl]-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: SUN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: CCO[P@](=O)(N(C)C)OC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:SVX
name: o-[(r)-ethoxy(methyl)phosphoryl]-l-serine
synonym: "(2S)-2-azanyl-3-[ethoxy(methyl)phosphoryl]oxy-propanoic acid" BROAD []
synonym: "O-[(R)-ethoxy(methyl)phosphoryl]-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: SVX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [O-]C(=O)[C@@H]([NH3+])CO[P@](=O)(OCC)C
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:SVY
name: o-[bis(1-methylethoxy)phosphoryl]-l-serine
synonym: "(2S)-2-azanyl-3-di(propan-2-yloxy)phosphoryloxy-propanoic acid" BROAD []
synonym: "O-[bis(propan-2-yloxy)phosphoryl]-L-serine" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: SVY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [NH3+][C@H](C(=O)[O-])COP(=O)(OC(C)C)OC(C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:SWG
name: 2-[(4z)-2-[(1r)-1-amino-2-hydroxy-ethyl]-4-(1h-indol-3-ylmethylidene)-5-oxo-imidazol-1-yl]ethanoic acid
synonym: "2-[(4Z)-2-[(1R)-1-amino-2-hydroxy-ethyl]-4-(1H-indol-3-ylmethylidene)-5-oxo-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "SWG" BROAD []
synonym: "pdb-ccd: SWG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: OC[C@@H](C1=N/C(=C\c2c[nH]c3c2cccc3)/C(=O)N1CC(=O)[O-])[NH3+]
l_bond_atoms: N6
r_bond_atoms: C23
r_displaced_atoms: O25-1

[Term]
id: BpForms:protein:SYS
name: 3-[(2-amino-2-oxoethyl)selanyl]-l-alanine
synonym: "(2R)-2-amino-3-(2-amino-2-oxo-ethyl)selanyl-propanoic acid" BROAD []
synonym: "3-[(2-amino-2-oxoethyl)selanyl]-L-alanine" BROAD []
synonym: "U" BROAD []
synonym: "pdb-ccd: SYS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:SEC ! selenocysteine
structure: NC(=O)C[Se]C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:T0I
name: (2s)-2-amino-3-(2,4-dihydroxy-5-imidazol-1-yl-phenyl)propanoic acid
synonym: "(2S)-2-amino-3-(2,4-dihydroxy-5-imidazol-1-yl-phenyl)propanoic acid" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: T0I" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@H](Cc1cc(c(cc1O)O)n1cncc1)[NH3+]
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:T11
name: 4-[3-(trifluoromethyl)diaziridin-3-yl]-l-phenylalanine
synonym: "(2S)-2-amino-3-[4-[3-(trifluoromethyl)-1,2-diaziridin-3-yl]phenyl]propanoic acid" BROAD []
synonym: "4-[3-(trifluoromethyl)diaziridin-3-yl]-L-phenylalanine" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: T11" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [NH3+][C@H](C(=O)[O-])Cc1ccc(cc1)C1(NN1)C(F)(F)F
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:T66
name: 2-aminoethyllysine-carbonylmethylene-thymine
synonym: "(2R)-6-amino-2-[2-aminoethyl-[2-(5-methyl-2,4-dioxo-pyrimidin-1-yl)ethanoyl]amino]hexanoic acid" BROAD []
synonym: "N~2~-(2-aminoethyl)-N~2~-[(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)acetyl]-D-lysine" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: T66" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]CCN([C@@H](C(=O)[O-])CCCC[NH3+])C(=O)Cn1cc(C)c(=O)[nH]c1=O
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:T8L
name: thio-phosohothreonine
synonym: "(2~{S},3~{R})-2-azanyl-3-[oxidanyl(sulfanyl)phosphoryl]oxy-butanoic acid" BROAD []
synonym: "T" BROAD []
synonym: "pdb-ccd: T8L" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: [O-]C(=O)[C@H]([C@H](OP(=O)(O)[S-])C)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:TA4
name: (s)-2-[4-(aminomethyl)-1h-1,2,3-triazol-1-yl]-4-methylpentanoic acid
synonym: "(2S)-2-[4-(aminomethyl)-1,2,3-triazol-1-yl]-4-methyl-pentanoic acid" BROAD []
synonym: "(2S)-2-[4-(aminomethyl)-1H-1,2,3-triazol-1-yl]-4-methylpentanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: TA4" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]Cc1nnn(c1)[C@H](C(=O)[O-])CC(C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:TAV
name: n-methyl-n-{2-[(2-naphthylsulfonyl)amino]-5-[(2-naphthylsulfonyl)oxy]benzoyl}-l-aspartic acid
synonym: "(2S)-2-[methyl-[2-(naphthalen-2-ylsulfonylamino)-5-naphthalen-2-ylsulfonyloxy-phenyl]carbonyl-amino]butanedioic acid" BROAD []
synonym: "D" BROAD []
synonym: "N-methyl-N-({2-[(naphthalen-2-ylsulfonyl)amino]-5-[(naphthalen-2-ylsulfonyl)oxy]phenyl}carbonyl)-L-aspartic acid" BROAD []
synonym: "pdb-ccd: TAV" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:D ! L-aspartic acid
structure: [O-]C(=O)C[C@H](N(C(=O)c1cc(ccc1[N-]S(=O)(=O)c1ccc2c(c1)cccc2)OS(=O)(=O)c1ccc2c(c1)cccc2)C)C(=O)[O-]
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:TBG
name: 3-methyl-l-valine
synonym: "(2S)-2-azanyl-3,3-dimethyl-butanoic acid" BROAD []
synonym: "3-methyl-L-valine" BROAD []
synonym: "V" BROAD []
synonym: "pdb-ccd: TBG" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:V ! L-valine
structure: [NH3+][C@@H](C(C)(C)C)C(=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:TCQ
name: (1s,2r)-n-{(1e)-5-[(2s)-2-amino-2-carboxyethyl]-2-hydroxy-4-oxocyclohexa-2,5-dien-1-ylidene}-2-phenylcyclopropanaminium
synonym: "(1S,2R)-N-{(1E)-5-[(2S)-2-amino-2-carboxyethyl]-2-hydroxy-4-oxocyclohexa-2,5-dien-1-ylidene}-2-phenylcyclopropanaminium" BROAD []
synonym: "(E)-[5-[(2S)-2-azanyl-3-oxidanyl-3-oxidanylidene-propyl]-2-oxidanyl-4-oxidanylidene-cyclohexa-2,5-dien-1-ylidene]-[(1S,2R)-2-phenylcyclopropyl]azanium" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: TCQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [NH3+][C@H](C(=O)[O-])CC1=C/C(=N\[C@H]2C[C@@H]2c2ccccc2)/C(=CC1=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:TCR
name: cyclomethyltryptophan
synonym: "(3S)-2,3,4,9-tetrahydro-1H-beta-carboline-3-carboxylic acid" BROAD []
synonym: "(3S)-2,3,4,9-tetrahydro-1H-pyrido[3,4-b]indole-3-carboxylic acid" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: TCR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@H]1[NH2+]Cc2c(C1)c1ccccc1[nH]2
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:TEF
name: 4-(2h-tetrazol-2-yl)-l-phenylalanine
synonym: "(2S)-2-azanyl-3-[4-(1,2,3,4-tetrazol-2-yl)phenyl]propanoic acid" BROAD []
synonym: "4-(2H-tetrazol-2-yl)-L-phenylalanine" BROAD []
synonym: "pdb-ccd: TEF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [O-]C(=O)[C@H](Cc1ccc(cc1)n1nncn1)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:TFQ
name: 4-(2,2,2-trifluoroethyl)-l-phenylalanine
synonym: "(2S)-2-amino-3-[4-(2,2,2-trifluoroethyl)phenyl]propanoic acid" BROAD []
synonym: "4-(2,2,2-trifluoroethyl)-L-phenylalanine" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: TFQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [NH3+][C@H](C(=O)[O-])Cc1ccc(cc1)CC(F)(F)F
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:TH6
name: 4-hydroxy-l-threonine
synonym: "(2S,3S)-2-amino-3,4-dihydroxy-butanoic acid" BROAD []
synonym: "4-hydroxy-L-threonine" BROAD []
synonym: "T" BROAD []
synonym: "pdb-ccd: TH6" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: OC[C@H]([C@@H](C(=O)[O-])[NH3+])O
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:THO
name: reduced threonine
synonym: "(2R,3R)-2-aminobutane-1,3-diol" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: THO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: OC[C@H]([C@H](O)C)[NH3+]
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1

[Term]
id: BpForms:protein:THZ
name: 1-[(4s)-4-amino-5-(1,3-benzothiazol-2-yl)-5-oxopentyl]guanidine
synonym: "1-[(4S)-4-amino-5-(1,3-benzothiazol-2-yl)-5-oxopentyl]guanidine" BROAD []
synonym: "1-[(4S)-4-azanyl-5-(1,3-benzothiazol-2-yl)-5-oxo-pentyl]guanidine" BROAD []
synonym: "R" BROAD []
synonym: "pdb-ccd: THZ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: NC(=[NH2+])NCCC[C@@H](C(=O)c1nc2c(s1)cccc2)N
l_bond_atoms: N1
l_displaced_atoms: H1

[Term]
id: BpForms:protein:TIH
name: beta(2-thienyl)alanine
synonym: "(2S)-2-amino-3-thiophen-2-yl-propanoic acid" BROAD []
synonym: "3-thiophen-2-yl-L-alanine" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: TIH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [O-]C(=O)[C@H](Cc1cccs1)[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:TIS
name: o-(1,1-dihydroxyethyl)-l-serine
synonym: "(2S)-2-amino-3-(1,1-dihydroxyethoxy)propanoic acid" BROAD []
synonym: "O-(1,1-dihydroxyethyl)-L-serine" BROAD []
synonym: "pdb-ccd: TIS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: [NH3+][C@H](C(=O)[O-])COC(O)(O)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:TLY
name: (2s)-2-azanyl-6-(ethanethioylamino)hexanoic acid
synonym: "(2S)-2-azanyl-6-(ethanethioylamino)hexanoic acid" BROAD []
synonym: "N~6~-ethanethioyl-L-lysine" BROAD []
synonym: "pdb-ccd: TLY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: CC(=S)NCCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:TMD
name: (6,7-dihydro)4-[(e)-butenyl]-4,n-dimethyl-threonine
synonym: "(2S,3R,4R)-3-hydroxy-4-methyl-2-methylamino-octanoic acid" BROAD []
synonym: "4-butyl-2,4,5-trideoxy-2-(methylamino)-L-xylonic acid" BROAD []
synonym: "T" BROAD []
synonym: "pdb-ccd: TMD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: CCCC[C@H]([C@H]([C@@H](C(=O)[O-])[NH2+]C)O)C
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:TNB
name: s-(2,3,6-trinitrophenyl)cysteine
synonym: "(2R)-2-amino-3-(2,4,6-trinitrophenyl)sulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-(2,4,6-trinitrophenyl)-L-cysteine" BROAD []
synonym: "pdb-ccd: TNB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@H](CSc1c(cc(cc1[N+](=O)[O-])[N+](=O)[O-])[N+](=O)[O-])[NH3+]
l_bond_atoms: N23-1
l_displaced_atoms: H23
l_displaced_atoms: H23+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:TNQ
name: 6-[(carboxymethyl)amino]-7-hydroxy-l-tryptophan
synonym: "(2~{S})-2-azanyl-3-[6-(2-hydroxy-2-oxoethylamino)-7-oxidanyl-1~{H}-indol-3-yl]propanoic acid" BROAD []
synonym: "6-[(carboxymethyl)amino]-7-hydroxy-L-tryptophan" BROAD []
synonym: "pdb-ccd: TNQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)CNc1ccc2c(c1O)[nH]cc2C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N5
l_displaced_atoms: H5
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:TNR
name: o-(2-acetamido-2-deoxy-alpha-d-galactopyranosyl)-l-serine
synonym: "(2S)-3-[(2S,3R,4R,5R,6R)-3-acetamido-4,5-dihydroxy-6-(hydroxymethyl)oxan-2-yl]oxy-2-amino-propanoic acid" BROAD []
synonym: "(2S)-3-{[(2S,3R,4R,5R,6R)-3-(acetylamino)-4,5-dihydroxy-6-(hydroxymethyl)tetrahydro-2H-pyran-2-yl]oxy}-2-aminopropanoic acid (non-preferred name)" BROAD []
synonym: "S" BROAD []
synonym: "pdb-ccd: TNR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OC[C@H]1O[C@H](OC[C@@H](C(=O)[O-])[NH3+])[C@@H]([C@H]([C@H]1O)O)NC(=O)C
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:TOQ
name: 6,7-dihydroxy-l-tryptophan
synonym: "(2S)-2-azanyl-3-[6,7-bis(oxidanyl)-1H-indol-3-yl]propanoic acid" BROAD []
synonym: "6,7-dihydroxy-L-tryptophan" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: TOQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@@H]([NH3+])Cc1c[nH]c2c1ccc(c2O)O
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:TOX
name: 1-hydroperoxy-l-tryptophan
synonym: "(2S)-2-azanyl-3-[1-(dioxidanyl)indol-3-yl]propanoic acid" BROAD []
synonym: "1-hydroperoxy-L-tryptophan" BROAD []
synonym: "pdb-ccd: TOX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: OOn1cc(c2c1cccc2)C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C15
r_displaced_atoms: O17-1

[Term]
id: BpForms:protein:TPJ
name: (5r)-5-tert-butyl-l-proline
synonym: "(2S,5R)-5-tert-butylpyrrolidine-2-carboxylic acid" BROAD []
synonym: "(5R)-5-tert-butyl-L-proline" BROAD []
synonym: "pdb-ccd: TPJ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [O-]C(=O)[C@@H]1CC[C@@H]([NH2+]1)C(C)(C)C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:TPK
name: (1r)-1-[(2s)-pyrrolidin-2-yl]ethane-1,2-diol
synonym: "(1R)-1-[(2S)-pyrrolidin-2-yl]ethane-1,2-diol" BROAD []
synonym: "pdb-ccd: TPK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: OC[C@@H]([C@@H]1CCC[NH2+]1)O
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1

[Term]
id: BpForms:protein:TPL
name: tryptophanol
synonym: "(2S)-2-amino-3-(1H-indol-3-yl)propan-1-ol" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: TPL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: OC[C@H](Cc1c[nH]c2c1cccc2)[NH3+]
l_bond_atoms: N8
l_displaced_atoms: H8

[Term]
id: BpForms:protein:TQI
name: n-{[4-chloro-3-(trifluoromethyl)phenyl]sulfonyl}-l-tryptophan
synonym: "(2S)-2-[[4-chloro-3-(trifluoromethyl)phenyl]sulfonylamino]-3-(1H-indol-3-yl)propanoic acid" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: TQI" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@@H](NS(=O)(=O)c1ccc(c(c1)C(F)(F)F)Cl)Cc1c[nH]c2c1cccc2
l_bond_atoms: N6
l_displaced_atoms: H6
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:TQQ
name: (s)-2-amino-3-(6,7-dihydro-6-imino-7-oxo-1h-indol-3-yl)propanoic acid
synonym: "(2S)-2-amino-3-(6-imino-7-oxo-1H-indol-3-yl)propanoic acid" BROAD []
synonym: "3-[(6Z)-6-imino-7-oxo-6,7-dihydro-1H-indol-3-yl]-L-alanine" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: TQQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@H](Cc1c[nH]c2c1C=CC(=N)C2=O)[NH3+]
l_bond_atoms: N19-1
l_displaced_atoms: H19
l_displaced_atoms: H19+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:TQZ
name: 2-amino-3-pentasulfanylpropan-1-ol
synonym: "(2R)-2-azanyl-3-(pentasulfanyl)propanoic acid" BROAD []
synonym: "3-pentasulfanyl-L-alanine" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: TQZ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@@H]([NH3+])CSSSSS
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:TRF
name: n1-formyl-tryptophan
synonym: "(2S)-2-amino-3-(1-methanoylindol-3-yl)propanoic acid" BROAD []
synonym: "1-formyl-L-tryptophan" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: TRF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: O=Cn1cc(c2c1cccc2)C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C15
r_displaced_atoms: O17-1

[Term]
id: BpForms:protein:TRN
name: nz2-tryptophan
synonym: "(2S)-2-amino-3-(1H-pyrrolo[5,4-b]pyridin-3-yl)propanoic acid" BROAD []
synonym: "3-(1H-pyrrolo[2,3-b]pyridin-3-yl)-L-alanine" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: TRN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@@H]([NH3+])Cc1c[nH]c2c1cccn2
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:TRW
name: trw3-(2-amino-3-hydroxy-propyl)-6-(n'-cyclohexyl-hydrazino)octahydro-indol-7-ol
synonym: "(2S)-2-amino-3-[7-hydroxy-6-(2-phenylhydrazino)-1H-indol-3-yl]propanal" BROAD []
synonym: "(2S)-2-amino-3-[7-hydroxy-6-(2-phenylhydrazinyl)-1H-indol-3-yl]propanal" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: TRW" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [NH3+][C@H](C(=O)[O-])Cc1c[nH]c2c1ccc(c2O)NNc1ccccc1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:TRX
name: 6-hydroxytryptophan
synonym: "(2S)-2-azanyl-3-(6-oxidanyl-1H-indol-3-yl)propanoic acid" BROAD []
synonym: "6-hydroxy-L-tryptophan" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: TRX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@H](Cc1c[nH]c2c1ccc(c2)O)[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:TRY
name: (2z)-2-amino-3-(1h-indol-3-yl)prop-2-enoic acid
synonym: "(2Z)-2-amino-3-(1H-indol-3-yl)prop-2-enoic acid" BROAD []
synonym: "(Z)-2-azanyl-3-(1H-indol-3-yl)prop-2-enoic acid" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: TRY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)/C(=C/c1c[nH]c2c1cccc2)/[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:TST
name: 4-methyl-2-{[4-(toluene-4-sulfonyl)-thiomorpholine-3-carbonyl]-amino}-pentanoic acid
synonym: "(2S)-4-methyl-2-[[(3R)-4-(4-methylphenyl)sulfonylthiomorpholin-3-yl]carbonylamino]pentanoic acid" BROAD []
synonym: "N-({(3R)-4-[(4-methylphenyl)sulfonyl]thiomorpholin-3-yl}carbonyl)-L-leucine" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: TST" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CC(C[C@@H](C(=O)[O-])NC(=O)[C@@H]1CSCCN1S(=O)(=O)c1ccc(cc1)C)C
l_bond_atoms: N9
l_displaced_atoms: H9
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:TSY
name: (2s)-2-amino-3-trisulfanylpropanoic acid
synonym: "(2R)-2-azanyl-3-(trisulfanyl)propanoic acid" BROAD []
synonym: "3-trisulfanyl-L-alanine" BROAD []
synonym: "C" BROAD []
synonym: "pdb-ccd: TSY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [O-]C(=O)[C@@H]([NH3+])CSSS
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:TTQ
name: 6-amino-7-hydroxy-l-tryptophan
synonym: "(2S)-2-amino-3-(6-amino-7-hydroxy-1H-indol-3-yl)propanoic acid" BROAD []
synonym: "6-amino-7-hydroxy-L-tryptophan" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: TTQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@@H]([NH3+])Cc1c[nH]c2c1ccc(c2O)N
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:TTS
name: 3-((3e)-4-hydroxy-3-{[2-(4-hydroxyphenyl)ethyl]imino}-6-oxocyclohexa-1,4-dien-1-yl)alanine
synonym: "(2S)-2-amino-3-[(3E)-4-hydroxy-3-[2-(4-hydroxyphenyl)ethylimino]-6-oxo-1-cyclohexa-1,4-dienyl]propanoic acid" BROAD []
synonym: "3-[(3E)-4-hydroxy-3-{[2-(4-hydroxyphenyl)ethyl]imino}-6-oxocyclohexa-1,4-dien-1-yl]-L-alanine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: TTS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [NH3+][C@H](C(=O)[O-])CC1=C/C(=N\CCc2ccc(cc2)O)/C(=CC1=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:TXY
name: 3-[(5s)-4,5-dihydroxycyclohexa-1,3-dien-1-yl]-l-alanine
synonym: "(2S)-2-azanyl-3-[(5S)-4,5-bis(oxidanyl)cyclohexa-1,3-dien-1-yl]propanoic acid" BROAD []
synonym: "3-[(5S)-4,5-dihydroxycyclohexa-1,3-dien-1-yl]-L-alanine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: TXY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@@H]([NH3+])CC1=CC=C([C@H](C1)O)O
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:TY1
name: o-tert-butyl-l-tyrosine
synonym: "(2S)-2-azanyl-3-[4-[(2-methylpropan-2-yl)oxy]phenyl]propanoic acid" BROAD []
synonym: "O-tert-butyl-L-tyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: TY1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [NH3+][C@H](C(=O)[O-])Cc1ccc(cc1)OC(C)(C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:TY5
name: o-benzyl-l-tyrosine
synonym: "(2S)-2-azanyl-3-(4-phenylmethoxyphenyl)propanoic acid" BROAD []
synonym: "O-benzyl-L-tyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: TY5" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [NH3+][C@H](C(=O)[O-])Cc1ccc(cc1)OCc1ccccc1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:TY8
name: 2,4-bis(hydroperoxy)-5-hydroxy-l-phenylalanine
synonym: "(2S)-2-azanyl-3-(2,4-dihydroperoxy-5-hydroxy-phenyl)propanoic acid" BROAD []
synonym: "2,4-bis(hydroperoxy)-5-hydroxy-L-phenylalanine" BROAD []
synonym: "pdb-ccd: TY8" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: OOc1cc(OO)c(cc1C[C@@H](C(=O)[O-])[NH3+])O
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:TY9
name: 3,4-bis(hydroperoxy)-5-hydroxy-l-phenylalanine
synonym: "(2S)-2-azanyl-3-(3,4-dihydroperoxy-5-hydroxy-phenyl)propanoic acid" BROAD []
synonym: "3,4-bis(hydroperoxy)-5-hydroxy-L-phenylalanine" BROAD []
synonym: "pdb-ccd: TY9" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: OOc1c(O)cc(cc1OO)C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C15
r_displaced_atoms: O17-1

[Term]
id: BpForms:protein:TYB
name: tyrosinal
synonym: "(2S)-2-amino-3-(4-hydroxyphenyl)propanal" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: TYB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [NH3+][C@H](C(=O)[O-])Cc1ccc(cc1)O
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:TYE
name: 4-[(2s)-2-amino-3-hydroxypropyl]phenol
synonym: "4-[(2S)-2-amino-3-hydroxypropyl]phenol" BROAD []
synonym: "4-[(2S)-2-azanyl-3-hydroxy-propyl]phenol" BROAD []
synonym: "pdb-ccd: TYE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: OC[C@H](Cc1ccc(cc1)O)[NH3+]
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1

[Term]
id: BpForms:protein:TYJ
name: 2,5-dihydroxy-n-methyl-l-tyrosine
synonym: "(2S)-2-(methylamino)-3-(2,4,5-trihydroxyphenyl)propanoic acid" BROAD []
synonym: "2,5-dihydroxy-N-methyl-L-tyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: TYJ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@@H]([NH2+]C)Cc1cc(O)c(cc1O)O
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:TYN
name: aminobenzofurazan-o-tyrosine
synonym: "(2S)-2-amino-3-[4-[(7-amino-1,3-dihydro-2,1,3-benzoxadiazol-4-yl)oxy]phenyl]propanoic acid" BROAD []
synonym: "O-(7-amino-1,3-dihydro-2,1,3-benzoxadiazol-4-yl)-L-tyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: TYN" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@H](Cc1ccc(cc1)Oc1ccc(c2c1NON2)N)[NH3+]
l_bond_atoms: N24-1
l_displaced_atoms: H24
l_displaced_atoms: H24+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:TYO
name: (4z,6e)-2-amino-7-hydroperoxy-4-[(e)-2-hydroxyvinyl]hepta-4,6-dienoic acid
synonym: "(2S,4Z,6E)-2-amino-7-hydroperoxy-4-[(E)-2-hydroxyethenyl]hepta-4,6-dienoic acid" BROAD []
synonym: "(2S,6E)-2-amino-7-hydroperoxy-4-(2-hydroxyethenyl)hepta-4,6-dienoic acid" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: TYO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: OC=CC(=C/C=C/OO)C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:TYQ
name: 3-amino-6-hydroxy-tyrosine
synonym: "(2S)-2-amino-3-(5-amino-2,4-dihydroxy-phenyl)propanoic acid" BROAD []
synonym: "3-amino-6-hydroxy-L-tyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: TYQ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@@H]([NH3+])Cc1cc(N)c(cc1O)O
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:TYT
name: tyrosine derivative
synonym: "(2S)-2-amino-3-[(5E)-4-hydroxy-2-oxo-5-(2-phenylcyclopropyl)imino-1-cyclohex-3-enyl]propanoic acid" BROAD []
synonym: "3-{(5E)-4-hydroxy-2-oxo-5-[(2-phenylcyclopropyl)imino]cyclohex-3-en-1-yl}alanine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: TYT" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@H](CC1C/C(=N\C2CC2c2ccccc2)/C(=CC1=O)[O-])[NH3+]
l_bond_atoms: N25-1
l_displaced_atoms: H25
l_displaced_atoms: H25+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:TYX
name: s-(2-anilino-2-oxoethyl)-l-cysteine
synonym: "(2R)-2-amino-3-(2-oxo-2-phenylazanyl-ethyl)sulfanyl-propanoic acid" BROAD []
synonym: "S-[2-oxo-2-(phenylamino)ethyl]-L-cysteine" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: TYX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@H](C(=O)[O-])CSCC(=O)Nc1ccccc1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:TYY
name: 3-(4-hydroxy-3-imino-6-oxo-cyclohexa-1,4-dienyl)-alanine
synonym: "(2S)-2-amino-3-(4-hydroxy-3-imino-6-oxo-1-cyclohexa-1,4-dienyl)propanoic acid" BROAD []
synonym: "3-[(3Z)-4-hydroxy-3-imino-6-oxocyclohexa-1,4-dien-1-yl]-L-alanine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: TYY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@H](CC1=CC(=[NH2+])C(=CC1=O)[O-])[NH3+]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:TZB
name: (4s)-2-[(1e)-1-aminoprop-1-enyl]-4,5-dihydro-1,3-thiazole-4-carboxylic acid
synonym: "(4S)-2-[(1Z)-1-aminoprop-1-en-1-yl]-4,5-dihydro-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "(4S)-2-[(Z)-1-aminoprop-1-enyl]-4,5-dihydro-1,3-thiazole-4-carboxylic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: TZB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H]1CSC(=N1)/C(=C/C)/N
l_bond_atoms: N9
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:U2X
name: o-(cyclohexylmethyl)-l-tyrosine
synonym: "(2S)-2-azanyl-3-[4-(cyclohexylmethoxy)phenyl]propanoic acid" BROAD []
synonym: "O-(cyclohexylmethyl)-L-tyrosine" BROAD []
synonym: "pdb-ccd: U2X" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [NH3+][C@H](C(=O)[O-])Cc1ccc(cc1)OCC1CCCCC1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:U3X
name: 4-[(cyclohexylmethyl)amino]-l-phenylalanine
synonym: "(2S)-2-azanyl-3-[4-(cyclohexylmethylamino)phenyl]propanoic acid" BROAD []
synonym: "4-[(cyclohexylmethyl)amino]-L-phenylalanine" BROAD []
synonym: "pdb-ccd: U3X" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [NH3+][C@H](C(=O)[O-])Cc1ccc(cc1)NCC1CCCCC1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:UF0
name: o-[(r)-hydroxy{[(3r)-3-hydroxy-4-{[3-({2-[(hydroxyacetyl)amino]ethyl}amino)-3-oxopropyl]amino}-2,2-dimethyl-4-oxobutyl]oxy}phosphoryl]-l-serine
synonym: "(2S)-2-azanyl-3-[hydroxy-[(3R)-3-hydroxy-4-[[3-[2-(2-hydroxyethanoylamino)ethylamino]-3-oxo-propyl]amino]-2,2-dimethyl-4-oxo-butoxy]phosphoryl]oxy-propanoic acid" BROAD []
synonym: "pdb-ccd: UF0" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:S ! L-serine
structure: OCC(=O)NCCNC(=O)CCNC(=O)[C@@H](C(COP(=O)(OC[C@@H](C(=O)[O-])[NH3+])[O-])(C)C)O
l_bond_atoms: N30-1
l_displaced_atoms: H30
l_displaced_atoms: H30+1
r_bond_atoms: C27
r_displaced_atoms: O29-1

[Term]
id: BpForms:protein:UM2
name: (2s)-2-amino-n-butyl-propanamide
synonym: "(2S)-2-amino-N-butyl-propanamide" BROAD []
synonym: "N-butyl-L-alaninamide" BROAD []
synonym: "pdb-ccd: UM2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: CCCCNC(=O)[C@@H]([NH3+])C
l_bond_atoms: N5
l_displaced_atoms: H5

[Term]
id: BpForms:protein:UMA
name: uridine-5'-diphosphate-n-acetylmuramoyl-l-alanine
synonym: "(2S)-2-[[(2R)-2-[(2R,3R,4R,5S,6R)-3-acetamido-2-[[[(2R,3S,4R,5R)-5-(2,4-dioxopyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl]oxy-hydroxy-phosphoryl]oxy-5-hydroxy-6-(hydroxymethyl)oxan-4-yl]oxypropanoyl]amino]propanoic acid" BROAD []
synonym: "(2S)-2-{[(2R)-2-{[(2R,3R,4R,5S,6R)-3-(acetylamino)-2-{[(R)-{[(R)-{[(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methoxy}(hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]oxy}-5-hydroxy-6-(hydroxymethyl)tetrahydro-2H-pyran-4-yl]oxy}propanoyl]amino}propanoic acid (non-preferred name)" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: UMA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: OC[C@H]1O[C@H](O[P@](=O)(O[P@@](=O)(OC[C@H]2O[C@H]([C@@H]([C@@H]2O)O)n2ccc(=O)[nH]c2=O)[O-])[O-])[C@@H]([C@H]([C@@H]1O)O[C@@H](C(=O)N[C@H](C(=O)[O-])C)C)NC(=O)C
l_bond_atoms: N50
l_displaced_atoms: H50
r_bond_atoms: C53
r_displaced_atoms: O55-1

[Term]
id: BpForms:protein:UN2
name: 2-amino-4,4-dihydroxybutanoic acid
synonym: "(2S)-2-amino-4,4-dihydroxy-butanoic acid" BROAD []
synonym: "4-hydroxy-L-homoserine" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: UN2" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@H](C(=O)[O-])CC(O)O
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:UNK
name: unknown
synonym: "(2S)-2-aminobutanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: UNK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])CC
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:UOX
name: 3-(oxido-lambda~4~-selanyl)-l-alanine
synonym: "(2R)-2-azanyl-3-hydroseleninyl-propanoic acid" BROAD []
synonym: "3-(oxido-lambda~4~-selanyl)-L-alanine" BROAD []
synonym: "U" BROAD []
synonym: "pdb-ccd: UOX" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:SEC ! selenocysteine
structure: O=[Se-]C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:UU4
name: (2s)-2-amino-4-(l-serylamino)butanoic acid
synonym: "(2S)-2-amino-4-(L-serylamino)butanoic acid" BROAD []
synonym: "(2S)-2-azanyl-4-[[(2S)-2-azanyl-3-oxidanyl-propanoyl]amino]butanoic acid" BROAD []
synonym: "pdb-ccd: UU4" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: OC[C@@H](C(=O)NCC[C@@H](C(=O)[O-])[NH3+])[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:UU5
name: (2s)-2-amino-4-[(oxoacetyl)amino]butanoic acid
synonym: "(2S)-2-amino-4-[(oxoacetyl)amino]butanoic acid" BROAD []
synonym: "(2S)-2-azanyl-4-(oxaldehydoylamino)butanoic acid" BROAD []
synonym: "pdb-ccd: UU5" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: O=CC(=O)NCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N13-1
l_displaced_atoms: H13
l_displaced_atoms: H13+1
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:VAD
name: deaminohydroxyvaline
synonym: "(2R)-2-hydroxy-3-methyl-butanoic acid" BROAD []
synonym: "(2R)-2-hydroxy-3-methylbutanoic acid" BROAD []
synonym: "V" BROAD []
synonym: "pdb-ccd: VAD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:V ! L-valine
structure: O[C@@H](C(=O)[O-])C(C)C
r_bond_atoms: C4
r_displaced_atoms: O6-1

[Term]
id: BpForms:protein:VAH
name: (3r)-3-hydroxy-l-norvaline
synonym: "(2S,3R)-2-azanyl-3-hydroxy-pentanoic acid" BROAD []
synonym: "(3R)-3-hydroxy-L-norvaline" BROAD []
synonym: "pdb-ccd: VAH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:V ! L-valine
structure: CC[C@H]([C@@H](C(=O)[O-])[NH3+])O
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:VB1
name: n^6^-[(1r)-2-{[(1s)-1-carboxypropyl]amino}-2-oxo-1-(sulfanylmethyl)ethyl]-6-oxo-l-lysine
synonym: "(2S)-2-amino-6-[[(2R)-1-[[(2S)-1-hydroxy-1-oxo-butan-2-yl]amino]-1-oxo-3-sulfanyl-propan-2-yl]amino]-6-oxo-hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "N~6~-[(1R)-2-{[(1S)-1-carboxypropyl]amino}-2-oxo-1-(sulfanylmethyl)ethyl]-6-oxo-L-lysine" BROAD []
synonym: "pdb-ccd: VB1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: SC[C@@H](C(=O)N[C@H](C(=O)[O-])CC)NC(=O)CCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N7
l_displaced_atoms: H7
r_bond_atoms: C10
r_displaced_atoms: O12-1

[Term]
id: BpForms:protein:VH0
name: (2s,4s)-4-[4-(aminomethyl)-1,2,3-triazol-1-yl]pyrrolidine-2-carboxylic acid
synonym: "(2S,4S)-4-[4-(aminomethyl)-1,2,3-triazol-1-yl]pyrrolidine-2-carboxylic acid" BROAD []
synonym: "(4S)-4-[4-(aminomethyl)-1H-1,2,3-triazol-1-yl]-L-proline" BROAD []
synonym: "pdb-ccd: VH0" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [NH3+]Cc1nnn(c1)[C@@H]1C[NH2+][C@@H](C1)C(=O)[O-]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C20
r_displaced_atoms: O22-1

[Term]
id: BpForms:protein:VLL
name: (2s)-2,3-diaminobutanoic acid
synonym: "(2S,3R)-2,3-bis(azanyl)butanoic acid" BROAD []
synonym: "(2S,3R)-2,3-diaminobutanoic acid" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: VLL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H]([C@H]([NH3+])C)N
l_bond_atoms: N13
l_displaced_atoms: H13
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:VMS
name: 5'o-[n-(l-valyl)sulphamoyl]adenosine
synonym: "5'-O-(L-valylsulfamoyl)adenosine" BROAD []
synonym: "X" BROAD []
synonym: "[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl N-[(2S)-2-amino-3-methyl-butanoyl]sulfamate" BROAD []
synonym: "pdb-ccd: VMS" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CC([C@@H](C(=O)[N-]S(=O)(=O)OC[C@H]1O[C@H]([C@@H]([C@@H]1O)O)n1cnc2c1ncnc2N)N)C
l_bond_atoms: N26

[Term]
id: BpForms:protein:VOL
name: l-valinol
synonym: "(2S)-2-amino-3-methyl-butan-1-ol" BROAD []
synonym: "(2S)-2-amino-3-methylbutan-1-ol" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: VOL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: OC[C@H](C(C)C)[NH3+]
l_bond_atoms: N8-1
l_displaced_atoms: H8
l_displaced_atoms: H8+1

[Term]
id: BpForms:protein:VR0
name: n~5~-[n-(methylcarbamoyl)carbamimidoyl]-l-ornithine
synonym: "(2S)-2-azanyl-5-[[N-(methylcarbamoyl)carbamimidoyl]amino]pentanoic acid" BROAD []
synonym: "N~5~-[N-(methylcarbamoyl)carbamimidoyl]-L-ornithine" BROAD []
synonym: "pdb-ccd: VR0" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:R ! L-arginine
structure: [O-]C(=O)[C@@H]([NH3+])CCCNC(=[NH2+])NC(=O)NC
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:VYA
name: 2-[(4~{z})-2-[(1~{s})-1-azanyl-3-methyl-butyl]-4-[(4-hydroxyphenyl)methylidene]-5-oxidanylidene-imidazol-1-yl]ethanoic acid
synonym: "2-[(4~{Z})-2-[(1~{S})-1-azanyl-3-methyl-butyl]-4-[(4-hydroxyphenyl)methylidene]-5-oxidanylidene-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "LYG" BROAD []
synonym: "pdb-ccd: VYA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+][C@H](C1=N/C(=C\c2ccc(cc2)O)/C(=O)N1CC(=O)[O-])CC(C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C22
r_displaced_atoms: O24-1

[Term]
id: BpForms:protein:WCR
name: [(2r,4z)-2-(aminomethyl)-2-hydroxy-4-(4-hydroxybenzylidene)-5-oxoimidazolidin-1-yl]acetic acid
synonym: "2-[(2R,4Z)-2-(aminomethyl)-4-[(4-hydroxyphenyl)methylidene]-2-oxidanyl-5-oxidanylidene-imidazolidin-1-yl]ethanoic acid" BROAD []
synonym: "GYG" BROAD []
synonym: "[(2R,4Z)-2-(aminomethyl)-2-hydroxy-4-(4-hydroxybenzylidene)-5-oxoimidazolidin-1-yl]acetic acid" BROAD []
synonym: "pdb-ccd: WCR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]C[C@@]1(O)N/C(=C\c2ccc(cc2)O)/C(=O)N1CC(=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C22
r_displaced_atoms: O24-1

[Term]
id: BpForms:protein:WFP
name: 3,5-difluoro-l-phenylalanine
synonym: "(2S)-2-azanyl-3-(3,5-difluorophenyl)propanoic acid" BROAD []
synonym: "pdb-ccd: WFP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [NH3+][C@H](C(=O)[O-])Cc1cc(F)cc(c1)F
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:WLU
name: (4r)-5-hydroxy-n-methyl-l-leucine
synonym: "(2S,4R)-4-methyl-2-(methylamino)-5-oxidanyl-pentanoic acid" BROAD []
synonym: "(4R)-5-hydroxy-N-methyl-L-leucine" BROAD []
synonym: "L" BROAD []
synonym: "pdb-ccd: WLU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:L ! L-leucine
structure: C[NH2+][C@H](C(=O)[O-])C[C@H](CO)C
l_bond_atoms: N2-1
l_displaced_atoms: H2
l_displaced_atoms: H2+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:WPA
name: (betar)-beta-methoxy-l-phenylalanine
synonym: "(2S,3R)-2-azanyl-3-methoxy-3-phenyl-propanoic acid" BROAD []
synonym: "(betaR)-beta-methoxy-L-phenylalanine" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: WPA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: CO[C@@H]([C@@H](C(=O)[O-])[NH3+])c1ccccc1
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:WRP
name: (betar)-beta-hydroxy-1-[(3r)-3-hydroxy-2-methylbutan-2-yl]-l-tryptophan
synonym: "(2S,3R)-2-azanyl-3-[1-[(3R)-2-methyl-3-oxidanyl-butan-2-yl]indol-3-yl]-3-oxidanyl-propanoic acid" BROAD []
synonym: "(betaR)-beta-hydroxy-1-[(3R)-3-hydroxy-2-methylbutan-2-yl]-L-tryptophan" BROAD []
synonym: "W" BROAD []
synonym: "pdb-ccd: WRP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:W ! L-tryptophan
structure: [O-]C(=O)[C@H]([C@@H](c1cn(c2c1cccc2)C([C@H](O)C)(C)C)O)[NH3+]
l_bond_atoms: N25-1
l_displaced_atoms: H25
l_displaced_atoms: H25+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:WVL
name: (2s,3r)-2-amino-3,5-dimethylhex-4-enoic acid
synonym: "(2S,3R)-2-amino-3,5-dimethylhex-4-enoic acid" BROAD []
synonym: "(2S,3R)-2-azanyl-3,5-dimethyl-hex-4-enoic acid" BROAD []
synonym: "V" BROAD []
synonym: "pdb-ccd: WVL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:V ! L-valine
structure: CC(=C[C@H]([C@@H](C(=O)[O-])[NH3+])C)C
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C8
r_displaced_atoms: O10-1

[Term]
id: BpForms:protein:X2W
name: n-acetyl-l-glutamyl 5-phosphate
synonym: "(2S)-2-acetamido-5-oxo-5-phosphonooxy-pentanoic acid" BROAD []
synonym: "E" BROAD []
synonym: "N-acetyl-5-oxo-5-(phosphonooxy)-L-norvaline" BROAD []
synonym: "pdb-ccd: X2W" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:E ! L-glutamic acid
structure: CC(=O)N[C@H](C(=O)[O-])CCC(=O)OP(=O)([O-])[O-]
l_bond_atoms: N4
l_displaced_atoms: H4
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:X9Q
name: {(2s)-2-[(1s)-1-aminoethyl]-4-benzyl-5-oxo-2,5-dihydro-1h-imidazol-1-yl}acetic acid
synonym: "2-[2-[(1S)-1-aminoethyl]-5-oxo-4-(phenylmethyl)-2H-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "AFG" BROAD []
synonym: "pdb-ccd: X9Q" EXACT []
synonym: "{(2S)-2-[(1S)-1-aminoethyl]-4-benzyl-5-oxo-2,5-dihydro-1H-imidazol-1-yl}acetic acid" BROAD []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: C[C@@H](C1N=C(C(=O)N1CC(=O)[O-])Cc1ccccc1)[NH3+]
l_bond_atoms: N5
r_bond_atoms: C11
r_displaced_atoms: O13-1

[Term]
id: BpForms:protein:XOK
name: (2~{s})-2-azanyl-6-[[(6~{s})-6-sulfanyloctanoyl]amino]hexanoic acid
synonym: "(2~{S})-2-azanyl-6-[[(6~{S})-6-sulfanyloctanoyl]amino]hexanoic acid" BROAD []
synonym: "pdb-ccd: XOK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CC[C@@H](CCCCC(=O)NCCCC[C@@H](C(=O)[O-])[NH3+])S
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C18
r_displaced_atoms: O20-1

[Term]
id: BpForms:protein:XPL
name: n~6~-[(3r,5r)-5-amino-3-methyl-d-prolyl]-l-lysine
synonym: "(2S)-2-azanyl-6-[[(2R,3R,5R)-5-azanyl-3-methyl-pyrrolidin-2-yl]carbonylamino]hexanoic acid" BROAD []
synonym: "N~6~-[(3R,5R)-5-amino-3-methyl-D-prolyl]-L-lysine" BROAD []
synonym: "O" BROAD []
synonym: "pdb-ccd: XPL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:PYL ! pyrrolysine
structure: [O-]C(=O)[C@@H]([NH3+])CCCCNC(=O)[C@@H]1N[C@H](C[C@H]1C)[NH3+]
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:XPR
name: (2s,3as,6r,7as)-6-(sulfooxy)octahydro-1h-indole-2-carboxylic acid
synonym: "(2S,3aS,6R,7aS)-6-(sulfooxy)octahydro-1H-indole-2-carboxylic acid" BROAD []
synonym: "(2S,3aS,6R,7aS)-6-sulfooxy-2,3,3a,4,5,6,7,7a-octahydro-1H-indole-2-carboxylic acid" BROAD []
synonym: "P" BROAD []
synonym: "pdb-ccd: XPR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [O-]C(=O)[C@@H]1C[C@H]2[C@@H]([NH2+]1)C[C@@H](CC2)OS(=O)(=O)[O-]
l_bond_atoms: N11-1
l_displaced_atoms: H11
l_displaced_atoms: H11+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:XW1
name: (2s)-2-amino-7-ethoxy-7-oxoheptanoic acid
synonym: "(2S)-2-amino-7-ethoxy-7-oxoheptanoic acid" BROAD []
synonym: "(2S)-2-azanyl-7-ethoxy-7-oxidanylidene-heptanoic acid" BROAD []
synonym: "pdb-ccd: XW1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: CCOC(=O)CCCC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C12
r_displaced_atoms: O14-1

[Term]
id: BpForms:protein:XX1
name: n~6~-7h-purin-6-yl-l-lysine
synonym: "(2S)-2-amino-6-(7H-purin-6-ylamino)hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "N~6~-7H-purin-6-yl-L-lysine" BROAD []
synonym: "pdb-ccd: XX1" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)[C@H](CCCCNc1ncnc2c1[nH]cn2)[NH3+]
l_bond_atoms: N21-1
l_displaced_atoms: H21
l_displaced_atoms: H21+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:XXA
name: 2,4,5-trideoxy-2-(methylamino)-4-[(2e)-penta-2,4-dien-1-yl]-l-xylonic acid
synonym: "(2S,3R,4R,6E)-3-hydroxy-4-methyl-2-(methylamino)nona-6,8-dienoic acid" BROAD []
synonym: "2,4,5-trideoxy-2-(methylamino)-4-[(2E)-penta-2,4-dien-1-yl]-L-xylonic acid" BROAD []
synonym: "pdb-ccd: XXA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH2+]C)[C@@H]([C@@H](C/C=C/C=C)C)O
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:XXY
name: 2-[(1r,2r)-1-amino-2-hydroxypropyl]-1-(carboxymethyl)-4-(1h-imidazol-5-ylmethyl)-1h-imidazol-5-olate
synonym: "2-[(1R,2R)-1-amino-2-hydroxy-propyl]-3-(carboxymethyl)-5-(3H-imidazol-4-ylmethyl)imidazol-4-olate" BROAD []
synonym: "2-[(1R,2R)-1-amino-2-hydroxypropyl]-1-(carboxymethyl)-4-(1H-imidazol-5-ylmethyl)-1H-imidazol-5-olate" BROAD []
synonym: "THG" BROAD []
synonym: "pdb-ccd: XXY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)Cn1c(O)c(nc1[C@H]([C@H](O)C)[NH3+])Cc1cnc[nH]1
l_bond_atoms: N9
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:XYC
name: (2~{s})-2-azanyl-3-cyclopentyl-propanoic acid
synonym: "(2~{S})-2-azanyl-3-cyclopentyl-propanoic acid" BROAD []
synonym: "pdb-ccd: XYC" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [NH3+][C@H](C(=O)[O-])CC1CCCC1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:YCM
name: s-(2-amino-2-oxoethyl)-l-cysteine
synonym: "(2R)-2-amino-3-(2-amino-2-oxo-ethyl)sulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-(2-amino-2-oxoethyl)-L-cysteine" BROAD []
synonym: "pdb-ccd: YCM" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: NC(=O)CSC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C9
r_displaced_atoms: O11-1

[Term]
id: BpForms:protein:YCP
name: (2s)-piperidine-2-carboxylic acid
synonym: "(2S)-piperidine-2-carboxylic acid" BROAD []
synonym: "pdb-ccd: YCP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]1CCCC[NH2+]1
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:YOF
name: 3-fluorotyrosine
synonym: "(2S)-2-amino-3-(3-fluoro-4-hydroxy-phenyl)propanoic acid" BROAD []
synonym: "3-fluoro-L-tyrosine" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: YOF" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [O-]C(=O)[C@H](Cc1ccc(c(c1)F)O)[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:YPR
name: (4r)-4-[(7-methoxy-2-phenylquinolin-4-yl)oxy]-l-proline
synonym: "(2S,4R)-4-(7-methoxy-2-phenyl-quinolin-4-yl)oxypyrrolidine-2-carboxylic acid" BROAD []
synonym: "(4R)-4-[(7-methoxy-2-phenylquinolin-4-yl)oxy]-L-proline" BROAD []
synonym: "pdb-ccd: YPR" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: COc1ccc2c(c1)nc(cc2O[C@H]1C[NH2+][C@@H](C1)C(=O)[O-])c1ccccc1
l_bond_atoms: N17-1
l_displaced_atoms: H17
l_displaced_atoms: H17+1
r_bond_atoms: C23
r_displaced_atoms: O25-1

[Term]
id: BpForms:protein:YPZ
name: 3-[(3z)-4-hydroxy-6-oxo-3-(2-phenylhydrazinylidene)cyclohexa-1,4-dien-1-yl]-l-alanine
synonym: "(2S)-2-azanyl-3-[(3Z)-4-oxidanyl-6-oxidanylidene-3-(phenylhydrazinylidene)cyclohexa-1,4-dien-1-yl]propanoic acid" BROAD []
synonym: "3-[(3Z)-4-hydroxy-6-oxo-3-(2-phenylhydrazinylidene)cyclohexa-1,4-dien-1-yl]-L-alanine" BROAD []
synonym: "pdb-ccd: YPZ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: [NH3+][C@H](C(=O)[O-])CC1=C/C(=N/Nc2ccccc2)/C(=CC1=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:YTH
name: o-phosphono-l-allothreonine
synonym: "(2S,3S)-2-azanyl-3-phosphonooxy-butanoic acid" BROAD []
synonym: "O-phosphono-L-allothreonine" BROAD []
synonym: "T" BROAD []
synonym: "pdb-ccd: YTH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: [O-]C(=O)[C@H]([C@@H](OP(=O)([O-])[O-])C)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:YYA
name: 2,4,5-trideoxy-2-(methylamino)-4-[(2z)-penta-2,4-dien-1-yl]-l-xylonic acid
synonym: "(2S,3R,4R,6Z)-3-hydroxy-4-methyl-2-(methylamino)nona-6,8-dienoic acid" BROAD []
synonym: "2,4,5-trideoxy-2-(methylamino)-4-[(2Z)-penta-2,4-dien-1-yl]-L-xylonic acid" BROAD []
synonym: "pdb-ccd: YYA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH2+]C)[C@@H]([C@@H](C/C=C\C=C)C)O
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:Z01
name: 3-[(2,2-dimethylpropanoyl)amino]-l-alanine
synonym: "(2S)-2-azanyl-3-(2,2-dimethylpropanoylamino)propanoic acid" BROAD []
synonym: "3-[(2,2-dimethylpropanoyl)amino]-L-alanine" BROAD []
synonym: "A" BROAD []
synonym: "pdb-ccd: Z01" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: [NH3+][C@H](C(=O)[O-])CNC(=O)C(C)(C)C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:Z3E
name: o-benzyl-l-threonine
synonym: "(2S,3R)-2-azanyl-3-phenylmethoxy-butanoic acid" BROAD []
synonym: "O-benzyl-L-threonine" BROAD []
synonym: "pdb-ccd: Z3E" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: C[C@H]([C@@H](C(=O)[O-])[NH3+])OCc1ccccc1
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:Z70
name: (2s)-2-amino-4-(2-amino-1h-imidazol-5-yl)butanoic acid
synonym: "(2S)-2-amino-4-(2-amino-1H-imidazol-5-yl)butanoic acid" BROAD []
synonym: "(2S)-2-azanyl-4-(2-azanyl-1H-imidazol-5-yl)butanoic acid" BROAD []
synonym: "pdb-ccd: Z70" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: [O-]C(=O)[C@@H]([NH3+])CCc1c[nH+]c([nH]1)N
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:ZBZ
name: s-(phenylcarbonyl)-l-cysteine
synonym: "(2R)-2-azanyl-3-(phenylcarbonylsulfanyl)propanoic acid" BROAD []
synonym: "S-benzoyl-L-cysteine" BROAD []
synonym: "pdb-ccd: ZBZ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [NH3+][C@H](C(=O)[O-])CSC(=O)c1ccccc1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:ZCL
name: 3,4-dichloro-l-phenylalanine
synonym: "(2S)-2-azanyl-3-(3,4-dichlorophenyl)propanoic acid" BROAD []
synonym: "3,4-dichloro-L-phenylalanine" BROAD []
synonym: "F" BROAD []
synonym: "pdb-ccd: ZCL" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:F ! L-phenylalanine
structure: [O-]C(=O)[C@H](Cc1ccc(c(c1)Cl)Cl)[NH3+]
l_bond_atoms: N15-1
l_displaced_atoms: H15
l_displaced_atoms: H15+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:ZFB
name: (3r)-3-{[(benzyloxy)carbonyl]amino}-2-oxo-4-phenylbutane-1-diazonium
synonym: "(3R)-2-oxo-4-phenyl-3-phenylmethoxycarbonylamino-butane-1-diazonium" BROAD []
synonym: "(3R)-3-{[(benzyloxy)carbonyl]amino}-2-oxo-4-phenylbutane-1-diazonium" BROAD []
synonym: "X" BROAD []
synonym: "pdb-ccd: ZFB" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: N#[N+]CC(=O)[C@@H](Cc1ccccc1)NC(=O)OCc1ccccc1
l_bond_atoms: N15
l_displaced_atoms: H15

[Term]
id: BpForms:protein:ZU0
name: o-tert-butyl-l-threonine
synonym: "(2S,3R)-2-azanyl-3-[(2-methylpropan-2-yl)oxy]butanoic acid" BROAD []
synonym: "O-tert-butyl-L-threonine" BROAD []
synonym: "T" BROAD []
synonym: "pdb-ccd: ZU0" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: C[C@H]([C@@H](C(=O)[O-])[NH3+])OC(C)(C)C
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:ZYJ
name: (4r)-4-({[(1e)-(3,4-dimethoxyphenyl)methylidene]amino}oxy)-l-proline
synonym: "(2S,4R)-4-[(E)-(3,4-dimethoxyphenyl)methylideneamino]oxypyrrolidine-2-carboxylic acid" BROAD []
synonym: "(4R)-4-({[(E)-(3,4-dimethoxyphenyl)methylidene]amino}oxy)-L-proline" BROAD []
synonym: "pdb-ccd: ZYJ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: COc1cc(/C=N/O[C@H]2C[NH2+][C@@H](C2)C(=O)[O-])ccc1OC
l_bond_atoms: N12-1
l_displaced_atoms: H12
l_displaced_atoms: H12+1
r_bond_atoms: C18
r_displaced_atoms: O20-1

[Term]
id: BpForms:protein:ZYK
name: (4r)-4-({[(3,4-dimethoxyphenyl)carbonyl]amino}oxy)-l-proline
synonym: "(2S,4R)-4-[(3,4-dimethoxyphenyl)carbonylamino]oxypyrrolidine-2-carboxylic acid" BROAD []
synonym: "(4R)-4-{[(3,4-dimethoxybenzoyl)amino]oxy}-L-proline" BROAD []
synonym: "pdb-ccd: ZYK" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: COc1cc(ccc1OC)C(=O)NO[C@H]1C[NH2+][C@@H](C1)C(=O)[O-]
l_bond_atoms: N18-1
l_displaced_atoms: H18
l_displaced_atoms: H18+1
r_bond_atoms: C24
r_displaced_atoms: O26-1

[Term]
id: BpForms:protein:ZZD
name: s-trityl-l-cysteine
synonym: "(2R)-2-amino-3-tritylsulfanyl-propanoic acid" BROAD []
synonym: "C" BROAD []
synonym: "S-trityl-L-cysteine" BROAD []
synonym: "pdb-ccd: ZZD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: [NH3+][C@H](C(=O)[O-])CSC(c1ccccc1)(c1ccccc1)c1ccccc1
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:ZZJ
name: n^2^-methyl-l-alaninamide
synonym: "(2S)-2-methylaminopropanamide" BROAD []
synonym: "A" BROAD []
synonym: "N~2~-methyl-L-alaninamide" BROAD []
synonym: "pdb-ccd: ZZJ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:A ! L-alanine
structure: C[C@H]([NH2+]C)C(=O)N
l_bond_atoms: N4-1
l_displaced_atoms: H4
l_displaced_atoms: H4+1

[Term]
id: BpForms:protein:ZZU
name: (2s,3s)-3-hydroxyarginine
synonym: "(2S,3S)-2-amino-5-carbamimidamido-3-hydroxy-pentanoic acid" BROAD []
synonym: "(2S,3S)-2-amino-5-carbamimidamido-3-hydroxypentanoic acid (non-preferred name)" BROAD []
synonym: "pdb-ccd: ZZU" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: O[C@H]([C@@H](C(=O)[O-])[NH3+])CCNC(=[NH2+])N
l_bond_atoms: N9-1
l_displaced_atoms: H9
l_displaced_atoms: H9+1
r_bond_atoms: C6
r_displaced_atoms: O8-1

[Term]
id: BpForms:protein:T9E
name: selenothreonine
synonym: "(2~{R},3~{R})-2-azanyl-3-selanyl-butanoic acid" BROAD []
synonym: "T" BROAD []
synonym: "pdb-ccd: T9E" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:T ! L-threonine
structure: [O-]C(=O)[C@@H]([NH3+])[C@H]([SeH])C
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:FOD
name: (2s)-2-amino-4-[1-(trans-4-hydroxycyclohexyl)-1h-1,2,3-triazol-4-yl]butanoic acid
synonym: "(2S)-2-amino-4-[1-(trans-4-hydroxycyclohexyl)-1H-1,2,3-triazol-4-yl]butanoic acid" BROAD []
synonym: "(2~{S})-2-azanyl-4-[1-(4-oxidanylcyclohexyl)-1,2,3-triazol-4-yl]butanoic acid" BROAD []
synonym: "pdb-ccd: FOD" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: OC1CCC(CC1)n1nnc(c1)CC[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C17
r_displaced_atoms: O19-1

[Term]
id: BpForms:protein:HOO
name: (2~{s})-2-azanyl-3-[2,5-bis(oxidanylidene)imidazol-4-yl]propanoic acid
synonym: "(2~{S})-2-azanyl-3-[2,5-bis(oxidanylidene)imidazol-4-yl]propanoic acid" BROAD []
synonym: "H" BROAD []
synonym: "pdb-ccd: HOO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:H ! L-histidine
structure: [O-]C(=O)[C@H](CC1=NC(=O)[N-]C1=O)[NH3+]
l_bond_atoms: N14-1
l_displaced_atoms: H14
l_displaced_atoms: H14+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:F7Q
name: (2~{s})-2-azanyl-3-[1-(dioxidanyl)-4-oxidanylidene-cyclohexa-2,5-dien-1-yl]propanoic acid
synonym: "(2~{S})-2-azanyl-3-[1-(dioxidanyl)-4-oxidanylidene-cyclohexa-2,5-dien-1-yl]propanoic acid" BROAD []
synonym: "Y" BROAD []
synonym: "pdb-ccd: F7Q" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:Y ! L-tyrosine
structure: OOC1(C=CC(=O)C=C1)C[C@@H](C(=O)[O-])[NH3+]
l_bond_atoms: N16-1
l_displaced_atoms: H16
l_displaced_atoms: H16+1
r_bond_atoms: C13
r_displaced_atoms: O15-1

[Term]
id: BpForms:protein:RF9
name: n~6~-[(1r)-1-carboxyethyl]-l-lysine
synonym: "(2~{S})-2-azanyl-6-[[(2~{R})-1-oxidanyl-1-oxidanylidene-propan-2-yl]amino]hexanoic acid" BROAD []
synonym: "N~6~-[(1R)-1-carboxyethyl]-L-lysine" BROAD []
synonym: "pdb-ccd: RF9" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](CCCC[NH2+][C@@H](C(=O)[O-])C)[NH3+]
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C15
r_displaced_atoms: O17-1

[Term]
id: BpForms:protein:JBY
name: (2s)-2-{(4z)-2-(aminomethyl)-4-[(4-hydroxyphenyl)methylidene]-5-oxo-4,5-dihydro-1h-imidazol-1-yl}propanoic acid
synonym: "(2S)-2-{(4Z)-2-(aminomethyl)-4-[(4-hydroxyphenyl)methylidene]-5-oxo-4,5-dihydro-1H-imidazol-1-yl}propanoic acid" BROAD []
synonym: "(2~{S})-2-[(4~{Z})-2-(aminomethyl)-4-[(4-hydroxyphenyl)methylidene]-5-oxidanylidene-imidazol-1-yl]propanoic acid" BROAD []
synonym: "pdb-ccd: JBY" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [NH3+]CC1=N/C(=C\c2ccc(cc2)O)/C(=O)N1[C@H](C(=O)[O-])C
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C22
r_displaced_atoms: O24-1

[Term]
id: BpForms:protein:BJO
name: (4z)-4-amino-4-{1-(carboxymethyl)-5-oxo-4-[(4-oxocyclohexa-2,5-dien-1-ylidene)methyl]-1,5-dihydro-2h-imidazol-2-ylidene}butanoic acid
synonym: "(4Z)-4-amino-4-{1-(carboxymethyl)-5-oxo-4-[(4-oxocyclohexa-2,5-dien-1-ylidene)methyl]-1,5-dihydro-2H-imidazol-2-ylidene}butanoic acid" BROAD []
synonym: "(4~{Z})-4-azanyl-4-[1-(2-hydroxy-2-oxoethyl)-5-oxidanylidene-4-[(4-oxidanylidenecyclohexa-2,5-dien-1-ylidene)methyl]imidazol-2-ylidene]butanoic acid" BROAD []
synonym: "pdb-ccd: BJO" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=O)C(=N/C/1=C(\CCC(=O)[O-])/N)C=C1C=CC(=O)C=C1
l_bond_atoms: N9
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:EOE
name: beta3-proline
synonym: "2-[(2~{S})-pyrrolidin-2-yl]ethanoic acid" BROAD []
synonym: "pdb-ccd: EOE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)C[C@@H]1CCC[NH2+]1
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:FQA
name: n~6~-benzyl-l-lysine
synonym: "(2~{S})-2-azanyl-6-[(phenylmethyl)amino]hexanoic acid" BROAD []
synonym: "N~6~-benzyl-L-lysine" BROAD []
synonym: "pdb-ccd: FQA" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [O-]C(=O)[C@H](CCCC[NH2+]Cc1ccccc1)[NH3+]
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:9KP
name: (e)-n~6~-[(2e)-1-carboxy-3-(2-carboxyphenyl)prop-2-en-1-ylidene]-l-lysine
synonym: "(E)-N~6~-[(2E)-1-carboxy-3-(2-carboxyphenyl)prop-2-en-1-ylidene]-L-lysine" BROAD []
synonym: "2-[(~{E},3~{E})-3-[(5~{S})-5-azanyl-6-oxidanyl-6-oxidanylidene-hexyl]imino-4-oxidanyl-4-oxidanylidene-but-1-enyl]benzoic acid" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: 9KP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: [NH3+][C@H](C(=O)[O-])CCCC/[NH+]=C(/C(=O)[O-])\C=C\c1ccccc1C(=O)[O-]
l_bond_atoms: N1-1
l_displaced_atoms: H1
l_displaced_atoms: H1+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:GZJ
name: (2s)-2-(acetylamino)butanoic acid
synonym: "(2S)-2-(acetylamino)butanoic acid" BROAD []
synonym: "(2~{S})-2-acetamidobutanoic acid" BROAD []
synonym: "pdb-ccd: GZJ" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: CC[C@@H](C(=O)[O-])NC(=O)C
l_bond_atoms: N8
l_displaced_atoms: H8
r_bond_atoms: C5
r_displaced_atoms: O7-1

[Term]
id: BpForms:protein:HJH
name: (2~{s})-2-azanyl-3-(2-methyl-5-oxidanyl-1,2,3-triazol-4-yl)propanoic acid
synonym: "(2~{S})-2-azanyl-3-(2-methyl-5-oxidanyl-1,2,3-triazol-4-yl)propanoic acid" BROAD []
synonym: "pdb-ccd: HJH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]c1nn(nc1C[C@H]([NH3+])C(=O)[O-])C
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C14
r_displaced_atoms: O16-1

[Term]
id: BpForms:protein:FHE
name: 2-[(4~{z})-2-[(1~{r})-1-azanyl-2-oxidanylidene-propyl]-4-[[4-[(2-nitrophenyl)methoxy]phenyl]methylidene]-5-oxidanylidene-imidazol-1-yl]ethanoic acid
synonym: "2-[(4~{Z})-2-[(1~{R})-1-azanyl-2-oxidanylidene-propyl]-4-[[4-[(2-nitrophenyl)methoxy]phenyl]methylidene]-5-oxidanylidene-imidazol-1-yl]ethanoic acid" BROAD []
synonym: "TYG" BROAD []
synonym: "pdb-ccd: FHE" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)CN1C(=N/C(=C\c2ccc(cc2)OCc2ccccc2[N+](=O)[O-])/C1=O)[C@H](C(=O)C)N
l_bond_atoms: N7
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:JLP
name: (2s)-2-azanyl-6-[e-[5-(hydroxymethyl)-2-methyl-3-oxidanyl-pyridin-4-yl]methylideneamino]hexanoic acid
synonym: "(2~{S})-2-azanyl-6-[(~{E})-[5-(hydroxymethyl)-2-methyl-3-oxidanyl-pyridin-4-yl]methylideneamino]hexanoic acid" BROAD []
synonym: "K" BROAD []
synonym: "pdb-ccd: JLP" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:K ! L-lysine
structure: OCc1cnc(c(c1/C=N/CCCC[C@@H](C(=O)[O-])[NH3+])O)C
l_bond_atoms: N20-1
l_displaced_atoms: H20
l_displaced_atoms: H20+1
r_bond_atoms: C17
r_displaced_atoms: O19-1

[Term]
id: BpForms:protein:JKH
name: 4-amino-proline
synonym: "P" BROAD []
synonym: "[(3~{S},5~{S})-5-carboxypyrrolidin-3-yl]azanium" BROAD []
synonym: "pdb-ccd: JKH" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:P ! L-proline
structure: [O-]C(=O)[C@@H]1C[C@@H](C[NH2+]1)[NH3+]
l_bond_atoms: N10-1
l_displaced_atoms: H10
l_displaced_atoms: H10+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:F7P
name: 1-[(3r)-3-hydroxy-2-methylbutan-2-yl]-l-tryptophan
synonym: "(2~{S})-2-azanyl-3-[1-[(3~{R})-2-methyl-3-oxidanyl-butan-2-yl]indol-3-yl]propanoic acid" BROAD []
synonym: "1-[(3R)-3-hydroxy-2-methylbutan-2-yl]-L-tryptophan" BROAD []
synonym: "pdb-ccd: F7P" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@H](Cc1cn(c2c1cccc2)C([C@H](O)C)(C)C)[NH3+]
l_bond_atoms: N23-1
l_displaced_atoms: H23
l_displaced_atoms: H23+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:F7S
name: (4s)-5-hydroxy-n-methyl-l-leucine
synonym: "(2~{S},4~{S})-4-methyl-2-(methylamino)-5-oxidanyl-pentanoic acid" BROAD []
synonym: "(4S)-5-hydroxy-N-methyl-L-leucine" BROAD []
synonym: "pdb-ccd: F7S" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: C[NH2+][C@H](C(=O)[O-])C[C@@H](CO)C
l_bond_atoms: N2-1
l_displaced_atoms: H2
l_displaced_atoms: H2+1
r_bond_atoms: C7
r_displaced_atoms: O9-1

[Term]
id: BpForms:protein:F7V
name: (2s,4e)-2-aminohex-4-enoic acid
synonym: "(2S,4E)-2-aminohex-4-enoic acid" BROAD []
synonym: "(~{E},2~{S})-2-azanylhex-4-enoic acid" BROAD []
synonym: "pdb-ccd: F7V" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
structure: [O-]C(=O)[C@@H]([NH3+])C/C=C/C
l_bond_atoms: N6-1
l_displaced_atoms: H6
l_displaced_atoms: H6+1
r_bond_atoms: C2
r_displaced_atoms: O1-1

[Term]
id: BpForms:protein:SGergerOMeCys
name: S-geranylgeranyl-L-cysteine methyl ester
synonym: "mod: MOD:01119" EXACT []
is_a: BpForms:monomer ! monomeric form
relationship: part_of BpForms:protein ! Protein amino acids
relationship: derives_from BpForms:protein:C ! L-cysteine
structure: COC(=O)[C@H](CSC/C=C(/CC/C=C(/CC/C=C(/CCC=C(C)C)\C)\C)\C)[NH3+]
l_bond_atoms: N29-1
l_displaced_atoms: H29
l_displaced_atoms: H29+1

[Term]
id: BpForms:crosslink:A,C
name: 
synonym: "2-(L-cystein-S-yl)-L-alanine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:A ! L-alanine
relationship: r_monomer BpForms:protein:C ! L-cysteine
l_bond_atoms: C2
r_bond_atoms: S11
l_displaced_atoms: H2
r_displaced_atoms: H11

[Term]
id: BpForms:crosslink:disulfide
name: disulfide
synonym: "L-cystine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:C ! L-cysteine
relationship: r_monomer BpForms:protein:C ! L-cysteine
l_bond_atoms: S11
r_bond_atoms: S11
l_displaced_atoms: H11
r_displaced_atoms: H11

[Term]
id: BpForms:crosslink:AA0126
name: isoaspartyl_glycine_isopeptide
synonym: "N-(L-isoaspartyl)-glycine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:D ! L-aspartic acid
relationship: r_monomer BpForms:protein:G ! glycine
l_bond_atoms: C6
r_bond_atoms: N5-1
l_displaced_atoms: O8+1
r_displaced_atoms: H5+1
r_displaced_atoms: H5

[Term]
id: BpForms:crosslink:AA0206
name: glycine_cysteine_thioester
synonym: "S-glycyl-L-cysteine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:G ! glycine
relationship: r_monomer BpForms:protein:C ! L-cysteine
l_bond_atoms: C2
r_bond_atoms: S11
l_displaced_atoms: O1
l_displaced_atoms: H1
r_displaced_atoms: H11

[Term]
id: BpForms:crosslink:AA0360
name: isoglutamyl_glycine_isopeptide
synonym: "N-(L-isoglutamyl)-glycine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:G ! glycine
relationship: r_monomer BpForms:protein:E ! L-glutamic acid
l_bond_atoms: N5-1
r_bond_atoms: C7
l_displaced_atoms: H5+1
l_displaced_atoms: H5
r_displaced_atoms: O9+1

[Term]
id: BpForms:crosslink:AA0368
name: 
synonym: "3'-(L-tyros-O4'-yl)-L-tyrosine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:Y ! L-tyrosine
relationship: r_monomer BpForms:protein:Y ! L-tyrosine
l_bond_atoms: C9
r_bond_atoms: O13
l_displaced_atoms: H9
r_displaced_atoms: H13

[Term]
id: BpForms:crosslink:AA0411
name: alanine_cysteine_thioester
synonym: "S-(L-alanyl)-L-cysteine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:A ! L-alanine
relationship: r_monomer BpForms:protein:C ! L-cysteine
l_bond_atoms: C8
r_bond_atoms: S11
l_displaced_atoms: O10
l_displaced_atoms: H10
r_displaced_atoms: H11

[Term]
id: BpForms:crosslink:AA0413
name: methionine_cysteine_thioester
synonym: "S-(L-methionyl)-L-cysteine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:C ! L-cysteine
relationship: r_monomer BpForms:protein:M ! L-methionine
l_bond_atoms: S11
r_bond_atoms: C11
l_displaced_atoms: H11
r_displaced_atoms: O13
r_displaced_atoms: H13

[Term]
id: BpForms:crosslink:AA0414
name: phenylalanine_cysteine_thioester
synonym: "S-(L-phenylalanyl)-L-cysteine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:F ! L-phenylalanine
relationship: r_monomer BpForms:protein:C ! L-cysteine
l_bond_atoms: C7
r_bond_atoms: S11
l_displaced_atoms: O9
l_displaced_atoms: H9
r_displaced_atoms: H11

[Term]
id: BpForms:crosslink:AA0415
name: threonine_cysteine_thioester
synonym: "S-(L-threonyl)-L-cysteine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:T ! L-threonine
relationship: r_monomer BpForms:protein:C ! L-cysteine
l_bond_atoms: C6
r_bond_atoms: S11
l_displaced_atoms: O8
l_displaced_atoms: H8
r_displaced_atoms: H11

[Term]
id: BpForms:crosslink:AA0416
name: tyrosine_cysteine_thioester
synonym: "S-(L-tyrosyl)-L-cysteine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:Y ! L-tyrosine
relationship: r_monomer BpForms:protein:C ! L-cysteine
l_bond_atoms: C2
r_bond_atoms: S11
l_displaced_atoms: O1
l_displaced_atoms: H1
r_displaced_atoms: H11

[Term]
id: BpForms:crosslink:AA0417
name: tryptophan_cysteine_thioester
synonym: "S-(L-tryptophanyl)-L-cysteine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:W ! L-tryptophan
relationship: r_monomer BpForms:protein:C ! L-cysteine
l_bond_atoms: C2
r_bond_atoms: S11
l_displaced_atoms: O1
l_displaced_atoms: H1
r_displaced_atoms: H11

[Term]
id: BpForms:crosslink:AA0495
name: serine_glycinate_ester
synonym: "O-glycyl-L-serine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:G ! glycine
relationship: r_monomer BpForms:protein:S ! L-serine
l_bond_atoms: C2
r_bond_atoms: O1
l_displaced_atoms: O1
l_displaced_atoms: H1
r_displaced_atoms: H1

[Term]
id: BpForms:crosslink:AA0505
name: 
synonym: "N2-(L-isoglutamyl)-L-lysine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:E ! L-glutamic acid
relationship: r_monomer BpForms:protein:K ! L-lysine
l_bond_atoms: C7
r_bond_atoms: N14-1
l_displaced_atoms: O9+1
r_displaced_atoms: H14+1
r_displaced_atoms: H14

[Term]
id: BpForms:crosslink:AA0536
name: 
synonym: "O-(isoglutamyl)-L-threonine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:T ! L-threonine
relationship: r_monomer BpForms:protein:Q ! L-glutamine
l_bond_atoms: O13
r_bond_atoms: C2
l_displaced_atoms: H13
r_displaced_atoms: N1
r_displaced_atoms: H1
r_displaced_atoms: H1

[Term]
id: BpForms:crosslink:AA0586
name: 
synonym: "L-lysinonorleucine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:K ! L-lysine
relationship: r_monomer BpForms:protein:K ! L-lysine
l_bond_atoms: N1
r_bond_atoms: C5
l_displaced_atoms: H1
r_displaced_atoms: N1-1
r_displaced_atoms: H1+1
r_displaced_atoms: H1
r_displaced_atoms: H1

[Term]
id: BpForms:crosslink:C,D
name: 
synonym: "3-(S-L-cysteinyl)-L-aspartic acid" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:C ! L-cysteine
relationship: r_monomer BpForms:protein:D ! L-aspartic acid
l_bond_atoms: S11
r_bond_atoms: C5
l_displaced_atoms: H11
r_displaced_atoms: H5

[Term]
id: BpForms:crosslink:C,L
name: leucine_cysteine_thioester
synonym: "S-(L-leucyl)-L-cysteine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:C ! L-cysteine
relationship: r_monomer BpForms:protein:L ! L-leucine
l_bond_atoms: S11
r_bond_atoms: C7
l_displaced_atoms: H11
r_displaced_atoms: O9
r_displaced_atoms: H9

[Term]
id: BpForms:crosslink:C,M
name: 
synonym: "2-(L-cystein-S-yl)-L-methionine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:C ! L-cysteine
relationship: r_monomer BpForms:protein:M ! L-methionine
l_bond_atoms: S11
r_bond_atoms: C5
l_displaced_atoms: H11
r_displaced_atoms: H5

[Term]
id: BpForms:crosslink:C,Q
name: isoglutamyl_cysteine_thioester
synonym: "S-(L-isoglutamyl)-L-cysteine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:C ! L-cysteine
relationship: r_monomer BpForms:protein:Q ! L-glutamine
l_bond_atoms: S11
r_bond_atoms: C2
l_displaced_atoms: H11
r_displaced_atoms: N1
r_displaced_atoms: H1
r_displaced_atoms: H1

[Term]
id: BpForms:crosslink:C,S
name: 
synonym: "2-(L-cystein-S-yl)-L-serine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:C ! L-cysteine
relationship: r_monomer BpForms:protein:S ! L-serine
l_bond_atoms: S11
r_bond_atoms: C3
l_displaced_atoms: H11
r_displaced_atoms: H3

[Term]
id: BpForms:crosslink:C,Y
name: 
synonym: "2-(L-cystein-S-yl)-D-tyrosine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:C ! L-cysteine
relationship: r_monomer BpForms:protein:Y ! L-tyrosine
l_bond_atoms: S11
r_bond_atoms: C4
l_displaced_atoms: H11
r_displaced_atoms: H4

[Term]
id: BpForms:crosslink:D,K
name: 
synonym: "N6-(L-aspartyl)-L-lysine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:D ! L-aspartic acid
relationship: r_monomer BpForms:protein:K ! L-lysine
l_bond_atoms: C2
r_bond_atoms: N1-1
l_displaced_atoms: H2
r_displaced_atoms: H1+1
r_displaced_atoms: H1

[Term]
id: BpForms:crosslink:D,T
name: threonine_aspartic_ester
synonym: "O-isoaspartyl-L-threonine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:D ! L-aspartic acid
relationship: r_monomer BpForms:protein:T ! L-threonine
l_bond_atoms: C6
r_bond_atoms: O13
l_displaced_atoms: O8+1
r_displaced_atoms: H13

[Term]
id: BpForms:crosslink:E,S
name: isoglutamyl_serine_ester
synonym: "O-(L-isoglutamyl)-L-serine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:E ! L-glutamic acid
relationship: r_monomer BpForms:protein:S ! L-serine
l_bond_atoms: C7
r_bond_atoms: O1
l_displaced_atoms: O9+1
r_displaced_atoms: H1

[Term]
id: BpForms:crosslink:F,S
name: phenylalanine_serine_ester
synonym: "O-(L-phenylalanyl)-L-serine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:F ! L-phenylalanine
relationship: r_monomer BpForms:protein:S ! L-serine
l_bond_atoms: C7
r_bond_atoms: O1
l_displaced_atoms: O9
l_displaced_atoms: H9
r_displaced_atoms: H1

[Term]
id: BpForms:crosslink:F,V
name: 
synonym: "3-(L-phenylalan-2'-yl)-L-valine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:F ! L-phenylalanine
relationship: r_monomer BpForms:protein:V ! L-valine
l_bond_atoms: C12
r_bond_atoms: C11
l_displaced_atoms: H12
r_displaced_atoms: H11

[Term]
id: BpForms:crosslink:G,K
name: glycyl_lysine_isopeptide
synonym: "N6-glycyl-L-lysine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:G ! glycine
relationship: r_monomer BpForms:protein:K ! L-lysine
l_bond_atoms: C2
r_bond_atoms: N1-1
l_displaced_atoms: O1
l_displaced_atoms: H1
r_displaced_atoms: H1+1
r_displaced_atoms: H1

[Term]
id: BpForms:crosslink:G,T
name: threonine_glycinate_ester
synonym: "O-glycyl-L-threonine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:G ! glycine
relationship: r_monomer BpForms:protein:T ! L-threonine
l_bond_atoms: C2
r_bond_atoms: O13
l_displaced_atoms: O1
l_displaced_atoms: H1
r_displaced_atoms: H13

[Term]
id: BpForms:crosslink:K,N
name: isoaspartyl_lysine_isopeptide
synonym: "N6-(L-isoaspartyl)-L-lysine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:K ! L-lysine
relationship: r_monomer BpForms:protein:N ! L-asparagine
l_bond_atoms: N1-1
r_bond_atoms: C2
l_displaced_atoms: H1+1
l_displaced_atoms: H1
r_displaced_atoms: N1
r_displaced_atoms: H1
r_displaced_atoms: H1

[Term]
id: BpForms:crosslink:K,Q
name: isoglutamyl_lysine_isopeptide
synonym: "N6-(L-isoglutamyl)-L-lysine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:K ! L-lysine
relationship: r_monomer BpForms:protein:Q ! L-glutamine
l_bond_atoms: N1-1
r_bond_atoms: C2
l_displaced_atoms: H1+1
l_displaced_atoms: H1
r_displaced_atoms: N1
r_displaced_atoms: H1
r_displaced_atoms: H1

[Term]
id: BpForms:crosslink:K,S
name: 
synonym: "L-lysinoalanine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:K ! L-lysine
relationship: r_monomer BpForms:protein:S ! L-serine
l_bond_atoms: N1
r_bond_atoms: C2
l_displaced_atoms: H1
r_displaced_atoms: O1
r_displaced_atoms: H1

[Term]
id: BpForms:crosslink:K,T
name: 
synonym: "N6-(L-threonyl)-L-lysine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:K ! L-lysine
relationship: r_monomer BpForms:protein:T ! L-threonine
l_bond_atoms: N1-1
r_bond_atoms: C6
l_displaced_atoms: H1+1
l_displaced_atoms: H1
r_displaced_atoms: O8
r_displaced_atoms: H8

[Term]
id: BpForms:crosslink:U,U
name: 
synonym: "L-selenocystine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:U ! L-selenocysteine
relationship: r_monomer BpForms:protein:U ! L-selenocysteine
l_bond_atoms: Se8
r_bond_atoms: Se8
l_displaced_atoms: H8
r_displaced_atoms: H8

[Term]
id: BpForms:crosslink:V,Y
name: 
synonym: "3-(O4'-L-tyrosyl)-L-valine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:V ! L-valine
relationship: r_monomer BpForms:protein:Y ! L-tyrosine
l_bond_atoms: C9
r_bond_atoms: O13
l_displaced_atoms: H9
r_displaced_atoms: H13

[Term]
id: BpForms:crosslink:Y,Y
name: 
synonym: "3'-(L-tyros-3'-yl)-L-tyrosine" BROAD []
is_a: BpForms:crosslink ! crosslink
relationship: l_monomer BpForms:protein:Y ! L-tyrosine
relationship: r_monomer BpForms:protein:Y ! L-tyrosine
l_bond_atoms: C9
r_bond_atoms: C9
l_displaced_atoms: H9
r_displaced_atoms: H9