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protein.yml
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protein.yml
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id: protein
name: RESID protein amino acids
description: The 20 canonical amino acids, plus the non-canonical amino acids in <a
href="https://pir.georgetown.edu/resid">RESID</a>
monomers:
A:
id: Ala
name: L-alanine
synonyms:
- β-phenyl-L-alanine
- 3-phenyl-L-alanine
- (S)-2-Amino-3-phenylpropionic acid
- (S)-alpha-Amino-beta-phenylpropionic acid
identifiers:
- ns: pubchem.compound
id: '5950'
- ns: metacyc.compound
id: ALA
- ns: chebi
id: CHEBI:16977
- ns: resid
id: AA0001
structure: InChI=1S/C3H7NO/c1-3(4)2-5/h2-3H,4H2,1H3/t3-/m0/s1
R:
id: Arg
name: L-arginine
synonyms:
- β-phenyl-L-alanine
- 3-phenyl-L-alanine
- (S)-2-Amino-3-phenylpropionic acid
- (S)-alpha-Amino-beta-phenylpropionic acid
identifiers:
- ns: chebi
id: CHEBI:16467
- ns: resid
id: AA0002
- ns: metacyc.compound
id: ARG
- ns: pubchem.compound
id: '6322'
structure: InChI=1S/C6H14N4O/c7-5(4-11)2-1-3-10-6(8)9/h4-5H,1-3,7H2,(H4,8,9,10)/t5-/m0/s1
N:
id: Asn
name: L-asparagine
synonyms:
- (2S)-2-amino-3-carbamoylpropanoic acid
- L-2-aminosuccinamic acid
- Aspartamic acid
- L-Asparagin
- (S)-Asparagine
- L-Asparagine
- L-aspartic acid beta-amide
- 2-Aminosuccinamic acid
- (2S)-2,4-diamino-4-oxobutanoic acid
- alpha-aminosuccinamic acid
- (S)-2-amino-3-carbamoylpropanoic acid
identifiers:
- ns: pubchem.compound
id: '6267'
- ns: chebi
id: CHEBI:17196
- ns: metacyc.compound
id: ASN
- ns: resid
id: AA0003
structure: InChI=1S/C4H8N2O2/c5-3(2-7)1-4(6)8/h2-3H,1,5H2,(H2,6,8)/t3-/m0/s1
D:
id: Asp
name: L-aspartic acid
synonyms:
- (S)-2-aminosuccinic acid
- (S)-2-aminobutanedioic acid
- 2-Aminosuccinic acid
- L-Asparaginsaeure
identifiers:
- ns: pubchem.compound
id: '5960'
- ns: chebi
id: CHEBI:17053
- ns: resid
id: AA0004
- ns: metacyc.compound
id: ASP
structure: InChI=1S/C4H7NO3/c5-3(2-6)1-4(7)8/h2-3H,1,5H2,(H,7,8)/t3-/m0/s1
C:
id: Cys
name: L-cysteine
synonyms:
- (R)-2-amino-3-mercaptopropanoic acid
- E 920
- L-2-Amino-3-mercaptopropionic acid
- (2R)-2-amino-3-sulfanylpropanoic acid
- (2R)-2-amino-3-mercaptopropanoic acid
- L-Zystein
- E920
- E-920
identifiers:
- ns: resid
id: AA0005
- ns: chebi
id: CHEBI:17561
- ns: pubchem.compound
id: '5862'
- ns: metacyc.compound
id: CYS
structure: InChI=1S/C3H7NOS/c4-3(1-5)2-6/h1,3,6H,2,4H2/t3-/m1/s1
Q:
id: Gln
name: L-glutamine
synonyms:
- Glutamic acid amide
- Levoglutamide
- Glutamic acid 5-amide
- (2S)-2,5-diamino-5-oxopentanoic acid
- L-2-Aminoglutaramic acid
- (S)-2,5-diamino-5-oxopentanoic acid
- L-glutamic acid gamma-amide
- L-Glutaminsaeure-5-amid
- L-(+)-glutamine
- L-2-aminoglutaramic acid
- (2S)-2-amino-4-carbamoylbutanoic acid
identifiers:
- ns: pubchem.compound
id: '5961'
- ns: chebi
id: CHEBI:18050
- ns: metacyc.compound
id: GLN
- ns: resid
id: AA0007
structure: InChI=1S/C5H10N2O2/c6-4(3-8)1-2-5(7)9/h3-4H,1-2,6H2,(H2,7,9)/t4-/m0/s1
E:
id: Glu
name: L-glutamic acid
synonyms:
- (S)-glutamic acid
- L-Glutaminsaeure
- Glutamate
- (S)-2-aminopentanedioic acid
- L-Glutaminic acid
identifiers:
- ns: chebi
id: CHEBI:16015
- ns: metacyc.compound
id: GLU
- ns: pubchem.compound
id: '33032'
- ns: resid
id: AA0006
structure: InChI=1S/C5H9NO3/c6-4(3-7)1-2-5(8)9/h3-4H,1-2,6H2,(H,8,9)/t4-/m0/s1
G:
id: Gly
name: Glycine
synonyms:
- aminoethanoic acid
- Aminoacetic acid
identifiers:
- ns: resid
id: AA0008
- ns: metacyc.compound
id: GLU
- ns: pubchem.compound
id: '750'
- ns: chebi
id: CHEBI:15428
structure: InChI=1S/C2H5NO/c3-1-2-4/h2H,1,3H2
H:
id: His
name: L-histidine
synonyms:
- (S)-alpha-Amino-1H-imidazole-4-propionic acid
- (S)-4-(2-Amino-2-carboxyethyl)imidazole
- L-(-)-histidine
- (S)-alpha-amino-1H-Imidazole-4-propanoic acid
identifiers:
- ns: chebi
id: CHEBI:15971
- ns: pubchem.compound
id: '33032'
- ns: metacyc.compound
id: HIS
- ns: resid
id: AA0009
structure: InChI=1S/C6H9N3O/c7-5(3-10)1-6-2-8-4-9-6/h2-5H,1,7H2,(H,8,9)/t5-/m0/s1
I:
id: Ile
name: L-isoleucine
synonyms:
- 2-Amino-3-methylvaleric acid
- (2S,3S)-2-amino-3-methylpentanoic acid
- alpha-amino-beta-methylvaleric acid
identifiers:
- ns: resid
id: AA0010
- ns: chebi
id: CHEBI:17191
- ns: metacyc.compound
id: ILE
- ns: pubchem.compound
id: '6306'
structure: InChI=1S/C6H13NO/c1-3-5(2)6(7)4-8/h4-6H,3,7H2,1-2H3/t5-,6+/m0/s1
L:
id: Leu
name: L-leucine
synonyms:
- (2S)-2-amino-4-methylpentanoic acid
- (S)-leucine
- (S)-(+)-leucine
- (2S)-alpha-2-Amino-4-methylvaleric acid
- (2S)-alpha-Leucine
- 2-Amino-4-methylvaleric acid
identifiers:
- ns: metacyc.compound
id: LEU
- ns: resid
id: AA0011
- ns: pubchem.compound
id: '6106'
- ns: chebi
id: CHEBI:15603
structure: InChI=1S/C6H13NO/c1-5(2)3-6(7)4-8/h4-6H,3,7H2,1-2H3/t6-/m0/s1
K:
id: Lys
name: L-lysine
identifiers:
- ns: metacyc.compound
id: LEU
- ns: pubchem.compound
id: '5962'
- ns: chebi
id: CHEBI:18019
- ns: resid
id: AA0012
structure: InChI=1S/C6H14N2O/c7-4-2-1-3-6(8)5-9/h5-6H,1-4,7-8H2/t6-/m0/s1
M:
id: Met
name: L-methionine
synonyms:
- L-(-)-methionine
- (2S)-2-amino-4-(methylsulfanyl)butanoic acid
- L-alpha-amino-gamma-methylmercaptobutyric acid
- (S)-2-amino-4-(methylthio)butanoic acid
- (S)-methionine
- (S)-2-amino-4-(methylthio)butyric acid
identifiers:
- ns: chebi
id: CHEBI:16643
- ns: resid
id: AA0013
- ns: metacyc.compound
id: MET
- ns: pubchem.compound
id: '6137'
structure: InChI=1S/C5H11NOS/c1-8-3-2-5(6)4-7/h4-5H,2-3,6H2,1H3/t5-/m0/s1
F:
id: Phe
name: L-phenylalanine
synonyms:
- β-phenyl-L-alanine
- 3-phenyl-L-alanine
- (S)-2-Amino-3-phenylpropionic acid
- (S)-alpha-Amino-beta-phenylpropionic acid
identifiers:
- ns: chebi
id: CHEBI:17295
- ns: metacyc.compound
id: PHE
- ns: resid
id: AA0014
- ns: pubchem.compound
id: '22848660'
structure: InChI=1S/C9H11NO/c10-9(7-11)6-8-4-2-1-3-5-8/h1-5,7,9H,6,10H2/t9-/m0/s1
P:
id: Pro
name: L-proline
synonyms:
- 2-Pyrrolidinecarboxylic acid
- (-)-(S)-proline
- (S)-2-carboxypyrrolidine
- (S)-pyrrolidine-2-carboxylic acid
- (-)-2-pyrrolidinecarboxylic acid
- L-alpha-pyrrolidinecarboxylic acid
- L-(-)-proline
- L-pyrrolidine-2-carboxylic acid
- (-)-proline
- (S)-2-pyrrolidinecarboxylic acid
- (2S)-pyrrolidine-2-carboxylic acid
identifiers:
- ns: pubchem.compound
id: '145742'
- ns: metacyc.compound
id: PRO
- ns: chebi
id: CHEBI:17203
- ns: resid
id: AA0015
structure: InChI=1S/C5H9NO/c7-4-5-2-1-3-6-5/h4-6H,1-3H2/t5-/m0/s1
S:
id: Ser
name: L-serine
synonyms:
- (S)-serine
- L-2-Amino-3-hydroxypropionic acid
- L-(-)-serine; beta-Hydroxyalanine
- (2S)-2-amino-3-hydroxypropanoic acid
- (S)-alpha-Amino-beta-hydroxypropionic acid
- (S)-(-)-serine
- L-3-Hydroxy-alanine
- beta-Hydroxy-L-alanine
- L-3-Hydroxy-2-aminopropionic acid
- (S)-2-amino-3-hydroxypropanoic acid
identifiers:
- ns: metacyc.compound
id: SER
- ns: pubchem.compound
id: '5951'
- ns: resid
id: AA0016
- ns: chebi
id: CHEBI:17115
structure: InChI=1S/C3H7NO2/c4-3(1-5)2-6/h1,3,6H,2,4H2/t3-/m1/s1
T:
id: Thr
name: L-threonine
synonyms:
- (2S)-threonine
- 2-Amino-3-hydroxybutyric acid
- L-alpha-amino-beta-hydroxybutyric acid
- L-2-Amino-3-hydroxybutyric acid
- (2S,3R)-2-amino-3-hydroxybutanoic acid
- (2S,3R)-(-)-Threonine
- L-(-)-Threonine
identifiers:
- ns: metacyc.compound
id: THR
- ns: pubchem.compound
id: '6288'
- ns: resid
id: AA0017
- ns: chebi
id: CHEBI:16857
structure: InChI=1S/C4H9NO2/c1-3(7)4(5)2-6/h2-4,7H,5H2,1H3/t3-,4-/m1/s1
W:
id: Trp
name: L-tryptophan
synonyms:
- (S)-alpha-Amino-beta-(3-indolyl)-propionic acid
- L-(−)-tryptophan
- L-β-3-indolylalanine
- (S)-tryptophan
- (2S)-2-amino-3-(1H-indol-3-yl)propanoic acid
- (S)-α-amino-1H-indole-3-propanoic acid
identifiers:
- ns: metacyc.compound
id: TRP
- ns: resid
id: AA0018
- ns: chebi
id: CHEBI:16828
- ns: pubchem.compound
id: '6305'
structure: InChI=1S/C11H12N2O/c12-9(7-14)5-8-6-13-11-4-2-1-3-10(8)11/h1-4,6-7,9,13H,5,12H2/t9-/m0/s1
Y:
id: Tyr
name: L-tyrosine
synonyms:
- (S)-Tyrosine
- (S)-3-(p-Hydroxyphenyl)alanine
- (2S)-2-amino-3-(4-hydroxyphenyl)propanoic acid
- (-)-alpha-amino-p-hydroxyhydrocinnamic acid
- (S)-(-)-Tyrosine
- (S)-2-Amino-3-(p-hydroxyphenyl)propionic acid
- 4-hydroxy-L-phenylalanine
- (S)-alpha-amino-4-hydroxybenzenepropanoic acid
identifiers:
- ns: resid
id: AA0019
- ns: metacyc.compound
id: TYR
- ns: pubchem.compound
id: '6057'
- ns: chebi
id: CHEBI:17895
structure: InChI=1S/C9H11NO2/c10-8(6-11)5-7-1-3-9(12)4-2-7/h1-4,6,8,12H,5,10H2/t8-/m0/s1
V:
id: Val
name: L-valine
synonyms:
- 2-Amino-3-methylbutyric acid
- L-(+)-alpha-Aminoisovaleric acid
- L-alpha-Amino-beta-methylbutyric acid
- (2S)-2-amino-3-methylbutanoic acid
- (S)-valine
identifiers:
- ns: chebi
id: CHEBI:16414
- ns: metacyc.compound
id: VAL
- ns: pubchem.compound
id: '6287'
- ns: resid
id: AA0020
structure: InChI=1/C5H11NO/c1-4(2)5(6)3-7/h3-5H,6H2,1-2H3/t5-/s2
AA0318:
id: AA0318
name: L-lysine methyl ester
comments: 'Generating Enzyme: protein-lysine O-methyltransferase (EC 2.1.1.-).'
synonyms:
- 2,6-diaminohexanoic methyl ester
- methyl L-lysinate
- alpha,epsilon-diaminocaproic methyl ester
- methyl (S)-2,6-diaminohexanoate
identifiers:
- ns: mod
id: MOD:00323
- ns: cas
id: 687-64-9
- ns: go
id: GO:0042034
- ns: chebi
id: CHEBI:21354
structure: InChI=1S/C7H16N2O2/c1-11-7(10)6(9)4-2-3-5-8/h6H,2-5,8-9H2,1H3/t6-/m0/s1
base_monomers:
- K
AA0567:
id: AA0567
name: N6-(2-butenonyl)-L-lysine
comments: A metabolic source for crotonic acid or crotonyl-CoA in the nucleus
is not evident, and a responsible enzyme activity is not identified.
synonyms:
- N6-(E)-crotonyllysine
- (2S)-2-amino-6-[(2E)-but-2-enamido]hexanoic acid
- N6-trans-crotonyllysine
- (2S)-2-azanyl-6-[(2E)-but-2-enoylazanyl]hexanoic acid
- (2S)-2-amino-6-[(2E)-but-2-enoylamino]hexanoic acid
- N6-crotonyllysine
- N(epsilon)-crotonyllysine
- N6-[(2E)-2-butenoyl]-L-lysine
identifiers:
- ns: mod
id: MOD:01892
structure: InChI=1S/C10H18N2O2/c1-2-5-10(14)12-7-4-3-6-9(11)8-13/h2,5,8-9H,3-4,6-7,11H2,1H3,(H,12,14)/b5-2+/t9-/m0/s1
base_monomers:
- K
AA0037:
id: AA0037
name: O-phospho-L-serine
comments: 'Generating Enzyme: protein-serine kinase (EC 2.7.1.37).'
synonyms:
- 2-azanyl-3-(phosphonooxy)propanoic acid
- 2-amino-3-hydroxypropanoic acid 3-phosphate
- (2S)-2-amino-3-(phosphonooxy)propanoic acid
- serine phosphate ester
- O-phosphonoserine
- O3-phosphoserine
identifiers:
- ns: mod
id: MOD:00046
- ns: go
id: GO:0018105
- ns: cas
id: 407-41-0
- ns: chebi
id: CHEBI:45522
- ns: pdb.ligand
id: SEP
structure: InChI=1S/C3H8NO5P/c4-3(1-5)2-9-10(6,7)8/h1,3H,2,4H2,(H2,6,7,8)/t3-/m1/s1
base_monomers:
- S
AA0048:
id: AA0048
name: N2-acetyl-L-lysine
comments: The occurrence of this modification has not been confirmed. The common
peptide alpha-N-acetyltransferase does not acetylate basic residues.
synonyms:
- 2-acetylamino-6-aminohexanoic acid
- (2S)-2-acetamido-6-aminohexanoic acid
- N2-acetyllysine
- 2-acetylazanyl-6-azanylhexanoic acid
identifiers:
- ns: mod
id: MOD:00057
- ns: go
id: GO:0017195
- ns: cas
id: 1946-82-3
structure: InChI=1S/C8H16N2O2/c1-7(12)10-8(6-11)4-2-3-5-9/h6,8H,2-5,9H2,1H3,(H,10,12)/t8-/m0/s1
base_monomers:
- K
C, S:
id: AA0623
name: 2-(L-cystein-S-yl)-L-serine
synonyms:
- (2R)-2-amino-2-([(2R)-2-amino-2-carboxyethyl]sulfanyl)-3-hydroxypropanoic acid
- (2R,5R)-2,5-diamino-5-carboxy-6-hydroxy-4-thiahexanoic acid
identifiers:
- ns: mod
id: MOD:01986
structure: InChI=1S/C6H12N2O3S/c7-5(1-9)2-12-6(8,3-10)4-11/h1,3,5,11H,2,4,7-8H2/t5-,6+/m1/s1
base_monomers:
- C
- S
M, W, Y:
id: AA0348
name: S-[5'-(L-tryptoph-6'-yl)-L-tyrosin-3'-yl]-L-methionin-S-ium
comments: This modification is produced auto-catalytically.
synonyms:
- 5'-(6'-tryptophyl)-tyrosin-3'-yl-methionin-S-ium
identifiers:
- ns: go
id: GO:0050739
- ns: mod
id: MOD:00353
structure: InChI=1S/C25H31N4O4S/c1-34(5-4-18(26)12-30)24-8-15(6-19(27)13-31)7-22(25(24)33)16-2-3-21-17(9-20(28)14-32)11-29-23(21)10-16/h2-3,7-8,10-14,18-20,29,33H,4-6,9,26-28H2,1H3/t18-,19-,20-/m0/s1
base_monomers:
- W
- M
- Y
AA0421:
id: AA0421
name: N4-glucosyl-L-asparagine
comments: The alpha anomeric form is shown. See also RESID:AA0151 and RESID:AA0420
for other N4-glycosylated asparagines.
synonyms:
- (2S)-2-amino-4-(D-glucopyranosyl)amino-4-oxobutanoic acid
- N4-glycosyl-L-asparagine
- N4-glucosylasparagine
- N4-glycosylasparagine
- N4-(D-glucopyranosyl)-L-asparagine
- N4-asparagine-glucoside
identifiers:
- ns: mod
id: MOD:00833
structure: InChI=1S/C10H18N2O7/c11-4(2-13)1-6(15)12-10-9(18)8(17)7(16)5(3-14)19-10/h2,4-5,7-10,14,16-18H,1,3,11H2,(H,12,15)/t4-,5+,7+,8-,9+,10-/m0/s1
base_monomers:
- N
AA0560:
id: AA0560
name: S-(N-acetylamino)glucosyl-L-cysteine
comments: See also RESID:AA0152 and RESID:AA0392 for other S-glycosylated cysteines.
synonyms:
- S-[beta-D-(N-acetylamino)glucopyranosyl]cysteine
- (2R)-2-amino-3-(2-acetamido-2-deoxy-beta-D-glucopyranosylsulfanyl)propanoic
acid
- S-[(N-acetylamino)glycosyl]cysteine
identifiers:
- ns: mod
id: MOD:01858
- ns: pdb.ligand
id: NAG
- ns: chebi
id: CHEBI:61631
- ns: cas
id: 10036-64-3
structure: InChI=1S/C11H20N2O6S/c1-5(16)13-8-10(18)9(17)7(3-15)19-11(8)20-4-6(12)2-14/h2,6-11,15,17-18H,3-4,12H2,1H3,(H,13,16)/t6-,7-,8-,9-,10-,11+/m1/s1
base_monomers:
- C
AA0172:
id: AA0172
name: O4'-sulfo-L-tyrosine
comments: 'Generating Enzyme: protein-tyrosine sulfotransferase (EC 2.8.2.20).'
synonyms:
- tyrosine sulfate
- tyrosine-O-sulfonic acid
- 2-amino-3-(4-hydroxyphenyl)propanoic acid 4'-sulfate
- tyrosine-O-sulphonic acid
- O4-sulfotyrosine
- (S)-2-amino-3-(4-sulfooxyphenyl)propanoic acid
identifiers:
- ns: go
id: GO:0006478
- ns: cas
id: 956-46-7
- ns: mod
id: MOD:00181
- ns: pdb.ligand
id: TYS
structure: InChI=1S/C9H11NO5S/c10-8(6-11)5-7-1-3-9(4-2-7)15-16(12,13)14/h1-4,6,8H,5,10H2,(H,12,13,14)/t8-/m0/s1
base_monomers:
- Y
AA0231:
id: AA0231
name: N4-(ADP-ribosyl)-L-asparagine
comments: '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.-).'
synonyms:
- N4-[alpha-D-ribofuranoside 5'->5'-ester with adenosine 5'-(trihydrogen diphosphate)]-L-asparagine
- (S)-2-amino-4-([adenosine 5'-(trihydrogen diphosphate) 5'->5'-ester with alpha-D-ribofuranosyl]amino)-4-oxobutanoic
acid
- N4-alpha-D-ribofuranosyl-L-asparagine 5'->5'-ester with adenosine 5'-(trihydrogen
diphosphate)
identifiers:
- ns: go
id: GO:0006471
- ns: mod
id: MOD:00236
structure: InChI=1S/C19H29N7O15P2/c20-7(2-27)1-10(28)25-18-14(31)12(29)8(39-18)3-37-42(33,34)41-43(35,36)38-4-9-13(30)15(32)19(40-9)26-6-24-11-16(21)22-5-23-17(11)26/h2,5-9,12-15,18-19,29-32H,1,3-4,20H2,(H,25,28)(H,33,34)(H,35,36)(H2,21,22,23)/t7-,8+,9+,12+,13+,14+,15+,18-,19+/m0/s1
base_monomers:
- N
AA0150:
id: AA0150
name: O3-phosphopantetheine-L-serine
comments: 'Generating Enzyme: holo-[acyl-carrier-protein] synthase (EC 2.7.8.7).'
synonyms:
- (2R)-2-hydroxy-3,3-dimethyl-4-[(2S)-2-amino-2-carboxyethyl]phosphonato-N-(3-oxo-3-[(2-sulfanylethyl)amino]propyl)butanamide
identifiers:
- ns: go
id: GO:0018070
- ns: mod
id: MOD:00159
- ns: pdb.ligand
id: PNS
structure: InChI=1S/C14H28N3O8PS/c1-14(2,9-25-26(22,23)24-8-10(15)7-18)12(20)13(21)17-4-3-11(19)16-5-6-27/h7,10,12,20,27H,3-6,8-9,15H2,1-2H3,(H,16,19)(H,17,21)(H,22,23)/t10-,12-/m1/s1
base_monomers:
- S
AA0238:
id: AA0238
name: L-cysteine oxazole-4-carboxylic acid
comments: '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.-.-).'
synonyms:
- 2-(1-azanyl-2-sulfanylethyl)-4-oxazolecarboxylic acid
- 2-[(1R)-1-amino-2-sulfanylethyl]-1,3-oxazole-4-carboxylic acid
identifiers:
- ns: mod
id: MOD:00243
- ns: go
id: GO:0018132
structure: InChI=1S/C6H8N2O2S/c7-5(3-11)6-8-4(1-9)2-10-6/h1-2,5,11H,3,7H2/t5-/m0/s1
base_monomers:
- C
- S
AA0062:
id: AA0062
name: N,N,N-trimethyl-L-alanine
comments: '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.-).'
synonyms:
- N,N,N-trimethylalaninium
- (2S)-2-(trimethylammonio)propanoic acid
- (1S)-1-carboxy-N,N,N-trimethylethanazanium
- N,N,N-trimethylalanine cation
- (1S)-1-carboxy-N,N,N-trimethylethanaminium
identifiers:
- ns: mod
id: MOD:00071
- ns: go
id: GO:0018011
- ns: cas
id: 44802-94-0
structure: InChI=1S/C6H14NO/c1-6(5-8)7(2,3)4/h5-6H,1-4H3/t6-/m0/s1
base_monomers:
- A
AA0177:
id: AA0177
name: 3',3'',5'-triiodo-L-thyronine
synonyms:
- 3,5,3'-triiodo-L-thyronine
- (S)-2-amino-3-[4-(4-hydroxy-3-iodophenoxy)-3,5-diiodophenyl]propanoic acid
- liothyronine
- 3,3',5-triiodo-L-thyronine
- T3
- 4-(4-hydroxy-3-iodophenoxy)-3,5-diiodo-L-phenylalanine
- O-(4-hydroxy-3-iodophenyl)-3,5-diiodo-L-tyrosine
identifiers:
- ns: chebi
id: CHEBI:18258
- ns: mod
id: MOD:00186
- ns: go
id: GO:0018078
- ns: pdb.ligand
id: T3
- ns: cas
id: 6893-02-3
structure: InChI=1S/C15H12I3NO3/c16-11-6-10(1-2-14(11)21)22-15-12(17)4-8(5-13(15)18)3-9(19)7-20/h1-2,4-7,9,21H,3,19H2/t9-/m0/s1
base_monomers:
- Y
AA0530:
id: AA0530
name: N6-(lysyl)-L-Lysine
comments: '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.-).'
synonyms:
- (2S)-2-amino-6-([(2S)-2,6-diaminohexanoyl]amino)hexanoic acid
- N6-(alpha-lysyl)-lysine
identifiers:
- ns: mod
id: MOD:01779
- ns: go
id: GO:0071915
structure: InChI=1S/C12H26N4O2/c13-7-3-1-6-11(15)12(18)16-8-4-2-5-10(14)9-17/h9-11H,1-8,13-15H2,(H,16,18)/t10-,11-/m0/s1
base_monomers:
- K
AA0577:
id: AA0577
name: O4'-(N-acetylamino)galactosyl-L-tyrosine
comments: 'The alpha anomeric form is shown. See also RESID:AA0157 for other O-glycosylated
tyrosines. Generating Enzyme: polypeptide N-acetylgalactosaminyltransferase
(EC 2.4.1.-).'
synonyms:
- O4'-(N-acetylgalactosaminyl)tyrosine
- (2S)-2-amino-3-(D-2-acetamido-2-deoxygalactopyranosyloxy)phenylpropanoic acid
- O4'-glycosyl-L-tyrosine
- mucin type O-glycosyltyrosine
identifiers:
- ns: mod
id: MOD:01916
structure: InChI=1S/C17H24N2O7/c1-9(22)19-14-16(24)15(23)13(8-21)26-17(14)25-12-4-2-10(3-5-12)6-11(18)7-20/h2-5,7,11,13-17,21,23-24H,6,8,18H2,1H3,(H,19,22)/t11-,13-,14-,15-,16+,17-/m0/s1
base_monomers:
- Y
AA0611:
id: AA0611
name: S-(gamma-glutamyl-cysteinyl-glycyl)-L-cysteine
comments: 'Generating Enzyme: autocatalytic.'
synonyms:
- (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
- S-(glutathion-1-yl)-L-cysteine
identifiers:
- ns: mod
id: MOD:01969
structure: InChI=1S/C13H22N4O6S2/c14-7(4-18)6-25-11(20)3-16-12(21)9(5-24)17-10(19)2-1-8(15)13(22)23/h4,7-9,24H,1-3,5-6,14-15H2,(H,16,21)(H,17,19)(H,22,23)/t7-,8+,9-/m1/s1
base_monomers:
- C
AA0133:
id: AA0133
name: S-phytochromobilin-L-cysteine
comments: The phytochromobilins and phycoerythrobilins transmit red.
synonyms:
- phytochrome chromophore
- phytochromobilin cysteine adduct
- 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
- (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
identifiers:
- ns: mod
id: MOD:00142
- ns: cas
id: 143392-71-6
- ns: chebi
id: CHEBI:15619
- ns: go
id: GO:0017012
structure: InChI=1S/C36H45N5O7S/c1-7-23-17(2)28(40-36(23)48)12-26-18(3)24(8-10-32(43)44)29(38-26)14-30-25(9-11-33(45)46)19(4)27(39-30)13-31-34(20(5)35(47)41-31)21(6)49-16-22(37)15-42/h7,12-15,20-22,27,34,38-39H,1,8-11,16,37H2,2-6H3,(H,40,48)(H,41,47)(H,43,44)(H,45,46)/b28-12-,30-14-,31-13-/t20-,21+,22+,27?,34-/m0/s1
base_monomers:
- C
AA0084:
id: AA0084
name: L-aspartic acid 1-amide
comments: 'Generating Enzyme: peptidylglycine monooxygenase (EC 1.14.17.3).'
synonyms:
- (2S)-2-amino-1-butanediamic acid
- 3,4-diamino-4-oxobutanoic acid
- isoasparagine
- 3-amino-succinamic acid
- alpha-asparagine
identifiers:
- ns: mod
id: MOD:00093
- ns: go
id: GO:0018037
- ns: pdb.ligand
id: NH2
- ns: cas
id: 498-25-9
- ns: chebi
id: CHEBI:49010
structure: InChI=1S/C4H8N2O3/c5-2(4(6)9)1-3(7)8/h2H,1,5H2,(H2,6,9)(H,7,8)/t2-/m0/s1
base_monomers:
- D
AA0333:
id: AA0333
name: S-cyano-L-cysteine
comments: 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.
synonyms:
- S-cyanocysteine
- beta-thiocyanatoalanine
- (2R)-2-amino-3-thiocyanatopropanoic acid
- serine thiocyanic acid ester
- alpha-amino-beta-thiocyanatopropionic acid
identifiers:
- ns: mod
id: MOD:00338
- ns: cas
id: 5652-31-3
- ns: go
id: GO:0046892
structure: InChI=1S/C4H6N2OS/c5-3-8-2-4(6)1-7/h1,4H,2,6H2/t4-/m1/s1
base_monomers:
- C
AA0344:
id: AA0344
name: 4-amino-3-isothiazolidinone-L-serine
comments: '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.'
synonyms:
- 4-amino-3-isothiazolidinone-L-serine
- (2S)-2-[(4R)-4-amino-3-oxo-1,2-thiazolidin-2-yl]-3-hydroxypropanoic acid
- 2-(4-amino-3-oxo-isothiazolidin-2-yl)-3-hydroxy-propanoic acid
- serine-cysteine sulfenyl amide cross-link
- serine-cysteine sulphenyl amide cross-link
identifiers:
- ns: go
id: GO:0048109
- ns: mod
id: MOD:00349
structure: InChI=1S/C6H10N2O3S/c7-5-3-12-8(6(5)11)4(1-9)2-10/h1,4-5,10H,2-3,7H2/t4-,5+/m1/s1
base_monomers:
- C
- S
AA0088:
id: AA0088
name: glycine amide
comments: 'Generating Enzyme: peptidylglycine monooxygenase (EC 1.14.17.3).'
synonyms:
- 2-azanylethanamide
- 2-aminoacetamide
- glycinamide
- 2-aminoethanamide
identifiers:
- ns: go
id: GO:0018041
- ns: mod
id: MOD:00097
- ns: pdb.ligand
id: NH2
- ns: chebi
id: CHEBI:42843
- ns: cas
id: 598-41-4
structure: InChI=1S/C2H6N2O/c3-1-2(4)5/h1,3H2,(H2,4,5)
base_monomers:
- AA0008
AA0290:
id: AA0290
name: O-octanoyl-L-serine
comments: 'Generating Enzyme: ghrelin O-acyltransferase, GOAT (EC 2.3.1.-).'
synonyms:
- (2S)-2-amino-3-(octanoyloxy)propanoic acid
- L-serine octanoate ester
- O3-octanoyl-L-serine
identifiers:
- ns: mod
id: MOD:00295
- ns: go
id: GO:0018191
structure: InChI=1S/C11H21NO3/c1-2-3-4-5-6-7-11(14)15-9-10(12)8-13/h8,10H,2-7,9,12H2,1H3/t10-/m1/s1
base_monomers:
- S
AA0526:
id: AA0526
name: S-(coelenterazin-3a-yl)-L-cysteine
comments: '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.'
synonyms:
- dehydrocoelenterazine cysteine adduct
- symplectin chromophore
- (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
identifiers:
- ns: cas
id: 55779-48-1
- ns: chebi
id: CHEBI:2311
- ns: mod
id: MOD:01694
structure: InChI=1S/C29H26N4O4S/c30-21(16-34)17-38-27(20-8-12-23(36)13-9-20)26-29(37)33-15-25(19-6-10-22(35)11-7-19)31-24(28(33)32-26)14-18-4-2-1-3-5-18/h1-13,15-16,21,27,31,35-36H,14,17,30H2/t21-,27-/m1/s1
base_monomers:
- C
AA0059:
id: AA0059
name: N-myristoyl-glycine
comments: '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).'
synonyms:
- N-(1-oxotetradecyl)glycine
- N-tetradecanoylglycine
- N-myristylglycine
- (tetradecanoylamino)ethanoic acid
identifiers:
- ns: cas
id: 14246-55-0
- ns: pdb.ligand
id: MYR
- ns: mod
id: MOD:00068
- ns: go
id: GO:0018008
structure: InChI=1S/C16H31NO2/c1-2-3-4-5-6-7-8-9-10-11-12-13-16(19)17-14-15-18/h15H,2-14H2,1H3,(H,17,19)
base_monomers:
- AA0008
AA0119:
id: AA0119
name: N6-pyridoxal phosphate-L-lysine
synonyms:
- (2S)-2-amino-6-[([3-hydroxy-2-methyl-5-phosphonooxymethylpyridin-4-yl]methylidene)amino]hexanoic
acid
identifiers:
- ns: go
id: GO:0018272
- ns: mod
id: MOD:00128
- ns: cas
id: 2440-59-7
- ns: pdb.ligand
id: LLP
structure: InChI=1S/C14H24N3O6P/c1-10-14(19)13(7-16-5-3-2-4-12(15)8-18)11(6-17-10)9-23-24(20,21)22/h6,8,12,16,19H,2-5,7,9,15H2,1H3,(H2,20,21,22)/t12-/m0/s1
base_monomers:
- K
AA0494:
id: AA0494
name: N-(DNA-1',2'-dideoxyribos-1'-ylidene)-L-prolinium
comments: "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)."
synonyms:
- DNA glycosylase proline Schiff base intermediate [misnomer]
- (1Z,2S)-2-carboxy-1-[(3R,4R)-3,4-dihydroxy-5-(phosphonooxy)pentylidene]pyrrolidinium
identifiers:
- ns: mod
id: MOD:01454
- ns: pdb.ligand
id: PED
structure: InChI=1S/C10H20NO6P/c12-6-8-2-1-4-11(8)5-3-9(13)10(14)7-17-18(15)16/h6,8-10,13-16H,1-5,7H2/t8-,9-,10+/m0/s1
base_monomers:
- P
AA0067:
id: AA0067
name: omega-N,omega-N'-dimethyl-L-arginine
comments: '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).'
synonyms:
- symmetric dimethylarginine
- N5-[(methylamino)(methylimino)methyl]ornithine
- (2S)-2-amino-5-[((methylamino)(methylimino)methyl)amino]pentanoic acid
- N3,N4-dimethylarginine
- NG,N'G-dimethylarginine
identifiers:
- ns: cas
id: 30344-00-4
- ns: pdb.ligand
id: 2MR
- ns: go
id: GO:0018216
- ns: mod
id: MOD:00076
- ns: chebi
id: CHEBI:61916
structure: InChI=1S/C8H20N4O/c1-10-8(11-2)12-5-3-4-7(9)6-13/h6-8,10-12H,3-5,9H2,1-2H3/t7-/m0/s1
base_monomers:
- R
AA0120:
id: AA0120
name: N6-retinylidene-L-lysine
comments: 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.
synonyms:
- N6-retinal-L-lysine
- N6-retinyl-lysine