Structure of PDB 7yxj Chain D Binding Site BS02

Receptor Information
>7yxj Chain D (length=308) Species: 7227 (Drosophila melanogaster) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SMSEVERALDVLLQEAEELCIGSSVVELDRIPTALEFCREFYSKNQPVVI
RKALNWPAIGKWTPKYLIEALGDRSVDVAITPNGYADGLATQNGQEYFVL
PLETKMKLSEVVRRLDDPTGAVHYIQKQVDLPELAADLRVSDLDFAQQSF
NKPPDAVNFWLGDERAVTSMHKDPYENVYCVISGHKDFVLIPPHQLSCVP
RGIYPTGVYKTSDSGQFYIEPLRDEEGSDQFTEWVSVDPLSPDLAKYPEY
ARAKPLKVRVHAGDILYLPNYWFHHVSQSHKCIAVNFWYDLDYDSRYCYY
RMLEQMTS
Ligand information
Ligand IDPD2
InChIInChI=1S/C7H5NO4/c9-6(10)4-1-2-8-5(3-4)7(11)12/h1-3H,(H,9,10)(H,11,12)
InChIKeyMJIVRKPEXXHNJT-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341OC(=O)c1ccnc(c1)C(O)=O
ACDLabs 10.04O=C(O)c1nccc(C(=O)O)c1
OpenEye OEToolkits 1.5.0c1cnc(cc1C(=O)O)C(=O)O
FormulaC7 H5 N O4
NamePYRIDINE-2,4-DICARBOXYLIC ACID
ChEMBLCHEMBL316034
DrugBank
ZINCZINC000000391915
PDB chain7yxj Chain D Residue 506 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB7yxj Conservation of the unusual dimeric JmjC fold of JMJD7 from Drosophila melanogaster to humans.
Resolution2.45 Å
Binding residue
(original residue number in PDB)		W164 T172 H175 N181 Y183 K190 H278 V280 W292
Binding residue
(residue number reindexed from 1)		W160 T168 H171 N177 Y179 K186 H274 V276 W288
Annotation score1
Enzymatic activity
Enzyme Commision number 1.14.11.-
3.1.1.4: phospholipase A2.
Gene Ontology
Molecular Function
GO:0016491 oxidoreductase activity
GO:0016706 2-oxoglutarate-dependent dioxygenase activity
GO:0016787 hydrolase activity
GO:0046872 metal ion binding
GO:0106155 peptidyl-lysine 3-dioxygenase activity
Cellular Component
GO:0005737 cytoplasm

View graph for
Molecular Function
View graph for
Cellular Component
External links
PDB RCSB:7yxj, PDBe:7yxj, PDBj:7yxj
PDBsum7yxj
PubMed35410347
UniProtQ9VU77

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