Structure of PDB 6s0u Chain D Binding Site BS01

Receptor Information
>6s0u Chain D (length=278) Species: 1967 (Streptomyces kanamyceticus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
NAMALAAPPGELTLALTPDDKTLDPASLDRALAILAEHGILVLTGMLRTR
LTDQLRTAMLDDLPEVLRQQDVPTNFVPGHVQQDPPVRESLLFPDVLLNP
VVYQITHAVLGADARNAVYSGNMNLPGSHEQPVHLDEPHLWPGISHPPYC
LCVDVPLIDFTLENGSTEYWPGSHVLNPDECYDERGCVLPAELERRRAVA
PPVRFPIPVGSVVIRDGRLWHRGVPNLSAAPRPLLAMTHYTEWFDMPPIQ
LPDTVKSWVDGSDRHTHAHFVAGDVDHL
Ligand information
Ligand IDAKG
InChIInChI=1S/C5H6O5/c6-3(5(9)10)1-2-4(7)8/h1-2H2,(H,7,8)(H,9,10)
InChIKeyKPGXRSRHYNQIFN-UHFFFAOYSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04O=C(O)C(=O)CCC(=O)O
OpenEye OEToolkits 1.7.6C(CC(=O)O)C(=O)C(=O)O
CACTVS 3.385OC(=O)CCC(=O)C(O)=O
FormulaC5 H6 O5
Name2-OXOGLUTARIC ACID
ChEMBLCHEMBL1686
DrugBankDB08845
ZINCZINC000001532519
PDB chain6s0u Chain D Residue 301 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB6s0u A study on the structure, mechanism, and biochemistry of kanamycin B dioxygenase (KanJ)-an enzyme with a broad range of substrates.
Resolution2.15 Å
Binding residue
(original residue number in PDB)		N73 N120 Q129 H132 T165 H219 R230
Binding residue
(residue number reindexed from 1)		N75 N122 Q131 H134 T167 H221 R232
Annotation score5
Enzymatic activity
Enzyme Commision number 1.14.11.37: kanamycin B dioxygenase.
Gene Ontology
Molecular Function
GO:0016491 oxidoreductase activity
GO:0016706 2-oxoglutarate-dependent dioxygenase activity
Biological Process
GO:0017000 antibiotic biosynthetic process
GO:1901133 kanamycin biosynthetic process

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:6s0u, PDBe:6s0u, PDBj:6s0u
PDBsum6s0u
PubMed32592631
UniProtQ6L732|KANJ_STRKN Kanamycin B dioxygenase (Gene Name=kanJ)

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