Structure of PDB 4k7d Chain B Binding Site BS02

Receptor Information

>4k7d Chain B (length=312) Species: 10116 (Rattus norvegicus)

SPTYHSFFVYCKGPCHKVQPGKLRVQCGTCRQATLTLAQGPSCWDDVLIP
NRMSGECQSPDCPGTRAEFFFKCGAHPTSDKDTSVALNLITNNSRSIPCI
ACTDVRNPVLVFQCNHRHVICLDCFHLYCVTRLNDRQFVHDAQLGYSLPC
VAGCPNSLIKELHHFRILGEEQYNRYQQYGAEECVLQMGGVLCPRPGCGA
GLLPEQGQRKVTCEGGNGLGCGFVFCRDCKEAYHEGECDSMFEASVDQRA
AEQARWEEKKTTKPCPRCNVPIEKNGGCMHMKCPQPQCKLEWCWNCGCEW
NRACMGDHWFDV

Ligand information

• Ligand ID: ZN
• InChI: InChI=1S/Zn/q+2
• InChIKey: PTFCDOFLOPIGGS-UHFFFAOYSA-N
• SMILES:
  CACTVS 3.341: [Zn++]
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Zn+2]
• Formula: Zn
• Name: ZINC ION
• ChEMBL: CHEMBL1236970
• DrugBank: DB14532
• PDB chain: 4k7d Chain B Residue 502

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4k7d Structure of parkin reveals mechanisms for ubiquitin ligase activation.
• Resolution: 2.8 Å
• Binding residue (original residue number in PDB): C166 C169 C196 C201
• Binding residue (residue number reindexed from 1): C27 C30 C57 C62
• Annotation score: 4

Enzymatic activity

• Enzyme Commision number: 2.3.2.31: RBR-type E3 ubiquitin transferase.

Gene Ontology

Molecular Function

• GO:0004842 ubiquitin-protein transferase activity
• GO:0008270 zinc ion binding

Biological Process

• GO:0016567 protein ubiquitination

Cellular Component

• GO:0005739 mitochondrion
• GO:0005829 cytosol

External links

• PDB: RCSB:4k7d, PDBe:4k7d, PDBj:4k7d
• PDBsum: 4k7d
• PubMed: 23661642
• UniProt: Q9JK66|PRKN_RAT E3 ubiquitin-protein ligase parkin (Gene Name=Prkn)