Structure of PDB 8vam Chain B Binding Site BS01

Receptor Information

>8vam Chain B (length=371) Species: 562 (Escherichia coli)

GPHMSYQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTR
GVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAAS
RTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPP
EHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIA
HEPRALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAMLGTLDDD
QALSLVEAMVEANGERVMALINEAAARGIEWEALLVEMLGLLHRIAMVQL
SPAALGNDMAAIELRMRELARTIPPTDIQLYYQTLLIGRKELPYAPDRRM
GVEMTLLRALAFHPRMPLPEP

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: 8vam Chain B Residue 401

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8vam Differences between bacteria and eukaryotes in clamp loader mechanism, a conserved process underlying DNA replication.
• Resolution: 3.9 Å
• Binding residue (original residue number in PDB): C76 C79
• Binding residue (residue number reindexed from 1): C79 C82
• Annotation score: 1

Enzymatic activity

• Enzyme Commision number: 2.7.7.7: DNA-directed DNA polymerase.

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003887 DNA-directed DNA polymerase activity
• GO:0005524 ATP binding
• GO:0016887 ATP hydrolysis activity

Biological Process

• GO:0006260 DNA replication

Cellular Component

• GO:0009360 DNA polymerase III complex

External links

• PDB: RCSB:8vam, PDBe:8vam, PDBj:8vam
• PDBsum: 8vam
• PubMed: 38490435
• UniProt: P06710|DPO3X_ECOLI DNA polymerase III subunit tau (Gene Name=dnaX)