Structure of PDB 3v6k Chain J Binding Site BS04

Receptor Information

>3v6k Chain J (length=333) Species: 273057 (Saccharolobus solfataricus P2)

MIFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARK
FGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIA
SIDEAYLDDYREAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMA
KPNGIKVIDDEEVKRLIRELDIADVPGIGNITAEKLKKLGINKLVDTLSI
EFDKLKGMIGEAKAKYLISLARDEYNEPIRTRVRKSIGRIVTMKRNSRNL
EEIKPYLFRAIEESYYKLDKRIPKAIHVVAVTEDLDIVSRGRTFPHGISK
ETAYSESVKLLQKILEEDERKIRRIGVRFSKFI

Ligand information

• Ligand ID: MG
• InChI: InChI=1S/Mg/q+2
• InChIKey: JLVVSXFLKOJNIY-UHFFFAOYSA-N
• SMILES:
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Mg+2]
  CACTVS 3.341: [Mg++]
• Formula: Mg
• Name: MAGNESIUM ION
• DrugBank: DB01378
• PDB chain: 3v6k Chain J Residue 403

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3v6k Replication of n(2) ,3-ethenoguanine by DNA polymerases.
• Resolution: 3.6 Å
• Binding residue (original residue number in PDB): D7 F8 D105
• Binding residue (residue number reindexed from 1): D5 F6 D103
• Annotation score: 1

Enzymatic activity

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

Gene Ontology

Molecular Function

• GO:0000287 magnesium ion binding
• GO:0003677 DNA binding
• GO:0003684 damaged DNA binding
• GO:0003887 DNA-directed DNA polymerase activity
• GO:0046872 metal ion binding

Biological Process

• GO:0006260 DNA replication
• GO:0006261 DNA-templated DNA replication
• GO:0006281 DNA repair
• GO:0006974 DNA damage response
• GO:0042276 error-prone translesion synthesis

Cellular Component

• GO:0005737 cytoplasm

External links

• PDB: RCSB:3v6k, PDBe:3v6k, PDBj:3v6k
• PDBsum: 3v6k
• PubMed: 22488769
• UniProt: Q97W02|DPO4_SACS2 DNA polymerase IV (Gene Name=dbh)