Structure of PDB 2nqj Chain A Binding Site BS05

Receptor Information

>2nqj Chain A (length=279) Species: 562 (Escherichia coli)

MKYIGAHVSAAGGLANAAIRAAEIDATAFALFTKNQRQWRAAPLTTQTID
EFKAACEKYHYTSAQILPHDSYLINLGHPVTEALEKSRDAFIDEMQRCEQ
LGLSLLNFHPGSHLMQISEEDCLARIAESINIALDKTQGVTAVIENTAGQ
GSNLGFKFEHLAAIIDGVEDKSRVGVCIDTCHAFAAGYDLRTPAECEKTF
ADFARTVGFKYLRGMHLNDAKSTFGSRVDRHHSLGEGNIGHDAFRWIMQD
DRFDGIPLILQTINPDIWAEEIAWLKAQQ

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: 2nqj Chain A Residue 353

Receptor-Ligand Complex Structure

Structure summary

• PDB: 2nqj DNA apurinic-apyrimidinic site binding and excision by endonuclease IV.
• Resolution: 2.45 Å
• Binding residue (original residue number in PDB): H182 D229 H231
• Binding residue (residue number reindexed from 1): H182 D229 H231
• Annotation score: 4

Enzymatic activity

• Enzyme Commision number: 3.1.21.2: deoxyribonuclease IV.

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003906 DNA-(apurinic or apyrimidinic site) endonuclease activity
• GO:0004519 endonuclease activity
• GO:0008081 phosphoric diester hydrolase activity
• GO:0008270 zinc ion binding
• GO:0008296 3'-5'-DNA exonuclease activity
• GO:0008833 deoxyribonuclease IV (phage-T4-induced) activity
• GO:0016791 phosphatase activity
• GO:0046872 metal ion binding

Biological Process

• GO:0006281 DNA repair
• GO:0006284 base-excision repair

Cellular Component

• GO:0005829 cytosol

External links

• PDB: RCSB:2nqj, PDBe:2nqj, PDBj:2nqj
• PDBsum: 2nqj
• PubMed: 18408731
• UniProt: P0A6C1|END4_ECOLI Endonuclease 4 (Gene Name=nfo)