Structure of PDB 4b20 Chain A Binding Site BS03

Receptor Information

>4b20 Chain A (length=223) Species: 2336 (Thermotoga maritima)

MDYRQLHRWDLPPEEAIKVQNELRKKIKLTPYEGEPEYVAGVDLSFPGKE
EGLAVIVVLEYPSFKILEVVSERGEITFPYIPGLLAFREGPLFLKAWEKL
RTKPDVVVFDGQGLAHPRKLGIASHMGLFIEIPTIGVAKSRLYGTFKMPE
DKRCSWSYLYDGEEIIGCVIRTKEGSAPIFVSPGHLMDVESSKRLIKAFT
LPGRRIPEPTRLAHIYTQRLKKG

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: 4b20 Chain A Residue 1224

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4b20 Structural Basis of DNA Loop Recognition by Endonuclease V.
• Resolution: 2.75 Å
• Binding residue (original residue number in PDB): D43 D110
• Binding residue (residue number reindexed from 1): D43 D110
• Annotation score: 4

Enzymatic activity

• Enzyme Commision number: 3.1.21.7: deoxyribonuclease V.

Gene Ontology

Molecular Function

• GO:0000287 magnesium ion binding
• GO:0003727 single-stranded RNA binding
• GO:0004519 endonuclease activity
• GO:0016891 RNA endonuclease activity, producing 5'-phosphomonoesters
• GO:0043737 deoxyribonuclease V activity
• GO:0046872 metal ion binding

Biological Process

• GO:0006281 DNA repair

Cellular Component

• GO:0005737 cytoplasm

External links

• PDB: RCSB:4b20, PDBe:4b20, PDBj:4b20
• PDBsum: 4b20
• PubMed: 23313664
• UniProt: Q9X2H9|NFI_THEMA Endonuclease V (Gene Name=nfi)