Structure of PDB 8efg Chain A Binding Site BS01

Receptor Information

>8efg Chain A (length=295) Species: 9606 (Homo sapiens)

SRFKFIDIGINLTDPMFRGIYRGVQKHQDDLQDVIGRAVEIGVKKFMITG
GNLQDSKDALHLAQTNGMFFSTVGCHPTRCGEFEKNNPDLYLKELLNLAE
NNKGKVVAIGECGLDFDRLQFCPKDTQLKYFEKQFELSEQTKLPMFLHCR
NSHAEFLDIMKRNRDRCVGGVVHSFDGTKEAAAALIDLDLYIGFNGCSLK
TEANLEVLKSIPSEKLMIETDAPWCGVKSTHAGSKYIRTAFPTKKKWESG
HCLKDRNEPCHIIQILEIMSAVRDEDPLELANTLYNNTIKVFFPG

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: 8efg Chain A Residue 302

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8efg Human and bacterial TatD enzymes exhibit apurinic/apyrimidinic (AP) endonuclease activity.
• Resolution: 1.5 Å
• Binding residue (original residue number in PDB): E112 H149 H174
• Binding residue (residue number reindexed from 1): E111 H148 H173
• Annotation score: 4

Enzymatic activity

• Enzyme Commision number: 3.1.21.-

Gene Ontology

Molecular Function

• GO:0004518 nuclease activity
• GO:0005515 protein binding
• GO:0008296 3'-5'-DNA exonuclease activity
• GO:0016788 hydrolase activity, acting on ester bonds
• GO:0046872 metal ion binding

Biological Process

• GO:0006259 DNA metabolic process

Cellular Component

• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005739 mitochondrion

External links

• PDB: RCSB:8efg, PDBe:8efg, PDBj:8efg
• PDBsum: 8efg
• PubMed: 36881763
• UniProt: Q6P1N9|TATD1_HUMAN Deoxyribonuclease TATDN1 (Gene Name=TATDN1)