› 5zhz

X-ray diffraction
1.18Å resolution

Crystal structure of the apurinic/apyrimidinic endonuclease IV from Mycobacterium tuberculosis

Released:
DOI: 10.2210/pdb5zhz/pdb
PDB entry 5zhz coloured by chain, front view.
PDB entry 5zhz coloured by chain, side view.
PDB entry 5zhz coloured by chain, top view.
Source organism: Mycobacterium tuberculosis H37Rv
Primary publication:
Crystal structure of the apurinic/apyrimidinic endonuclease IV from Mycobacterium tuberculosis.
Zhang W, Xu Y, Yan M, Li S, Wang H, Yang H, Zhou W, Rao Z
Biochem Biophys Res Commun 498 111-118 (2018)
PMID: 29496453

Function and Biology Details

Reaction catalysed: 
Endonucleolytic cleavage to 5'-phosphooligonucleotide end-products
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-162039 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Probable endonuclease 4 Chain: A
Molecule details ›
Chain: A
Length: 258 amino acids
Theoretical weight: 27.71 KDa
Source organism: Mycobacterium tuberculosis H37Rv
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P9WQ13 (Residues: 1-252; Coverage: 100%)
Gene names: MTCI376.04c, Rv0670, end, nfo
Sequence domains: Xylose isomerase-like TIM barrel

Ligands and Environments

2 bound ligands:
Ligand SO4 3 x SO4
Ligand ZN 3 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSRRC BEAMLINE BL17A
Spacegroup: P212121
Unit cell:
a: 48.638Å b: 55.269Å c: 102.939Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.14 0.139 0.159
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

2 citation in other articles

A unique DNA-binding mode of African swine fever virus AP endonuclease.
Chen et al. (2020)
1 more