› 2vnd

X-ray diffraction
1.7Å resolution

The N69Q mutant of Vibrio cholerae endonuclease I

Released:
DOI: 10.2210/pdb2vnd/pdb
PDB entry 2vnd coloured by chain, front view.
PDB entry 2vnd coloured by chain, side view.
PDB entry 2vnd coloured by chain, top view.
Source organism: Vibrio cholerae
Primary publication:
Effects of salt on the kinetics and thermodynamic stability of endonuclease I from Vibrio salmonicida and Vibrio cholerae.
Niiranen L, Altermark B, Brandsdal BO, Leiros HS, Helland R, Smalås AO, Willassen NP
FEBS J 275 1593-1605 (2008)
PMID: 18312415

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-139895 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Extracellular deoxyribonuclease Chain: A
Molecule details ›
Chain: A
Length: 231 amino acids
Theoretical weight: 26.77 KDa
Source organism: Vibrio cholerae
Expression system: Escherichia coli
UniProt:
  • Canonical: P08038 (Residues: 1-231; Coverage: 100%)
Gene names: VC_0470, dns
Sequence domains: Endonuclease I

Ligands and Environments

2 bound ligands:
Ligand CL 1 x CL
Ligand MG 1 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-007 HF
Spacegroup: P212121
Unit cell:
a: 40.265Å b: 64.411Å c: 75.639Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.2 0.197 0.259
Expression system: Escherichia coli

Quick links

Citations

3 review citations

Nucleases: diversity of structure, function and mechanism.
Yang W. (2011)
2 more

2 mentions without citation

Phylogenomics and sequence-structure-function relationships in the GmrSD family of Type IV restriction enzymes.
Machnicka et al. (2015)
1 more