› 2pzu

X-ray diffraction
2.1Å resolution

Crystal structure of Staphylococcal nuclease variant V66N/P117G/H124L/S128A at cryogenic temperature

Released:
DOI: 10.2210/pdb2pzu/pdb
PDB entry 2pzu coloured by chain, front view.
PDB entry 2pzu coloured by chain, side view.
PDB entry 2pzu coloured by chain, top view.
Source organism: Staphylococcus aureus
Primary publication:
Crystallographic study of hydration of an internal cavity in engineered proteins with buried polar or ionizable groups.
Schlessman JL, Abe C, Gittis A, Karp DA, Dolan MA, García-Moreno E B
Biophys J 94 3208-16 (2008)
PMID: 18178652

Function and Biology Details

Reaction catalysed: 
Endonucleolytic cleavage to nucleoside 3'-phosphates and 3'-phosphooligonucleotide end-products
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-107535 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Thermonuclease Chain: A
Molecule details ›
Chain: A
Length: 149 amino acids
Theoretical weight: 16.78 KDa
Source organism: Staphylococcus aureus
Expression system: Escherichia coli
UniProt:
  • Canonical: A5A523 (Residues: 69-215; Coverage: 89%)
Gene name: nuc
Sequence domains: Staphylococcal nuclease homologue
Structure domains: OB fold (Dihydrolipoamide Acetyltransferase, E2P)

Ligands and Environments

1 bound ligand:
Ligand PO4 1 x PO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: OTHER
Spacegroup: P41
Unit cell:
a: 48.22Å b: 48.22Å c: 62.97Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.218 0.211 0.265
Expression system: Escherichia coli

Quick links

Citations

4 review citations

The pKa Cooperative: a collaborative effort to advance structure-based calculations of pKa values and electrostatic effects in proteins.
Nielsen et al. (2011)
3 more

2 mentions without citation

Role of flexibility and polarity as determinants of the hydration of internal cavities and pockets in proteins.
Damjanović et al. (2007)
1 more