› 2bj9

X-ray diffraction
3Å resolution

NIKR with bound NICKEL and phosphate

Released:
DOI: 10.2210/pdb2bj9/pdb
PDB entry 2bj9 coloured by chain, front view.
PDB entry 2bj9 coloured by chain, side view.
PDB entry 2bj9 coloured by chain, top view.
Source organism: Pyrococcus horikoshii OT3
Primary publication:
Structure of Pyrococcus horikoshii NikR: nickel sensing and implications for the regulation of DNA recognition.
Chivers PT, Tahirov TH
J Mol Biol 348 597-607 (2005)
PMID: 15826657

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-129705 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Putative nickel-responsive regulator Chains: A, B
Molecule details ›
Chains: A, B
Length: 138 amino acids
Theoretical weight: 15.83 KDa
Source organism: Pyrococcus horikoshii OT3
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O58316 (Residues: 1-138; Coverage: 100%)
Gene name: PH0601
Sequence domains:
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand NI 5 x NI
Ligand PO4 2 x PO4
Ligand PG4 1 x PG4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU FR-D
Spacegroup: P3221
Unit cell:
a: 108.536Å b: 108.536Å c: 78.818Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.186 0.186 0.232
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

9 review citations

Coordination chemistry of bacterial metal transport and sensing.
Ma et al. (2009)
8 more

4 mentions without citation

Structural analysis of hypothetical proteins from Helicobacter pylori: an approach to estimate functions of unknown or hypothetical proteins.
Park et al. (2012)
3 more