› 2ppd

X-ray diffraction
1.8Å resolution

Oxidized H145A mutant of AfNiR bound to nitric oxide

Released:
DOI: 10.2210/pdb2ppd/pdb
PDB entry 2ppd coloured by chain, front view.
PDB entry 2ppd coloured by chain, side view.
PDB entry 2ppd coloured by chain, top view.
Source organism: Alcaligenes faecalis
Primary publication:
Stable copper-nitrosyl formation by nitrite reductase in either oxidation state.
Tocheva EI, Rosell FI, Mauk AG, Murphy ME
Biochemistry 46 12366-74 (2007)
PMID: 17924665

Function and Biology Details

Reaction catalysed: 
Nitric oxide + H(2)O + ferricytochrome c = nitrite + ferrocytochrome c + 2 H(+)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-153659 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Copper-containing nitrite reductase Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 343 amino acids
Theoretical weight: 37 KDa
Source organism: Alcaligenes faecalis
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P38501 (Residues: 34-376; Coverage: 100%)
Gene names: nir, nirK
Sequence domains:
Structure domains: Cupredoxins - blue copper proteins

Ligands and Environments

5 bound ligands:
Ligand CU1 3 x CU1
Ligand CU 3 x CU
Ligand NO 2 x NO
Ligand TRS 1 x TRS
Ligand ACT 1 x ACT
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL1-5
Spacegroup: P212121
Unit cell:
a: 60.957Å b: 102.062Å c: 145.797Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.189 0.188 0.212
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

4 review citations

Copper active sites in biology.
Solomon et al. (2014)
3 more

4 mentions without citation

Measuring Quality of Life Following Robot-Assisted Radical Prostatectomy.
Hale et al. (2021)
3 more