› 2e80

X-ray diffraction
1.6Å resolution

Cytochrome c Nitrite Reductase from Wolinella succinogenes with bound substrate nitrite

Released:
DOI: 10.2210/pdb2e80/pdb
PDB entry 2e80 coloured by chain, front view.
PDB entry 2e80 coloured by chain, side view.
PDB entry 2e80 coloured by chain, top view.
Source organism: Wolinella succinogenes DSM 1740
Primary publication:
Mechanism of the six-electron reduction of nitrite to ammonia by cytochrome c nitrite reductase.
Einsle O, Messerschmidt A, Huber R, Kroneck PM, Neese F
J Am Chem Soc 124 11737-45 (2002)
PMID: 12296741

Function and Biology Details

Reaction catalysed: 
NH(3) + 2 H(2)O + 6 ferricytochrome c = nitrite + 6 ferrocytochrome c + 7 H(+)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-193377 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Cytochrome c-552 Chain: A
Molecule details ›
Chain: A
Length: 485 amino acids
Theoretical weight: 55.34 KDa
Source organism: Wolinella succinogenes DSM 1740
UniProt:
  • Canonical: Q9S1E5 (Residues: 23-507; Coverage: 100%)
Gene names: WS0969, nrfA
Sequence domains: Cytochrome c552
Structure domains:

Ligands and Environments


Cofactor: Ligand HEM 5 x HEM
4 bound ligands:
Ligand NO2 1 x NO2
Ligand ACT 3 x ACT
Ligand CA 1 x CA
Ligand YT3 3 x YT3
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: MPG/DESY, HAMBURG BEAMLINE BW6
Spacegroup: I4122
Unit cell:
a: 118.984Å b: 118.984Å c: 186.731Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.186 0.186 0.21

Quick links

Citations

19 review citations

Enzymology and bioenergetics of respiratory nitrite ammonification.
Simon J. (2002)
18 more

4 mentions without citation

Nature's nitrite-to-ammonia expressway, with no stop at dinitrogen.
Kroneck PMH. (2022)
3 more