› 3sxq

X-ray diffraction
1.9Å resolution

Structure of a hexameric multiheme c nitrite reductase from the extremophile bacterium Thiolkalivibrio paradoxus

Released:
DOI: 10.2210/pdb3sxq/pdb
PDB entry 3sxq coloured by chain, front view.
PDB entry 3sxq coloured by chain, side view.
PDB entry 3sxq coloured by chain, top view.
Source organism: Thioalkalivibrio paradoxus
Primary publication:
Comparative structural and functional analysis of two octaheme nitrite reductases from closely related Thioalkalivibrio species.
Tikhonova T, Tikhonov A, Trofimov A, Polyakov K, Boyko K, Cherkashin E, Rakitina T, Sorokin D, Popov V
FEBS J 279 4052-61 (2012)
PMID: 22935005

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 analysis Details

Assembly composition:
homo hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-123064 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
nitrite reductase (cytochrome; ammonia-forming) Chains: A, B
Molecule details ›
Chains: A, B
Length: 525 amino acids
Theoretical weight: 59.23 KDa
Source organism: Thioalkalivibrio paradoxus
UniProt:
  • Canonical: E7EDQ7 (Residues: 29-553; Coverage: 100%)
Sequence domains: Cytochrome c552
Structure domains:

Ligands and Environments


Cofactor: Ligand HEC 16 x HEC
6 bound ligands:
Ligand CA 2 x CA
Ligand CO 4 x CO
Ligand NA 2 x NA
Ligand CL 2 x CL
Ligand SO4 4 x SO4
Ligand GOL 8 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P213
Unit cell:
a: 193.64Å b: 193.64Å c: 193.64Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.139 0.138 0.162

Quick links

Citations

2 review citations

Anammox Biochemistry: a Tale of Heme c Proteins.
Kartal et al. (2016)
1 more

2 mentions without citation

Comparative structural and functional analysis of two octaheme nitrite reductases from closely related Thioalkalivibrio species.
Tikhonova et al. (2012)
1 more