› 2yiu

X-ray diffraction
2.7Å resolution

X-ray structure of the dimeric cytochrome BC1 complex from the soil bacterium paracoccus denitrificans at 2.7 angstrom resolution

Released:
DOI: 10.2210/pdb2yiu/pdb
PDB entry 2yiu coloured by chain, front view.
PDB entry 2yiu coloured by chain, side view.
PDB entry 2yiu coloured by chain, top view.
Source organism: Paracoccus denitrificans PD1222
Primary publication:
X-ray structure of the dimeric cytochrome bc(1) complex from the soil bacterium Paracoccus denitrificans at 2.7-Å resolution.
Kleinschroth T, Castellani M, Trinh CH, Morgner N, Brutschy B, Ludwig B, Hunte C
Biochim Biophys Acta 1807 1606-15 (2011)
PMID: 21996020

Function and Biology Details

Reaction catalysed: 
Quinol + 2 ferricytochrome c(Side 2) = quinone + 2 ferrocytochrome c(Side 2) + 2 H(+)(Side 2)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
PDBe Complex ID:
PDB-CPX-138664 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Cytochrome b Chains: A, D
Molecule details ›
Chains: A, D
Length: 450 amino acids
Theoretical weight: 51.54 KDa
Source organism: Paracoccus denitrificans PD1222
UniProt:
  • Canonical: P05418 (Residues: 1-440; Coverage: 100%)
Gene name: petB
Sequence domains:
Structure domains: Cytochrome Bc1 Complex; Chain C
Cytochrome c1 Chains: B, E
Molecule details ›
Chains: B, E
Length: 263 amino acids
Theoretical weight: 28.49 KDa
Source organism: Paracoccus denitrificans PD1222
UniProt:
  • Canonical: P13627 (Residues: 201-450; Coverage: 58%)
Gene name: petC
Sequence domains: Cytochrome C1 family
Structure domains:
Ubiquinol-cytochrome c reductase iron-sulfur subunit Chains: C, F
Molecule details ›
Chains: C, F
Length: 190 amino acids
Theoretical weight: 20.32 KDa
Source organism: Paracoccus denitrificans PD1222
UniProt:
  • Canonical: P05417 (Residues: 1-190; Coverage: 100%)
Gene name: petA
Sequence domains:
Structure domains:

Ligands and Environments


Cofactor: Ligand HEC 2 x HEC

Cofactor: Ligand HEM 4 x HEM
2 bound ligands:
Ligand SMA 2 x SMA
Ligand FES 2 x FES
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I03
Spacegroup: P21
Unit cell:
a: 85.3Å b: 164.91Å c: 100.61Å
α: 90° β: 103.18° γ: 90°
R-values:
R R work R free
0.24 0.238 0.29

Quick links

Citations

8 review citations

Superoxide generation by complex III: from mechanistic rationales to functional consequences.
Bleier et al. (2013)
7 more

6 mentions without citation

Structural analysis of cytochrome bc1 complexes: implications to the mechanism of function.
Xia et al. (2013)
5 more