› 2gsm

X-ray diffraction
2Å resolution

Catalytic Core (Subunits I and II) of Cytochrome c oxidase from Rhodobacter sphaeroides

Released:
DOI: 10.2210/pdb2gsm/pdb
PDB entry 2gsm coloured by chain, front view.
PDB entry 2gsm coloured by chain, side view.
PDB entry 2gsm coloured by chain, top view.
Source organism: Cereibacter sphaeroides
Primary publication:
Identification of conserved lipid/detergent-binding sites in a high-resolution structure of the membrane protein cytochrome c oxidase.
Qin L, Hiser C, Mulichak A, Garavito RM, Ferguson-Miller S
Proc Natl Acad Sci U S A 103 16117-22 (2006)
PMID: 17050688

Function and Biology Details

Reaction catalysed: 
4 ferrocytochrome c + O(2) + 8 H(+)(Side 1) = 4 ferricytochrome c + 4 H(2)O(Side 2)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-152619 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Cytochrome c oxidase subunit 1 Chains: A, C
Molecule details ›
Chains: A, C
Length: 566 amino acids
Theoretical weight: 63.2 KDa
Source organism: Cereibacter sphaeroides
Expression system: Cereibacter sphaeroides
UniProt:
  • Canonical: P33517 (Residues: 1-566; Coverage: 100%)
Gene name: ctaD
Sequence domains: Cytochrome C and Quinol oxidase polypeptide I
Structure domains: Cytochrome c oxidase-like, subunit I domain
Cytochrome c oxidase subunit 2 Chains: B, D
Molecule details ›
Chains: B, D
Length: 262 amino acids
Theoretical weight: 29.37 KDa
Source organism: Cereibacter sphaeroides
Expression system: Cereibacter sphaeroides
UniProt:
  • Canonical: Q03736 (Residues: 26-281; Coverage: 92%)
Gene names: coxII, ctaB, ctaC
Sequence domains:
Structure domains:

Ligands and Environments

8 bound ligands:
Ligand DMU 10 x DMU
Ligand CU 6 x CU
Ligand MG 2 x MG
Ligand CA 2 x CA
Ligand OH 2 x OH
Ligand HEA 4 x HEA
Ligand TRD 12 x TRD
Ligand CD 4 x CD
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 5ID-B
Spacegroup: P212121
Unit cell:
a: 125.02Å b: 131.639Å c: 176.802Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.214 0.214 0.232
Expression system: Cereibacter sphaeroides

Quick links

Citations

22 review citations

The cytochrome bd respiratory oxygen reductases.
Borisov et al. (2011)
21 more

36 mentions without citation

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