› 6pw0

X-ray diffraction
2.5Å resolution

Cytochrome C oxidase delta 6 mutant

Released:
DOI: 10.2210/pdb6pw0/pdb
PDB entry 6pw0 coloured by chain, front view.
PDB entry 6pw0 coloured by chain, side view.
PDB entry 6pw0 coloured by chain, top view.
Source organism: Cereibacter sphaeroides 2.4.1
Primary publication:
Structural changes at the surface of cytochrome c oxidase alter the proton-pumping stoichiometry.
Berg J, Liu J, Svahn E, Ferguson-Miller S, Brzezinski P
Biochim Biophys Acta Bioenerg 1861 148116 (2020)
PMID: 31733183

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 analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-174617 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (3 distinct):
Cytochrome c oxidase subunit 1 Chains: A, C
Molecule details ›
Chains: A, C
Length: 560 amino acids
Theoretical weight: 62.53 KDa
Source organism: Cereibacter sphaeroides 2.4.1
Expression system: Cereibacter sphaeroides 2.4.1
UniProt:
  • Canonical: Q3J5A7 (Residues: 1-560; Coverage: 99%)
Gene names: RSP_1877, coxI
Sequence domains: Cytochrome C and Quinol oxidase polypeptide I
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 2.4.1
Expression system: Cereibacter sphaeroides 2.4.1
UniProt:
  • Canonical: Q3J5G0 (Residues: 26-281; Coverage: 92%)
Gene names: RSP_1826, coxII
Sequence domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: GLC
Carbohydrate polymer
10 bound ligands:
Ligand OH 2 x OH
Ligand HEA 4 x HEA
Ligand DMU 9 x DMU
Ligand TRD 15 x TRD
Ligand HTH 2 x HTH
Ligand CU 6 x CU
Ligand MG 2 x MG
Ligand CA 2 x CA
Ligand CD 4 x CD
Ligand TRS 1 x TRS
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 21-ID-D
Spacegroup: P212121
Unit cell:
a: 124.905Å b: 131.477Å c: 176.601Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.174 0.173 0.208
Expression system: Cereibacter sphaeroides 2.4.1

Quick links

Citations

4 review citations

Structure and Mechanism of Respiratory III-IV Supercomplexes in Bioenergetic Membranes.
Brzezinski et al. (2021)
3 more

1 mention without citation

Structural changes at the surface of cytochrome c oxidase alter the proton-pumping stoichiometry.
Berg et al. (2020)