› 3s3a

X-ray diffraction
4.25Å resolution

Structure of Thermus thermophilus cytochrome ba3 oxidase 120s after Xe depressurization

Released:
DOI: 10.2210/pdb3s3a/pdb
PDB 3s3a coloured by chain and viewed from the front.
PDB 3s3a coloured by chain and viewed from the side.
PDB 3s3a coloured by chain and viewed from the top.
Source organism: Thermus thermophilus HB8
Primary publication:
Mobility of Xe Atoms within the Oxygen Diffusion Channel of Cytochrome ba(3) Oxidase.
Luna VM, Fee JA, Deniz AA, Stout CD
Biochemistry (2012)
PMID: 22607023

Function and Biology Details

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

Structure analysis Details

Assembly composition:
Non-polymer only trimer (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Cytochrome c oxidase subunit 1 Chain: A
Molecule details ›
Chain: A
Length: 568 amino acids
Theoretical weight: 63.4 KDa
Source organism: Thermus thermophilus HB8
Expression system: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SJ79 (Residues: 2-562; Coverage: 100%)
Gene names: TTHA1135, cbaA
Sequence domains: Cytochrome C and Quinol oxidase polypeptide I
Cytochrome c oxidase subunit 2 Chain: B
Molecule details ›
Chain: B
Length: 166 amino acids
Theoretical weight: 18.35 KDa
Source organism: Thermus thermophilus HB8
Expression system: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SJ80 (Residues: 3-168; Coverage: 99%)
Gene names: TTHA1134, cbaB, ctaC
Sequence domains:
Cytochrome c oxidase polypeptide 2A Chain: C
Molecule details ›
Chain: C
Length: 33 amino acids
Theoretical weight: 3.64 KDa
Source organism: Thermus thermophilus HB8
Expression system: Thermus thermophilus HB8
UniProt:
  • Canonical: P82543 (Residues: 2-34; Coverage: 97%)
Gene names: TTHA1133, cbaD
Sequence domains: Cytochrome c oxidase subunit IIa family

Ligands and Environments

5 bound ligands:
Ligand CU 1 x CU
Ligand HEM 1 x HEM
Ligand HAS 1 x HAS
Ligand XE 4 x XE
Ligand CUA 1 x CUA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL11-1
Spacegroup: P43212
Unit cell:
a: 110.29Å b: 110.29Å c: 170.27Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.282 0.279 0.33
Expression system: Thermus thermophilus HB8

Quick links

Citations

1 review citation

Oxygen Activation and Energy Conservation by Cytochrome c Oxidase.
Wikström et al. (2018)
14 other articles

1 mention without citation

Mobility of Xe atoms within the oxygen diffusion channel of cytochrome ba(3) oxidase.
Luna et al. (2012)