› 4w9z

X-ray diffraction
1.3Å resolution

Crystal structure of the periplasmic domain of subunit II of cytochrome oxidase (CoxB) of Bradyrhizobium japonicum

Released:
DOI: 10.2210/pdb4w9z/pdb
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PDB entry 4w9z coloured by chain, front view.
PDB entry 4w9z coloured by chain, side view.
PDB entry 4w9z coloured by chain, top view.
Source organism: Bradyrhizobium diazoefficiens USDA 110
Entry authors: Quade N, Abicht HK, Hennecke H, Glockshuber R

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:
  • not assigned
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-124870 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Cytochrome c oxidase subunit 2 Chain: A
Molecule details ›
Chain: A
Length: 139 amino acids
Theoretical weight: 15.6 KDa
Source organism: Bradyrhizobium diazoefficiens USDA 110
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: H7C6E5 (Residues: 128-265; Coverage: 55%)
Gene name: coxB
Sequence domains: Cytochrome C oxidase subunit II, periplasmic domain
Structure domains: Cupredoxins - blue copper proteins

Ligands and Environments

1 bound ligand:
Ligand CU 2 x CU
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06SA
Spacegroup: P21
Unit cell:
a: 32.431Å b: 38.612Å c: 59.644Å
α: 90° β: 97.63° γ: 90°
R-values:
R R work R free
0.11 0.109 0.134
Expression system: Escherichia coli BL21(DE3)

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