› 5b6q

X-ray diffraction
1.78Å resolution

Crystal structure of monomeric cytochrome c5 from Shewanella violacea

Released:
DOI: 10.2210/pdb5b6q/pdb
PDB entry 5b6q coloured by chain, front view.
PDB entry 5b6q coloured by chain, side view.
PDB entry 5b6q coloured by chain, top view.
Source organism: Shewanella violacea
Primary publication:
Comparative study on stabilization mechanism of monomeric cytochrome c5 from deep-sea piezophilic Shewanella violacea.
Masanari M, Fujii S, Kawahara K, Oki H, Tsujino H, Maruno T, Kobayashi Y, Ohkubo T, Wakai S, Sambongi Y
Biosci Biotechnol Biochem 80 2365-2370 (2016)
PMID: 27648635

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-112656 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Cytochrome c domain-containing protein Chains: A, B
Molecule details ›
Chains: A, B
Length: 76 amino acids
Theoretical weight: 8.01 KDa
Source organism: Shewanella violacea
Expression system: Escherichia coli
UniProt:
  • Canonical: D4ZE39 (Residues: 32-107; Coverage: 100%)
Gene names: SVI_4129, cytcA
Sequence domains: Cytochrome C oxidase, cbb3-type, subunit III
Structure domains: Cytochrome c-like domain

Ligands and Environments

2 bound ligands:
Ligand HEC 2 x HEC
Ligand IMD 1 x IMD
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-007
Spacegroup: P212121
Unit cell:
a: 26.588Å b: 50.075Å c: 97.609Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.216 0.214 0.238
Expression system: Escherichia coli

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Citations

1 review citation

Biochemical and thermodynamic analyses of energy conversion in extremophiles.
Wakai S. (2019)
4 other articles