› 1ar1

X-ray diffraction
2.7Å resolution

Structure at 2.7 Angstrom Resolution of the Paracoccus Denitrificans two-subunit Cytochrome C Oxidase Complexed with an Antibody Fv Fragment

Released:
DOI: 10.2210/pdb1ar1/pdb
PDB entry 1ar1 coloured by chain, front view.
PDB entry 1ar1 coloured by chain, side view.
PDB entry 1ar1 coloured by chain, top view.
Source organisms:
Primary publication:
Structure at 2.7 A resolution of the Paracoccus denitrificans two-subunit cytochrome c oxidase complexed with an antibody FV fragment.
Ostermeier C, Harrenga A, Ermler U, Michel H
Proc Natl Acad Sci U S A 94 10547-53 (1997)
PMID: 9380672

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 tetramer (preferred)
PDBe Complex ID:
PDB-CPX-134471 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
Cytochrome c oxidase subunit 1-beta Chain: A
Molecule details ›
Chain: A
Length: 558 amino acids
Theoretical weight: 62.49 KDa
Source organism: Paracoccus denitrificans
Expression system: Escherichia coli
UniProt:
  • Canonical: P98002 (Residues: 1-558; Coverage: 100%)
Gene name: ctaDII
Sequence domains: Cytochrome C and Quinol oxidase polypeptide I
Structure domains: Cytochrome c oxidase-like, subunit I domain
Cytochrome c oxidase subunit 2 Chain: B
Molecule details ›
Chain: B
Length: 298 amino acids
Theoretical weight: 32.56 KDa
Source organism: Paracoccus denitrificans
Expression system: Escherichia coli
UniProt:
  • Canonical: P08306 (Residues: 1-298; Coverage: 100%)
Gene names: coiI, ctaB, ctaC
Sequence domains:
Structure domains:
Ig heavy chain V region 5-84 Chain: C
Molecule details ›
Chain: C
Length: 127 amino acids
Theoretical weight: 14.32 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: P18525 (Residues: 20-117; Coverage: 100%)
Sequence domains: Immunoglobulin V-set domain
Structure domains: Immunoglobulins
Ig kappa chain V-V region MOPC 149 Chain: D
Molecule details ›
Chain: D
Length: 120 amino acids
Theoretical weight: 13.26 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: P01636 (Residues: 1-95, 96-108; Coverage: 100%)
Sequence domains: Immunoglobulin V-set domain
Structure domains: Immunoglobulins

Ligands and Environments

5 bound ligands:
Ligand CU 3 x CU
Ligand MG 1 x MG
Ligand CA 1 x CA
Ligand HEA 2 x HEA
Ligand LDA 9 x LDA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE BM14
Spacegroup: P212121
Unit cell:
a: 93.5Å b: 151Å c: 156.7Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.207 0.207 0.261
Expression system: Escherichia coli

Quick links

Citations

68 review citations

Interaction of membrane proteins and lipids with solubilizing detergents.
le Maire et al. (2000)
67 more

47 mentions without citation

Design of functional metalloproteins.
Lu et al. (2009)
46 more