› 1ppj

X-ray diffraction
2.1Å resolution

Bovine cytochrome bc1 complex with stigmatellin and antimycin

Released:
DOI: 10.2210/pdb1ppj/pdb
PDB 1ppj coloured by chain and viewed from the front.
PDB 1ppj coloured by chain and viewed from the side.
PDB 1ppj coloured by chain and viewed from the top.
Source organism: Bos taurus
Primary publication:
Binding of the respiratory chain inhibitor antimycin to the mitochondrial bc1 complex: a new crystal structure reveals an altered intramolecular hydrogen-bonding pattern.
Huang LS, Cobessi D, Tung EY, Berry EA
J. Mol. Biol. 351 573-97 (2005)
PMID: 16024040

Function and Biology Details

Reaction catalysed: 
Quinol + 2 ferricytochrome c(Side 2) = quinone + 2 ferrocytochrome c(Side 2) + 2 H(+)(Side 2)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
hetero icosamer (preferred)
Entry contents:
10 distinct polypeptide molecules
Macromolecules (10 distinct):
Cytochrome b-c1 complex subunit 1, mitochondrial Chains: A, N
Molecule details ›
Chains: A, N
Length: 446 amino acids
Theoretical weight: 49.27 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P31800 (Residues: 35-480; Coverage: 93%)
Gene name: UQCRC1
Sequence domains:
Structure domains: Metalloenzyme, LuxS/M16 peptidase-like
Cytochrome b-c1 complex subunit 2, mitochondrial Chains: B, O
Molecule details ›
Chains: B, O
Length: 439 amino acids
Theoretical weight: 46.58 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P23004 (Residues: 15-453; Coverage: 97%)
Gene name: UQCRC2
Sequence domains:
Structure domains: Metalloenzyme, LuxS/M16 peptidase-like
Cytochrome b Chains: C, P
Molecule details ›
Chains: C, P
Length: 379 amino acids
Theoretical weight: 42.62 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P00157 (Residues: 1-379; Coverage: 100%)
Gene names: COB, CYTB, MT-CYB, MTCYB
Sequence domains:
Structure domains: Cytochrome Bc1 Complex; Chain C
Cytochrome c1, heme protein, mitochondrial Chains: D, Q
Molecule details ›
Chains: D, Q
Length: 241 amino acids
Theoretical weight: 27.32 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P00125 (Residues: 85-325; Coverage: 74%)
Gene name: CYC1
Sequence domains: Cytochrome C1 family
Structure domains:
Cytochrome b-c1 complex subunit Rieske, mitochondrial Chains: E, R
Molecule details ›
Chains: E, R
Length: 196 amino acids
Theoretical weight: 21.64 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P13272 (Residues: 79-274; Coverage: 72%)
Gene name: UQCRFS1
Sequence domains:
Structure domains:
Cytochrome b-c1 complex subunit 7 Chains: F, S
Molecule details ›
Chains: F, S
Length: 110 amino acids
Theoretical weight: 13.37 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P00129 (Residues: 2-111; Coverage: 99%)
Gene name: UQCRB
Sequence domains: Ubiquinol-cytochrome C reductase complex 14kD subunit
Structure domains: Cytochrome b-c1 complex subunit 7
Cytochrome b-c1 complex subunit 8 Chains: G, T
Molecule details ›
Chains: G, T
Length: 81 amino acids
Theoretical weight: 9.61 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P13271 (Residues: 2-82; Coverage: 99%)
Gene name: UQCRQ
Sequence domains: UcrQ family
Structure domains: Cytochrome b-c1 complex subunit 8
Cytochrome b-c1 complex subunit 6, mitochondrial Chains: H, U
Molecule details ›
Chains: H, U
Length: 78 amino acids
Theoretical weight: 9.19 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P00126 (Residues: 14-91; Coverage: 86%)
Gene name: UQCRH
Sequence domains: Ubiquinol-cytochrome C reductase hinge protein
Structure domains: Ubiquinol-cytochrome C reductase hinge domain
Cytochrome b-c1 complex subunit 9 Chains: I, V
Molecule details ›
Chains: I, V
Length: 78 amino acids
Theoretical weight: 7.92 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P13272 (Residues: 1-78; Coverage: 29%)
Gene name: UQCRFS1
Sequence domains: Ubiquinol-cytochrome c reductase 8 kDa, N-terminal
Structure domains: Cytochrome Bc1 Complex; Chain I
Cytochrome b-c1 complex subunit 9 Chains: J, W
Molecule details ›
Chains: J, W
Length: 62 amino acids
Theoretical weight: 7.21 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P00130 (Residues: 2-63; Coverage: 97%)
Gene name: UQCR10
Sequence domains: Ubiquinol-cytochrome C reductase, UQCRX/QCR9 like
Structure domains: Cytochrome b-c1 complex subunit 9

Ligands and Environments


Cofactor: Ligand HEM 4 x HEM

Cofactor: Ligand HEC 2 x HEC
9 bound ligands:
Ligand JZR 9 x JZR
Ligand PO4 5 x PO4
Ligand AZI 5 x AZI
Ligand GOL 6 x GOL
Ligand SMA 2 x SMA
Ligand PEE 4 x PEE
Ligand ANY 2 x ANY
Ligand CDL 4 x CDL
Ligand FES 2 x FES
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL9-1, ALS BEAMLINE 5.0.1, ALS BEAMLINE 5.0.2, ALS BEAMLINE 8.2.2
Spacegroup: P212121
Unit cell:
a: 128.53Å b: 168.748Å c: 231.533Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.224 0.224 0.26

Quick links

Citations

28 review citations

Mitochondrial Dynamic Dysfunction as a Main Triggering Factor for Inflammation Associated Chronic Non-Communicable Diseases.
Geto et al. (2020)
27 more

23 mentions without citation

Cardiac mitochondria and reactive oxygen species generation.
Chen et al. (2014)
22 more