› 6zft

X-ray diffraction
3.3Å resolution

Crystal structure of bovine cytochrome bc1 in complex with quinolone inhibitor CK-2-68

Released:
DOI: 10.2210/pdb6zft/pdb
PDB entry 6zft coloured by chain, front view.
PDB entry 6zft coloured by chain, side view.
PDB entry 6zft coloured by chain, top view.
Source organism: Bos taurus
Entry authors: Amporndanai K, O'Neill PM, Hong WD, Amewu RK, Pidathala C, Berry NG, Biagini GA, Leung SC, Hasnain SS, Antonyuk SV

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 analysis Details

Assembly composition:
hetero decamer (preferred)
PDBe Complex ID:
PDB-CPX-132256 (preferred)
Entry contents:
10 distinct polypeptide molecules
Macromolecules (10 distinct):
Cytochrome b-c1 complex subunit 1, mitochondrial Chain: A
Molecule details ›
Chain: A
Length: 444 amino acids
Theoretical weight: 49.12 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P31800 (Residues: 37-480; Coverage: 93%)
Gene name: UQCRC1
Sequence domains:
Cytochrome b-c1 complex subunit 2, mitochondrial Chain: B
Molecule details ›
Chain: B
Length: 420 amino acids
Theoretical weight: 44.73 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P23004 (Residues: 34-453; Coverage: 93%)
Gene name: UQCRC2
Sequence domains:
Cytochrome b Chain: C
Molecule details ›
Chain: C
Length: 378 amino acids
Theoretical weight: 42.49 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P00157 (Residues: 2-379; Coverage: 100%)
Gene names: COB, CYTB, MT-CYB, MTCYB
Sequence domains:
Cytochrome c1, heme protein, mitochondrial Chain: D
Molecule details ›
Chain: D
Length: 239 amino acids
Theoretical weight: 27.11 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P00125 (Residues: 86-324; Coverage: 74%)
Gene name: CYC1
Sequence domains: Cytochrome C1 family
Cytochrome b-c1 complex subunit Rieske, mitochondrial Chain: E
Molecule details ›
Chain: E
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:
Cytochrome b-c1 complex subunit 7 Chain: F
Molecule details ›
Chain: F
Length: 99 amino acids
Theoretical weight: 12.36 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P00129 (Residues: 12-110; Coverage: 89%)
Gene name: UQCRB
Sequence domains: Ubiquinol-cytochrome C reductase complex 14kD subunit
Cytochrome b-c1 complex subunit 8 Chain: G
Molecule details ›
Chain: G
Length: 74 amino acids
Theoretical weight: 8.8 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P13271 (Residues: 3-76; Coverage: 90%)
Gene name: UQCRQ
Sequence domains: UcrQ family
Cytochrome b-c1 complex subunit 6, mitochondrial Chain: H
Molecule details ›
Chain: H
Length: 65 amino acids
Theoretical weight: 7.63 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P00126 (Residues: 26-90; Coverage: 71%)
Gene name: UQCRH
Sequence domains: Ubiquinol-cytochrome C reductase hinge protein
Cytochrome b-c1 complex subunit 9 Chain: I
Molecule details ›
Chain: I
Length: 46 amino acids
Theoretical weight: 4.83 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P13272 (Residues: 33-78; Coverage: 17%)
Gene name: UQCRFS1
Sequence domains: Ubiquinol-cytochrome c reductase 8 kDa, N-terminal
Cytochrome b-c1 complex subunit 9 Chain: J
Molecule details ›
Chain: J
Length: 59 amino acids
Theoretical weight: 6.87 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P00130 (Residues: 3-61; Coverage: 92%)
Gene name: UQCR10
Sequence domains: Ubiquinol-cytochrome C reductase, UQCRX/QCR9 like

Ligands and Environments

11 bound ligands:
Ligand PG4 4 x PG4
Ligand 6PE 1 x 6PE
Ligand CDL 4 x CDL
Ligand HEM 2 x HEM
Ligand JHB 1 x JHB
Ligand LMT 1 x LMT
Ligand PEE 2 x PEE
Ligand PO4 6 x PO4
Ligand HEC 1 x HEC
Ligand FES 1 x FES
Ligand PX4 1 x PX4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04
Spacegroup: P6522
Unit cell:
a: 212.36Å b: 212.36Å c: 345.914Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.216 0.214 0.244

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