1kyo image
Deposition Date 2002-02-05
Release Date 2002-03-06
Last Version Date 2023-08-16
Entry Detail
PDB ID:
1KYO
Title:
YEAST CYTOCHROME BC1 COMPLEX WITH BOUND SUBSTRATE CYTOCHROME C
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.97 Å
R-Value Free:
0.26
R-Value Work:
0.22
Space Group:
P 1 21 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:UBIQUINOL-CYTOCHROME C REDUCTASE COMPLEX CORE PROTEIN I
Gene (Uniprot):COR1
Chain IDs:A, L
Chain Length:430
Number of Molecules:2
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:UBIQUINOL-CYTOCHROME C REDUCTASE COMPLEX CORE PROTEIN 2
Gene (Uniprot):QCR2
Chain IDs:B, M
Chain Length:352
Number of Molecules:2
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:CYTOCHROME B
Gene (Uniprot):COB
Chain IDs:C, N
Chain Length:385
Number of Molecules:2
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:CYTOCHROME C1, HEME PROTEIN
Gene (Uniprot):CYT1
Chain IDs:D, O
Chain Length:248
Number of Molecules:2
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:UBIQUINOL-CYTOCHROME C REDUCTASE IRON-SULFUR SUBUNIT
Gene (Uniprot):RIP1
Chain IDs:E, P
Chain Length:185
Number of Molecules:2
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:UBIQUINOL-CYTOCHROME C REDUCTASE COMPLEX 17 KD PROTEIN
Gene (Uniprot):QCR6
Chain IDs:F, Q
Chain Length:74
Number of Molecules:2
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:UBIQUINOL-CYTOCHROME C REDUCTASE COMPLEX 14 KD PROTEIN
Gene (Uniprot):QCR7
Chain IDs:G, R
Chain Length:126
Number of Molecules:2
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:UBIQUINOL-CYTOCHROME C REDUCTASE COMPLEX UBIQUINONE-BINDING PROTEIN QP-C
Gene (Uniprot):QCR8
Chain IDs:H, S
Chain Length:93
Number of Molecules:2
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:UBIQUINOL-CYTOCHROME C REDUCTASE COMPLEX 7.3 KD PROTEIN
Gene (Uniprot):QCR9
Chain IDs:I, T
Chain Length:57
Number of Molecules:2
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:HEAVY CHAIN (VH) OF FV-FRAGMENT
Chain IDs:J, U
Chain Length:127
Number of Molecules:2
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:LIGHT CHAIN (VL) OF FV-FRAGMENT
Chain IDs:K, V
Chain Length:107
Number of Molecules:2
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:CYTOCHROME C, ISO-1
Gene (Uniprot):CYC1
Chain IDs:W
Chain Length:108
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
M3L W LYS N-TRIMETHYLLYSINE
Primary Citation
Crystal structure of the yeast cytochrome bc1 complex with its bound substrate cytochrome c.
Proc.Natl.Acad.Sci.USA 99 2800 2805 (2002)
PMID: 11880631 DOI: 10.1073/pnas.052704699

Abstact

Small diffusible redox proteins facilitate electron transfer in respiration and photosynthesis by alternately binding to integral membrane proteins. Specific and transient complexes need to be formed between the redox partners to ensure fast turnover. In respiration, the mobile electron carrier cytochrome c shuttles electrons from the cytochrome bc1 complex to cytochrome c oxidase. Despite extensive studies of this fundamental step of energy metabolism, the structures of the respective electron transfer complexes were not known. Here we present the crystal structure of the complex between cytochrome c and the cytochrome bc1 complex from Saccharomyces cerevisiae. The complex was crystallized with the help of an antibody fragment, and its structure was determined at 2.97-A resolution. Cytochrome c is bound to subunit cytochrome c1 of the enzyme. The tight and specific interactions critical for electron transfer are mediated mainly by nonpolar forces. The close spatial arrangement of the c-type hemes unexpectedly suggests a direct and rapid heme-to-heme electron transfer at a calculated rate of up to 8.3 x 10(6) s(-1). Remarkably, cytochrome c binds to only one recognition site of the homodimeric multisubunit complex. Interestingly, the occupancy of quinone in the Qi site is higher in the monomer with bound cytochrome c, suggesting a coordinated binding and reduction of both electron-accepting substrates. Obviously, cytochrome c reduction by the cytochrome bc1 complex can be regulated in response to respiratory conditions.

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