1BE3

CYTOCHROME BC1 COMPLEX FROM BOVINE

• PDB DOI: https://doi.org/10.2210/pdb1BE3/pdb

• Classification: ELECTRON TRANSPORT
• Organism(s): Bos taurus
• Mutation(s): No 


• Deposited: 1998-05-19 Released: 1999-01-13 
• Deposition Author(s): Iwata, S., Lee, J.W., Okada, K., Lee, J.K., Iwata, M., Ramaswamy, S., Jap, B.K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 0.320 
• R-Value Work: 0.260 

Literature

Complete structure of the 11-subunit bovine mitochondrial cytochrome bc1 complex.

Iwata, S., Lee, J.W., Okada, K., Lee, J.K., Iwata, M., Rasmussen, B., Link, T.A., Ramaswamy, S., Jap, B.K.

(1998) Science 281: 64-71

• PubMed: 9651245 
• DOI: https://doi.org/10.1126/science.281.5373.64
• Primary Citation of Related Structures:  
  1BE3, 1BGY


• PubMed Abstract: 
  

  Mitochondrial cytochrome bc1 complex performs two functions: It is a respiratory multienzyme complex and it recognizes a mitochondrial targeting presequence. Refined crystal structures of the 11-subunit bc1 complex from bovine heart reveal full views of this bifunctional enzyme. The "Rieske" iron-sulfur protein subunit shows significant conformational changes in different crystal forms, suggesting a new electron transport mechanism of the enzyme. The mitochondrial targeting presequence of the "Rieske" protein (subunit 9) is lodged between the two "core" subunits at the matrix side of the complex. These "core" subunits are related to the matrix processing peptidase, and the structure unveils how mitochondrial targeting presequences are recognized.

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Organizational Affiliation: 

Life Sciences Division, Lawrence Berkeley National Laboratory, University of California, Berkeley, CA 94720, USA. [e-mail]

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 11-mer - A1B1C1D1E1F1G1H1I1J1K1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 11-mer - A2B1C1D1E1F1G1H1I1J1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 22-mer - A2B2C2D2E2F2G2H2I2J2K2 Pseudo Symmetry: Cyclic - C2  (Explore in 3D)
Pseudo Stoichiometry: Hetero 22-mer - A4B2C2D2E2F2G2H2I2J2 

Biological assembly 2 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 243.16 kDa 
• Atom Count: 16,222 
• Modelled Residue Count: 2,049 
• Deposited Residue Count: 2,166 
• Unique protein chains: 11

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CYTOCHROME BC1 COMPLEX	A	446	Bos taurus	Mutation(s): 0  EC: 1.10.2.2
UniProt
Find proteins for P31800 (Bos taurus) Go to UniProtKB:  P31800

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
CYTOCHROME BC1 COMPLEX	B	439	Bos taurus	Mutation(s): 0  EC: 1.10.2.2
UniProt
Find proteins for P23004 (Bos taurus) Go to UniProtKB:  P23004

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
CYTOCHROME BC1 COMPLEX	C	379	Bos taurus	Mutation(s): 0  EC: 1.10.2.2
UniProt
Find proteins for P00157 (Bos taurus) Go to UniProtKB:  P00157

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
CYTOCHROME BC1 COMPLEX	D	241	Bos taurus	Mutation(s): 0  EC: 1.10.2.2
UniProt
Find proteins for P00125 (Bos taurus) Go to UniProtKB:  P00125

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
CYTOCHROME BC1 COMPLEX	E	196	Bos taurus	Mutation(s): 0  EC: 1.10.2.2
UniProt
Find proteins for P13272 (Bos taurus) Go to UniProtKB:  P13272

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
CYTOCHROME BC1 COMPLEX	F	110	Bos taurus	Mutation(s): 0  EC: 1.10.2.2
UniProt
Find proteins for P00129 (Bos taurus) Go to UniProtKB:  P00129

Entity ID: 7
Molecule	Chains	Sequence Length	Organism	Details	Image
CYTOCHROME BC1 COMPLEX	G	81	Bos taurus	Mutation(s): 0  EC: 1.10.2.2
UniProt
Find proteins for P13271 (Bos taurus) Go to UniProtKB:  P13271

Entity ID: 8
Molecule	Chains	Sequence Length	Organism	Details	Image
CYTOCHROME BC1 COMPLEX	H	78	Bos taurus	Mutation(s): 0  EC: 1.10.2.2
UniProt
Find proteins for P00126 (Bos taurus) Go to UniProtKB:  P00126

Entity ID: 9
Molecule	Chains	Sequence Length	Organism	Details	Image
CYTOCHROME BC1 COMPLEX	I	78	Bos taurus	Mutation(s): 0  EC: 1.10.2.2
UniProt
Find proteins for P13272 (Bos taurus) Go to UniProtKB:  P13272

Entity ID: 10
Molecule	Chains	Sequence Length	Organism	Details	Image
CYTOCHROME BC1 COMPLEX	J	62	Bos taurus	Mutation(s): 0  EC: 1.10.2.2
UniProt
Find proteins for P00130 (Bos taurus) Go to UniProtKB:  P00130

Entity ID: 11
Molecule	Chains	Sequence Length	Organism	Details	Image
CYTOCHROME BC1 COMPLEX	K	56	Bos taurus	Mutation(s): 0  EC: 1.10.2.2
UniProt
Find proteins for P07552 (Bos taurus) Go to UniProtKB:  P07552

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HEC	N [auth D]	HEME C C34 H34 Fe N4 O4 HXQIYSLZKNYNMH-LJNAALQVSA-N
HEM	L [auth C], M [auth C]	PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L
FES	O [auth E]	FE2/S2 (INORGANIC) CLUSTER Fe2 S2 NIXDOXVAJZFRNF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 0.320 
• R-Value Work: 0.260 
• Space Group: P 6₅ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 211.2	α = 90
b = 211.2	β = 90
c = 339.28	γ = 120

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
CCP4	model building
REFMAC	refinement
CCP4	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1999-01-13 
Deposition Author(s): Iwata, S., Lee, J.W., Okada, K., Lee, J.K., Iwata, M., Ramaswamy, S., Jap, B.K.

Revision History  

• Version 1.0: 1999-01-13
  Type: Initial release
  
• Version 1.1: 2008-03-03
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-10-16
  Changes: Data collection, Database references, Derived calculations, Structure summary