1EZV

STRUCTURE OF THE YEAST CYTOCHROME BC1 COMPLEX CO-CRYSTALLIZED WITH AN ANTIBODY FV-FRAGMENT


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.222 
  • R-Value Observed: 0.253 

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This is version 1.2 of the entry. See complete history


Literature

Structure at 2.3 A resolution of the cytochrome bc(1) complex from the yeast Saccharomyces cerevisiae co-crystallized with an antibody Fv fragment.

Hunte, C.Koepke, J.Lange, C.Rossmanith, T.Michel, H.

(2000) Structure 8: 669-684

  • DOI: 10.1016/s0969-2126(00)00152-0
  • Primary Citation of Related Structures:  
    1EZV

  • PubMed Abstract: 
  • The cytochrome bc(1) complex is part of the energy conversion machinery of the respiratory and photosynthetic electron transfer chains. This integral membrane protein complex catalyzes electron transfer from ubiquinol to cytochrome c. It couples the ...

    The cytochrome bc(1) complex is part of the energy conversion machinery of the respiratory and photosynthetic electron transfer chains. This integral membrane protein complex catalyzes electron transfer from ubiquinol to cytochrome c. It couples the electron transfer to the electrogenic translocation of protons across the membrane via a so-called Q cycle mechanism.


    Organizational Affiliation

    Max-Planck-Institut für Biophysik, Abt. Molekulare Membranbiologie, Frankfurt, 60528, Germany. hunte@mpibp-frankfurt.mpg.de.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
UBIQUINOL-CYTOCHROME C REDUCTASE COMPLEX CORE PROTEIN IA430Saccharomyces cerevisiaeMutation(s): 0 
EC: 1.10.2.2
Find proteins for P07256 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
UBIQUINOL-CYTOCHROME C REDUCTASE COMPLEX CORE PROTEIN 2B352Saccharomyces cerevisiaeMutation(s): 0 
EC: 1.10.2.2
Find proteins for P07257 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
CYTOCHROME BC385Saccharomyces cerevisiaeMutation(s): 0 
EC: 7.1.1.8
Find proteins for P00163 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
CYTOCHROME C1D245Saccharomyces cerevisiaeMutation(s): 0 
EC: 7.1.1.8
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
UBIQUINOL-CYTOCHROME C REDUCTASE IRON-SULFUR SUBUNITE185Saccharomyces cerevisiaeMutation(s): 0 
EC: 1.10.2.2 (PDB Primary Data), 7.1.1.8 (UniProt)
Find proteins for P08067 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
UBIQUINOL-CYTOCHROME C REDUCTASE COMPLEX 17 KD PROTEINH74Saccharomyces cerevisiaeMutation(s): 0 
EC: 1.10.2.2
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
UBIQUINOL-CYTOCHROME C REDUCTASE COMPLEX 14 KD PROTEINF125Saccharomyces cerevisiaeMutation(s): 0 
EC: 1.10.2.2
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
UBIQUINOL-CYTOCHROME C REDUCTASE COMPLEX UBIQUINONE-BINDING PROTEIN QP-CG93Saccharomyces cerevisiaeMutation(s): 0 
EC: 1.10.2.2
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Entity ID: 9
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UBIQUINOL-CYTOCHROME C REDUCTASE COMPLEX 7.3 KD PROTEINI55Saccharomyces cerevisiaeMutation(s): 0 
EC: 1.10.2.2
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
HEAVY CHAIN (VH) OF FV-FRAGMENTX127Mus musculusMutation(s): 0 
Gene Names: Ighv3-6Gm16932
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
LIGHT CHAIN (VL) OF FV-FRAGMENTY107Mus musculusMutation(s): 0 
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  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
HEM
Query on HEM

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C, D
PROTOPORPHYRIN IX CONTAINING FE
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
 Ligand Interaction
UQ6
Query on UQ6

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C
5-(3,7,11,15,19,23-HEXAMETHYL-TETRACOSA-2,6,10,14,18,22-HEXAENYL)-2,3-DIMETHOXY-6-METHYL-BENZENE-1,4-DIOL
C39 H60 O4
DYOSCPIQEYRQEO-XQCASOQKSA-N
 Ligand Interaction
SMA
Query on SMA

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C
STIGMATELLIN A
C30 H42 O7
UZHDGDDPOPDJGM-WPPYOTIYSA-N
 Ligand Interaction
FES
Query on FES

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E
FE2/S2 (INORGANIC) CLUSTER
Fe2 S2
NIXDOXVAJZFRNF-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.222 
  • R-Value Observed: 0.253 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 214.47α = 90
b = 163.92β = 117.5
c = 147.27γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
DMmodel building
ARP/wARPmodel building
CNSrefinement
DMphasing

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2001-05-16
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance