1FFT

The structure of ubiquinol oxidase from Escherichia coli


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.50 Å

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This is version 1.5 of the entry. See complete history


Literature

The structure of the ubiquinol oxidase from Escherichia coli and its ubiquinone binding site.

Abramson, J.Riistama, S.Larsson, G.Jasaitis, A.Svensson-Ek, M.Laakkonen, L.Puustinen, A.Iwata, S.Wikstrom, M.

(2000) Nat Struct Biol 7: 910-917

  • DOI: https://doi.org/10.1038/82824
  • Primary Citation of Related Structures:  
    1FFT

  • PubMed Abstract: 

    Cell respiration is catalyzed by the heme-copper oxidase superfamily of enzymes, which comprises cytochrome c and ubiquinol oxidases. These membrane proteins utilize different electron donors through dissimilar access mechanisms. We report here the first structure of a ubiquinol oxidase, cytochrome bo3, from Escherichia coli. The overall structure of the enzyme is similar to those of cytochrome c oxidases; however, the membrane-spanning region of subunit I contains a cluster of polar residues exposed to the interior of the lipid bilayer that is not present in the cytochrome c oxidase. Mutagenesis studies on these residues strongly suggest that this region forms a quinone binding site. A sequence comparison of this region with known quinone binding sites in other membrane proteins shows remarkable similarities. In light of these findings we suggest specific roles for these polar residues in electron and proton transfer in ubiquinol oxidase.


  • Organizational Affiliation

    Uppsala University, Department of Biochemistry, Biomedical Center Box 576, Uppsala S-75123, Sweden.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
UBIQUINOL OXIDASEA,
E [auth F]
663Escherichia coliMutation(s): 0 
EC: 1.10.3 (PDB Primary Data), 7.1.1.3 (UniProt)
Membrane Entity: Yes 
UniProt
Find proteins for P0ABI8 (Escherichia coli (strain K12))
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Go to UniProtKB:  P0ABI8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0ABI8
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
UBIQUINOL OXIDASEB,
F [auth G]
315Escherichia coliMutation(s): 0 
EC: 1.10.3
Membrane Entity: Yes 
UniProt
Find proteins for P0ABJ1 (Escherichia coli (strain K12))
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Go to UniProtKB:  P0ABJ1
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UniProt GroupP0ABJ1
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
UBIQUINOL OXIDASEC,
G [auth H]
204Escherichia coliMutation(s): 0 
EC: 1.10.3
Membrane Entity: Yes 
UniProt
Find proteins for P0ABJ3 (Escherichia coli (strain K12))
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Go to UniProtKB:  P0ABJ3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0ABJ3
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
UBIQUINOL OXIDASED,
H [auth I]
109Escherichia coliMutation(s): 0 
EC: 1.10.3
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.50 Å
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 92.1α = 90
b = 372.5β = 90
c = 232.7γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2000-10-18
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2018-01-31
    Changes: Advisory, Experimental preparation
  • Version 1.4: 2020-06-17
    Changes: Data collection, Database references
  • Version 1.5: 2024-02-07
    Changes: Advisory, Data collection, Database references, Derived calculations