1JM1

Crystal structure of the soluble domain of the Rieske protein II (soxF) from Sulfolobus acidocaldarius


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.11 Å
  • R-Value Free: 0.125 
  • R-Value Work: 0.106 
  • R-Value Observed: 0.106 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

The structure of the soluble domain of an archaeal Rieske iron-sulfur protein at 1.1 A resolution.

Bonisch, H.Schmidt, C.L.Schafer, G.Ladenstein, R.

(2002) J Mol Biol 319: 791-805

  • DOI: https://doi.org/10.1016/S0022-2836(02)00323-6
  • Primary Citation of Related Structures:  
    1JM1

  • PubMed Abstract: 

    The first crystal structure of an archaeal Rieske iron-sulfur protein, the soluble domain of Rieske iron-sulfur protein II (soxF) from the hyperthermo-acidophile Sulfolobus acidocaldarius, has been solved by multiple wavelength anomalous dispersion (MAD) and has been refined to 1.1 A resolution. SoxF is a subunit of the terminal oxidase supercomplex SoxM in the plasma membrane of S. acidocaldarius that combines features of a cytochrome bc(1) complex and a cytochrome c oxidase. The [2Fe-2S] cluster of soxF is most likely the primary electron acceptor during the oxidation of caldariella quinone by the cytochrome a(587)/Rieske subcomplex. The geometry of the [2Fe-2S] cluster and the structure of the cluster-binding site are almost identical in soxF and the Rieske proteins from eucaryal cytochrome bc(1) and b(6)f complexes, suggesting a strict conservation of the catalytic mechanism. The main domain of soxF and part of the cluster-binding domain, though structurally related, show a significantly divergent structure with respect to topology, non-covalent interactions and surface charges. The divergent structure of soxF reflects a different topology of the soxM complex compared to eucaryal bc complexes and the adaptation of the protein to the extreme ambient conditions on the outer membrane surface of a hyperthermo-acidophilic organism.


  • Organizational Affiliation

    Department of Biosciences at NOVUM, Center for Structural Biochemistry, Karolinska Institutet, Hälsovägen 7-9, S-14157 Huddinge, Sweden.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Rieske iron-sulfur protein soxF204Sulfolobus acidocaldariusMutation(s): 0 
Gene Names: SOXF
UniProt
Find proteins for Q53766 (Sulfolobus acidocaldarius)
Explore Q53766 
Go to UniProtKB:  Q53766
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ53766
Sequence Annotations
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  • Reference Sequence
Small Molecules
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.11 Å
  • R-Value Free: 0.125 
  • R-Value Work: 0.106 
  • R-Value Observed: 0.106 
  • Space Group: P 61
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 80.252α = 90
b = 80.252β = 90
c = 75.624γ = 120
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
MLPHAREphasing
SHELXL-97refinement

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2002-07-17
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance