8BHX

High resolution structure of the iron Superoxide Dismutase from Thermobifida fusca


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.25 Å
  • R-Value Free: 0.144 
  • R-Value Work: 0.125 
  • R-Value Observed: 0.126 

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Literature

Initial characterization of an iron superoxide dismutase from Thermobifida fusca.

Hamre, A.G.Al-Sadawi, R.Johannesen, K.M.Bisarro, B.Kjendseth, A.R.Leiros, H.S.Sorlie, M.

(2023) J Biol Inorg Chem 28: 689-698

  • DOI: https://doi.org/10.1007/s00775-023-02019-9
  • Primary Citation of Related Structures:  
    8BHX

  • PubMed Abstract: 

    Superoxide dismutases (SODs) are enzymes that catalyze the dismutation of the superoxide radical anion into O 2 and H 2 O 2 in a two-step reaction. They are ubiquitous to all forms of life and four different types of metal centers are detected, dividing this class of enzymes into Cu-/Zn-, Ni-, Mn-, and Fe-SODs. In this study, a superoxide dismutase from the thermophilic bacteria Thermobifida fusca (TfSOD) was cloned and expressed before the recombinant enzyme was characterized. The enzyme was found to be active for superoxide dismutation measured by inhibition of cytochrome c oxidation and the inhibition of the autoxidation of pyrogallol. Its pH-optimum was determined to be 7.5, while it has a broad temperature optimum ranging from 20 to 90 °C. Combined with the T m that was found to be 78.5 ± 0.5 °C at pH 8.0, TfSOD can be defined as a thermostable enzyme. Moreover, the crystal structure of TfSOD was determined and refined to 1.25 Å resolution. With electron paramagnetic resonance spectroscopy, it was confirmed that iron is the metal co-factor of TfSOD. The cell potential (E m ) for the TfSOD-Fe 3+ /TfSOD-Fe 2+ redox couple was determined to be 287 mV.


  • Organizational Affiliation

    Department of Chemistry, Biotechnology and Food Science, Norwegian University of Life Sciences, PO 5003, 1432, Ås, Norway.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Superoxide dismutase
A, B
204Thermobifida fuscaMutation(s): 0 
Gene Names: Tfu_0957
EC: 1.15.1.1
UniProt
Find proteins for Q47RC2 (Thermobifida fusca (strain YX))
Explore Q47RC2 
Go to UniProtKB:  Q47RC2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ47RC2
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.25 Å
  • R-Value Free: 0.144 
  • R-Value Work: 0.125 
  • R-Value Observed: 0.126 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 98.61α = 90
b = 58.59β = 90
c = 67.94γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PHENIXrefinement
MOSFLMdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2023-09-27
    Type: Initial release
  • Version 1.1: 2023-10-04
    Changes: Database references