1E5D

RUBREDOXIN OXYGEN:OXIDOREDUCTASE (ROO) FROM ANAEROBE DESULFOVIBRIO GIGAS


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.248 
  • R-Value Observed: 0.180 

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This is version 1.8 of the entry. See complete history


Literature

Structure of a Dioxygen Reduction Enzyme from Desulfovibrio Gigas

Frazao, C.Silva, G.Gomes, C.M.Matias, P.Coelho, R.Sieker, L.Macedo, S.Liu, M.Y.Oliveira, S.Teixeira, M.Xavier, A.V.Rodrigues-Pousada, C.Carrondo, M.A.Le Gall, J.

(2000) Nat Struct Biol 7: 1041

  • DOI: https://doi.org/10.1038/80961
  • Primary Citation of Related Structures:  
    1E5D

  • PubMed Abstract: 

    Desulfovibrio gigas is a strict anaerobe that contains a well-characterized metabolic pathway that enables it to survive transient contacts with oxygen. The terminal enzyme in this pathway, rubredoxin:oxygen oxidoreductase (ROO) reduces oxygen to water in a direct and safe way. The 2.5 A resolution crystal structure of ROO shows that each monomer of this homodimeric enzyme consists of a novel combination of two domains, a flavodoxin-like domain and a Zn-beta-lactamase-like domain that contains a di-iron center for dioxygen reduction. This is the first structure of a member of a superfamily of enzymes widespread in strict and facultative anaerobes, indicating its broad physiological significance.


  • Organizational Affiliation

    Instituto de Tecnologia Química e Biológica, Universidade Nova de Lisboa, Av. da República, Apartado 127, 2781-901 Oeiras, Portugal.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
RUBREDOXIN\:OXYGEN OXIDOREDUCTASE
A, B
402Megalodesulfovibrio gigasMutation(s): 0 
UniProt
Find proteins for Q9F0J6 (Megalodesulfovibrio gigas (strain ATCC 19364 / DSM 1382 / NCIMB 9332 / VKM B-1759))
Explore Q9F0J6 
Go to UniProtKB:  Q9F0J6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9F0J6
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.248 
  • R-Value Observed: 0.180 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 98.24α = 90
b = 101.25β = 90
c = 90.8γ = 90
Software Package:
Software NamePurpose
SHELXL-97refinement
HKLdata reduction
HKLdata scaling
SHELXL-97phasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2000-11-17
    Type: Initial release
  • Version 1.1: 2011-05-08
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2018-04-18
    Changes: Data collection, Database references
  • Version 1.4: 2019-05-08
    Changes: Data collection, Experimental preparation
  • Version 1.5: 2019-05-22
    Changes: Data collection, Refinement description
  • Version 1.6: 2019-07-10
    Changes: Data collection
  • Version 1.7: 2019-07-24
    Changes: Data collection
  • Version 1.8: 2024-05-08
    Changes: Data collection, Database references, Derived calculations, Other