1FF3 | pdb_00001ff3

STRUCTURE OF THE PEPTIDE METHIONINE SULFOXIDE REDUCTASE FROM ESCHERICHIA COLI


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 
    0.218 (Depositor) 
  • R-Value Work: 
    0.195 (Depositor) 

wwPDB Validation 3D Report Full Report

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This is version 1.3 of the entry. See complete history

Literature

Crystal structure of the Escherichia coli peptide methionine sulphoxide reductase at 1.9 A resolution.

Tete-Favier, F.Cobessi, D.Boschi-Muller, S.Azza, S.Branlant, G.Aubry, A.

(2000) Structure 8: 1167-1178

  • DOI: https://doi.org/10.1016/s0969-2126(00)00526-8
  • Primary Citation Related Structures: 
    1FF3

  • PubMed Abstract: 

    Peptide methionine sulphoxide reductases catalyze the reduction of oxidized methionine residues in proteins. They are implicated in the defense of organisms against oxidative stress and in the regulation of processes involving peptide methionine oxidation/reduction. These enzymes are found in numerous organisms, from bacteria to mammals and plants. Their primary structure shows no significant similarity to any other known protein. The X-ray structure of the peptide methionine sulphoxide reductase from Escherichia coli was determined at 3 A resolution by the multiple wavelength anomalous dispersion method for the selenomethionine-substituted enzyme, and it was refined to 1.9 A resolution for the native enzyme. The 23 kDa protein is folded into an alpha/beta roll and contains a large proportion of coils. Among the three cysteine residues involved in the catalytic mechanism, Cys-51 is positioned at the N terminus of an alpha helix, in a solvent-exposed area composed of highly conserved amino acids. The two others, Cys-198 and Cys-206, are located in the C-terminal coil. Sequence alignments show that the overall fold of the peptide methionine sulphoxide reductase from E. coli is likely to be conserved in many species. The characteristics observed in the Cys-51 environment are in agreement with the expected accessibility of the active site of an enzyme that reduces methionine sulphoxides in various proteins. Cys-51 could be activated by the influence of an alpha helix dipole. The involvement of the two other cysteine residues in the catalytic mechanism requires a movement of the C-terminal coil. Several conserved amino acids and water molecules are discussed as potential participants in the reaction.


  • Organizational Affiliation
    • Laboratoire de Cristallographie et de Modélisation des Matériaux Minéraux et Biologiques Groupe Biocristallographie University Henri Poincaré BP239 54506, Vandoeuvre-lès-Nancy Cédex, France.

Macromolecule Content 

  • Total Structure Weight: 70.31 kDa 
  • Atom Count: 5,153 
  • Modeled Residue Count: 590 
  • Deposited Residue Count: 633 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
PEPTIDE METHIONINE SULFOXIDE REDUCTASE
A, B, C
211Escherichia coliMutation(s): 1 
EC: 1.8.4.11
UniProt
Find proteins for P0A744 (Escherichia coli (strain K12))
Explore P0A744 
Go to UniProtKB:  P0A744
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0A744
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free:  0.218 (Depositor) 
  • R-Value Work:  0.195 (Depositor) 
Space Group: P 65 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 102.5α = 90
b = 102.5β = 90
c = 292.3γ = 120
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
CNSrefinement
CNSphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2000-12-06
    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: 2024-11-20
    Changes: Data collection, Database references, Derived calculations, Structure summary