7E43

Structural insights into a bifunctional peptide methionine sulfoxide reductase MsrA/B fusion protein from Helicobacter pylori


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.214 
  • R-Value Work: 0.188 
  • R-Value Observed: 0.189 

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Literature

Structural Insights into a Bifunctional Peptide Methionine Sulfoxide Reductase MsrA/B Fusion Protein from Helicobacter pylori .

Kim, S.Lee, K.Park, S.H.Kwak, G.H.Kim, M.S.Kim, H.Y.Hwang, K.Y.

(2021) Antioxidants (Basel) 10

  • DOI: https://doi.org/10.3390/antiox10030389
  • Primary Citation of Related Structures:  
    7E43

  • PubMed Abstract: 

    Methionine sulfoxide reductase (Msr) is a family of enzymes that reduces oxidized methionine and plays an important role in the survival of bacteria under oxidative stress conditions. MsrA and MsrB exist in a fusion protein form (MsrAB) in some pathogenic bacteria, such as Helicobacter pylori ( Hp ), Streptococcus pneumoniae , and Treponema denticola . To understand the fused form instead of the separated enzyme at the molecular level, we determined the crystal structure of Hp MsrAB C44S/C318S at 2.2 Å, which showed that a linker region ( Hpiloop , 193-205) between two domains interacted with each Hp MsrA or Hp MsrB domain via three salt bridges (E193-K107, D197-R103, and K200-D339). Two acetate molecules in the active site pocket showed an sp 2 planar electron density map in the crystal structure, which interacted with the conserved residues in fusion MsrABs from the pathogen. Biochemical and kinetic analyses revealed that Hpiloop is required to increase the catalytic efficiency of Hp MsrAB. Two salt bridge mutants (D193A and E199A) were located at the entrance or tailgate of Hpiloop . Therefore, the linker region of the MsrAB fusion enzyme plays a key role in the structural stability and catalytic efficiency and provides a better understanding of why MsrAB exists in a fused form.


  • Organizational Affiliation

    Department of Biotechnology, Korea University, Seoul 02841, Korea.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Peptide methionine sulfoxide reductase MsrA/MsrBA [auth B],
B [auth A]
359Helicobacter pylori 26695Mutation(s): 2 
Gene Names: msrABmsrAHP_0224
EC: 1.8.4.11 (PDB Primary Data), 1.8.4.12 (PDB Primary Data)
UniProt
Find proteins for O25011 (Helicobacter pylori (strain ATCC 700392 / 26695))
Explore O25011 
Go to UniProtKB:  O25011
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO25011
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.214 
  • R-Value Work: 0.188 
  • R-Value Observed: 0.189 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 52.125α = 93.16
b = 72.505β = 93.8
c = 82.23γ = 111.08
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data scaling
PDB_EXTRACTdata extraction
HKL-2000data reduction
PHENIXphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2021-04-21
    Type: Initial release
  • Version 1.1: 2023-11-29
    Changes: Data collection, Database references, Refinement description