2P1W

structure of the phosphothreonine lyase SpvC, the effector protein from Salmonella


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.229 
  • R-Value Work: 0.191 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural insights into the enzymatic mechanism of the pathogenic MAPK phosphothreonine lyase.

Zhu, Y.Li, H.Long, C.Hu, L.Xu, H.Liu, L.Chen, S.Wang, D.C.Shao, F.

(2007) Mol.Cell 28: 899-913

  • DOI: 10.1016/j.molcel.2007.11.011
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The OspF family of phosphothreonine lyase, including SpvC from Salmonella, irreversibly inactivates the dual-phosphorylated host MAPKs (pT-X-pY) through beta elimination. We determined crystal structures of SpvC and its complex with a phosphopeptide ...

    The OspF family of phosphothreonine lyase, including SpvC from Salmonella, irreversibly inactivates the dual-phosphorylated host MAPKs (pT-X-pY) through beta elimination. We determined crystal structures of SpvC and its complex with a phosphopeptide substrate. SpvC adopts a unique fold of alpha/beta type. The disordered N terminus harbors a canonical D motif for MAPK substrate docking. The enzyme-substrate complex structure indicates that recognition of the phosphotyrosine followed by insertion of the threonine phosphate into an arginine pocket places the phosphothreonine into the enzyme active site. This requires the conformational flexibility of pT-X-pY, which suggests that p38 (pT-G-pY) is likely the preferred physiological substrate. Structure-based biochemical and enzymatic analysis allows us to propose a general acid/base mechanism for beta elimination reaction catalyzed by the phosphothreonine lyase. The mechanism described here provides a structural understanding of MAPK inactivation by a family of pathogenic effectors conserved in plant and animal systems and may also open a new route for biological catalysis.


    Organizational Affiliation

    National Institute of Biological Sciences, Beijing, 102206, China.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
27.5 kDa virulence protein
A
250Salmonella enteritidisMutation(s): 0 
Gene Names: spvC (mkaD, vsdD)
EC: 4.2.3.-
Find proteins for P0A2N1 (Salmonella enteritidis)
Go to UniProtKB:  P0A2N1
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.229 
  • R-Value Work: 0.191 
  • Space Group: P 42 21 2
Unit Cell:
Length (Å)Angle (°)
a = 70.352α = 90.00
b = 70.352β = 90.00
c = 101.243γ = 90.00
Software Package:
Software NamePurpose
SOLVEphasing
HKL-2000data reduction
HKL-2000data scaling
CNSrefinement
CrystalCleardata collection
RESOLVEphasing
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2007-12-11
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance