1GPQ

Structure of ivy complexed with its target, HEWL


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.212 
  • R-Value Work: 0.181 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure and Evolution of the Ivy Protein Family, Unexpected Lysozyme Inhibitors in Gram-Negative Bacteria.

Abergel, C.Monchois, V.Byrne, D.Chenivesse, S.Lembo, F.Lazzaroni, J.Claverie, J.

(2007) Proc.Natl.Acad.Sci.USA 104: 6394

  • DOI: 10.1073/pnas.0611019104
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Part of an ancestral bactericidal system, vertebrate C-type lysozyme targets the peptidoglycan moiety of bacterial cell walls. We report the crystal structure of a protein inhibitor of C-type lysozyme, the Escherichia coli Ivy protein, alone and in c ...

    Part of an ancestral bactericidal system, vertebrate C-type lysozyme targets the peptidoglycan moiety of bacterial cell walls. We report the crystal structure of a protein inhibitor of C-type lysozyme, the Escherichia coli Ivy protein, alone and in complex with hen egg white lysozyme. Ivy exhibits a novel fold in which a protruding five-residue loop appears essential to its inhibitory effect. This feature guided the identification of Ivy orthologues in other Gram-negative bacteria. The structure of the evolutionary distant Pseudomonas aeruginosa Ivy orthologue was also determined in complex with hen egg white lysozyme, and its antilysozyme activity was confirmed. Ivy expression protects porous cell-wall E. coli mutants from the lytic effect of lysozyme, suggesting that it is a response against the permeabilizing effects of the innate vertebrate immune system. As such, Ivy acts as a virulence factor for a number of Gram-negative bacteria-infecting vertebrates.


    Related Citations: 
    • Crystallization and Preliminary Crystallographic Study of B0220, an "Orfan" Protein of Unknown Function from Escherichia Coli
      Abergel, C.,Monchois, V.,Chenivesse, S.,Jeudy, S.,Claverie, J.-M.
      (2000) Acta Crystallogr.,Sect.D 56: 1694
    • Escherichia Coli Ykfe "Orfan" Gene Encodes a Potent Inhibitor of C-Type Lysozyme
      Monchois, V.,Abergel, C.,Sturgis, J.,Jeudy, S.,Claverie, J.-M.
      (2001) J.Biol.Chem. 276: 18437


    Organizational Affiliation

    Structural and Genomic Information Laboratory, Centre National de la Recherche Scientifique, Unité Propre de Recherche 2589, 13288 Marseille, Cedex 9, France. chantal.abergel@igs.cnrs-mrs.fr




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
INHIBITOR OF VERTEBRATE LYSOZYME
A, B
135Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: ivy (ykfE)
Find proteins for P0AD59 (Escherichia coli (strain K12))
Go to UniProtKB:  P0AD59
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
LYSOZYME C
C, D
129Gallus gallusMutation(s): 0 
Gene Names: LYZ
EC: 3.2.1.17
Find proteins for P00698 (Gallus gallus)
Go to Gene View: LYZ
Go to UniProtKB:  P00698
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.212 
  • R-Value Work: 0.181 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 55.490α = 90.00
b = 59.560β = 95.39
c = 69.200γ = 90.00
Software Package:
Software NamePurpose
SCALAdata scaling
SOLVEphasing
AMoREphasing
DENZOdata reduction
CNSrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-03-11
    Type: Initial release
  • Version 1.1: 2011-06-23
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance