2J0O

Shigella Flexneri IpaD


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Work: 0.235 
  • R-Value Observed: 0.235 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Self-chaperoning of the type III secretion system needle tip proteins IpaD and BipD.

Johnson, S.Roversi, P.Espina, M.Olive, A.Deane, J.E.Birket, S.Field, T.Picking, W.D.Blocker, A.J.Galyov, E.E.Picking, W.L.Lea, S.M.

(2007) J Biol Chem 282: 4035-4044

  • DOI: 10.1074/jbc.M607945200
  • Primary Citation of Related Structures:  
    2IXR, 2J0N, 2J0O, 2J9T, 2JAA

  • PubMed Abstract: 
  • Bacteria expressing type III secretion systems (T3SS) have been responsible for the deaths of millions worldwide, acting as key virulence elements in diseases ranging from plague to typhoid fever. The T3SS is composed of a basal body, which traverses both bacterial membranes, and an external needle through which effector proteins are secreted ...

    Bacteria expressing type III secretion systems (T3SS) have been responsible for the deaths of millions worldwide, acting as key virulence elements in diseases ranging from plague to typhoid fever. The T3SS is composed of a basal body, which traverses both bacterial membranes, and an external needle through which effector proteins are secreted. We report multiple crystal structures of two proteins that sit at the tip of the needle and are essential for virulence: IpaD from Shigella flexneri and BipD from Burkholderia pseudomallei. The structures reveal that the N-terminal domains of the molecules are intramolecular chaperones that prevent premature oligomerization, as well as sharing structural homology with proteins involved in eukaryotic actin rearrangement. Crystal packing has allowed us to construct a model for the tip complex that is supported by mutations designed using the structure.


    Related Citations: 
    • Expression, Limited Proteolysis and Preliminary Crystallographic Analysis of Ipad, a Component of the Shigella Flexneri Type III Secretion System
      Johnson, S., Roversi, P., Espina, M., Deane, J.E., Birket, S., Picking, W.D., Blocker, A., Picking, W.L., Lea, S.M.
      (2006) Acta Crystallogr Sect F Struct Biol Cryst Commun 62: 865

    Organizational Affiliation

    Laboratory of Molecular Biophysics, Department of Biochemistry, University of Oxford, South Parks Road, Oxford, Oxon OX1 3QU, United Kingdom.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
INVASIN IPADA, B318Shigella flexneri 2a str. 301Mutation(s): 0 
UniProt
Find proteins for P18013 (Shigella flexneri)
Explore P18013 
Go to UniProtKB:  P18013
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP18013
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download Ideal Coordinates CCD File 
C [auth A]GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Work: 0.235 
  • R-Value Observed: 0.235 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 55.867α = 90
b = 100.693β = 90
c = 111.993γ = 90
Software Package:
Software NamePurpose
DMmodel building
SCALAdata scaling
SHARPphasing
SOLOMONphasing
DMphasing
DMphasing
TNTrefinement

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2006-11-02
    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: 2018-03-28
    Changes: Database references, Source and taxonomy