4AG6

Structure of VirB4 of Thermoanaerobacter pseudethanolicus


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.266 
  • R-Value Work: 0.226 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structure of the Virb4 ATPase, Alone and Bound to the Core Complex of a Type Iv Secretion System.

Wallden, K.Williams, R.Yan, J.Lian, P.W.Wang, L.Thalassinos, K.Orlova, E.V.Waksman, G.

(2012) Proc.Natl.Acad.Sci.USA 109: 11348

  • DOI: 10.1073/pnas.1201428109
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Type IV secretion (T4S) systems mediate the transfer of proteins and DNA across the cell envelope of bacteria. These systems play important roles in bacterial pathogenesis and in horizontal transfer of antibiotic resistance. The VirB4 ATPase of the T ...

    Type IV secretion (T4S) systems mediate the transfer of proteins and DNA across the cell envelope of bacteria. These systems play important roles in bacterial pathogenesis and in horizontal transfer of antibiotic resistance. The VirB4 ATPase of the T4S system is essential for both the assembly of the system and substrate transfer. In this article, we present the crystal structure of the C-terminal domain of Thermoanaerobacter pseudethanolicus VirB4. This structure is strikingly similar to that of another T4S ATPase, VirD4, a protein that shares only 12% sequence identity with VirB4. The VirB4 domain purifies as a monomer, but the full-length protein is observed in a monomer-dimer equilibrium, even in the presence of nucleotides and DNAs. We also report the negative stain electron microscopy structure of the core complex of the T4S system of the Escherichia coli pKM101 plasmid, with VirB4 bound. In this structure, VirB4 is also monomeric and bound through its N-terminal domain to the core's VirB9 protein. Remarkably, VirB4 is observed bound to the side of the complex where it is ideally placed to play its known regulatory role in substrate transfer.


    Organizational Affiliation

    Institute of Structural and Molecular Biology, Department of Biological Sciences, Birkbeck, London WC1E 7HX, United Kingdom.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
TYPE IV SECRETORY PATHWAY VIRB4 COMPONENTS-LIKE PROTEIN
A, B, C, D
392Thermoanaerobacter pseudethanolicus (strain ATCC 33223 / 39E)Mutation(s): 0 
Find proteins for B0KAW2 (Thermoanaerobacter pseudethanolicus (strain ATCC 33223 / 39E))
Go to UniProtKB:  B0KAW2
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A, B, C
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B, C, D
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.266 
  • R-Value Work: 0.226 
  • Space Group: P 2 21 21
Unit Cell:
Length (Å)Angle (°)
a = 109.286α = 90.00
b = 112.765β = 90.00
c = 156.579γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
SCALAdata scaling
XDSdata reduction
SOLVEphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-07-04
    Type: Initial release
  • Version 1.1: 2012-07-25
    Type: Database references