2W8B

Crystal structure of processed TolB in complex with Pal

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.86 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.191 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history. 

Literature

Allosteric Beta-Propeller Signalling in Tolb and its Manipulation by Translocating Colicins.

Bonsor, D.A., Hecht, O., Vankemmelbeke, M., Sharma, A., Krachler, A.M., Housden, N.G., Lilly, K.J., James, R., Moore, G.R., Kleanthous, C.

(2009) Embo J. 28: 2846

  • DOI: 10.1038/emboj.2009.224

  • PubMed Abstract: 

    • The Tol system is a five-protein assembly parasitized by colicins and bacteriophages that helps stabilize the Gram-negative outer membrane (OM). We show that allosteric signalling through the six-bladed beta-propeller protein TolB is central to Tol f ...

    The Tol system is a five-protein assembly parasitized by colicins and bacteriophages that helps stabilize the Gram-negative outer membrane (OM). We show that allosteric signalling through the six-bladed beta-propeller protein TolB is central to Tol function in Escherichia coli and that this is subverted by colicins such as ColE9 to initiate their OM translocation. Protein-protein interactions with the TolB beta-propeller govern two conformational states that are adopted by the distal N-terminal 12 residues of TolB that bind TolA in the inner membrane. ColE9 promotes disorder of this 'TolA box' and recruitment of TolA. In contrast to ColE9, binding of the OM lipoprotein Pal to the same site induces conformational changes that sequester the TolA box to the TolB surface in which it exhibits little or no TolA binding. Our data suggest that Pal is an OFF switch for the Tol assembly, whereas colicins promote an ON state even though mimicking Pal. Comparison of the TolB mechanism to that of vertebrate guanine nucleotide exchange factor RCC1 suggests that allosteric signalling may be more prevalent in beta-propeller proteins than currently realized.

    Organizational Affiliation: 

    Department of Biology, University of York, York, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PROTEIN TOLB
A
409Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: tolB
Find proteins for P0A855 (Escherichia coli (strain K12))
Go to UniProtKB:  P0A855
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
PROTEIN TOLB
B, D, F
409Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: tolB
Find proteins for P0A855 (Escherichia coli (strain K12))
Go to UniProtKB:  P0A855
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
PEPTIDOGLYCAN-ASSOCIATED LIPOPROTEIN
C, E, G, H
118Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: pal (excC)
Find proteins for P0A912 (Escherichia coli (strain K12))
Go to UniProtKB:  P0A912
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4
Download SDF File 
Download CCD File 
A, B, D, F, G
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
ACT
Query on ACT
Download SDF File 
Download CCD File 
A, B, D, H
ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
 Ligand Interaction
GOL
Query on GOL
Download SDF File 
Download CCD File 
A, B, C, D, F
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.86 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.191 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 74.740α = 86.81
b = 89.240β = 89.81
c = 90.900γ = 68.62
Software Package:
Software NamePurpose
REFMACphasing
SCALAdata scaling
REFMACrefinement
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots


View more in-depth experimental data

Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2009-02-17
    Type: Initial release
  • Version 1.1: 2011-05-08
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance