5BY4 | pdb_00005by4

Structure and function of the Escherichia coli Tol-Pal stator protein TolR


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 
    0.215 (Depositor), 0.219 (DCC) 
  • R-Value Work: 
    0.175 (Depositor), 0.182 (DCC) 
  • R-Value Observed: 
    0.177 (Depositor) 

Starting Models: experimental
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This is version 1.3 of the entry. See complete history

Literature

Structure and Function of the Escherichia coli Tol-Pal Stator Protein TolR.

Wojdyla, J.A.Cutts, E.Kaminska, R.Papadakos, G.Hopper, J.T.Stansfeld, P.J.Staunton, D.Robinson, C.V.Kleanthous, C.

(2015) J Biological Chem 290: 26675-26687

  • DOI: https://doi.org/10.1074/jbc.M115.671586
  • Primary Citation Related Structures: 
    5BY4

  • PubMed Abstract: 

    TolR is a 15-kDa inner membrane protein subunit of the Tol-Pal complex in Gram-negative bacteria, and its function is poorly understood. Tol-Pal is recruited to cell division sites where it is involved in maintaining the integrity of the outer membrane. TolR is related to MotB, the peptidoglycan (PG)-binding stator protein from the flagellum, suggesting it might serve a similar role in Tol-Pal. The only structure thus far reported for TolR is of the periplasmic domain from Haemophilus influenzae in which N- and C-terminal residues had been deleted (TolR(62-133), Escherichia coli numbering). H. influenzae TolR(62-133) is a symmetrical dimer with a large deep cleft at the dimer interface. Here, we present the 1.7-Å crystal structure of the intact periplasmic domain of E. coli TolR (TolR(36-142)). E. coli TolR(36-142) is also dimeric, but the architecture of the dimer is radically different from that of TolR(62-133) due to the intertwining of its N and C termini. TolR monomers are rotated ∼180° relative to each other as a result of this strand swapping, obliterating the putative PG-binding groove seen in TolR(62-133). We found that removal of the strand-swapped regions (TolR(60-133)) exposes cryptic PG binding activity that is absent in the full-length domain. We conclude that to function as a stator in the Tol-Pal complex dimeric TolR must undergo large scale structural remodeling reminiscent of that proposed for MotB, where the N- and C-terminal sequences unfold in order for the protein to both reach and bind the PG layer ∼90 Å away from the inner membrane.


  • Organizational Affiliation
    • From the Department of Biochemistry, University of Oxford, South Parks Road, Oxford OX1 3QU and.

Macromolecule Content 

  • Total Structure Weight: 11.77 kDa 
  • Atom Count: 1,039 
  • Modeled Residue Count: 105 
  • Deposited Residue Count: 110 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Protein TolR110Escherichia coliMutation(s): 0 
Gene Names: tolRb0738JW0728
UniProt
Find proteins for P0ABV6 (Escherichia coli (strain K12))
Explore P0ABV6 
Go to UniProtKB:  P0ABV6
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0ABV6
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free:  0.215 (Depositor), 0.219 (DCC) 
  • R-Value Work:  0.175 (Depositor), 0.182 (DCC) 
  • R-Value Observed: 0.177 (Depositor) 
Space Group: P 65 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 51.727α = 90
b = 51.727β = 90
c = 155.029γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
PHASERphasing
SCALAdata scaling
XDSdata reduction

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-09-16
    Type: Initial release
  • Version 1.1: 2015-09-23
    Changes: Database references
  • Version 1.2: 2015-11-11
    Changes: Database references
  • Version 1.3: 2024-01-10
    Changes: Data collection, Database references, Derived calculations, Refinement description