3M7H

Crystal structure of the bacteriocin LLPA from Pseudomonas sp.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.204 
  • R-Value Work: 0.172 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Structural Determinants for Activity and Specificity of the Bacterial Toxin LlpA

Garcia-Pino, A.Lebbe, E.K.Spaepen, S.Loris, R.De Mot, R.Ghequire, M.G.

(2013) Plos Pathog. 9: e1003199-e1003199

  • DOI: 10.1371/journal.ppat.1003199
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Lectin-like bacteriotoxic proteins, identified in several plant-associated bacteria, are able to selectively kill closely related species, including several phytopathogens, such as Pseudomonas syringae and Xanthomonas species, but so far their mode o ...

    Lectin-like bacteriotoxic proteins, identified in several plant-associated bacteria, are able to selectively kill closely related species, including several phytopathogens, such as Pseudomonas syringae and Xanthomonas species, but so far their mode of action remains unrevealed. The crystal structure of LlpABW, the prototype lectin-like bacteriocin from Pseudomonas putida, reveals an architecture of two monocot mannose-binding lectin (MMBL) domains and a C-terminal β-hairpin extension. The C-terminal MMBL domain (C-domain) adopts a fold very similar to MMBL domains from plant lectins and contains a binding site for mannose and oligomannosides. Mutational analysis indicates that an intact sugar-binding pocket in this domain is crucial for bactericidal activity. The N-terminal MMBL domain (N-domain) adopts the same fold but is structurally more divergent and lacks a functional mannose-binding site. Differential activity of engineered N/C-domain chimers derived from two LlpA homologues with different killing spectra, disclosed that the N-domain determines target specificity. Apparently this bacteriocin is assembled from two structurally similar domains that evolved separately towards dedicated functions in target recognition and bacteriotoxicity.


    Organizational Affiliation

    Centre of Microbial and Plant Genetics, University of Leuven, Heverlee-Leuven, Belgium.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Putidacin L1
A, B
276Pseudomonas putidaMutation(s): 0 
Gene Names: llpA
Find proteins for Q8GEJ9 (Pseudomonas putida)
Go to UniProtKB:  Q8GEJ9
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.204 
  • R-Value Work: 0.172 
  • Space Group: P 21 21 2
Unit Cell:
Length (Å)Angle (°)
a = 150.495α = 90.00
b = 154.492β = 90.00
c = 34.218γ = 90.00
Software Package:
Software NamePurpose
DENZOdata reduction
MAR345data collection
SCALEPACKdata scaling
SHARPphasing
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2011-03-23
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2013-04-10
    Type: Database references
  • Version 1.3: 2017-11-08
    Type: Refinement description