4EXM

The crystal structure of an engineered phage lysin containing the binding domain of pesticin and the killing domain of T4-lysozyme


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.251 
  • R-Value Work: 0.199 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural engineering of a phage lysin that targets Gram-negative pathogens.

Lukacik, P.Barnard, T.J.Keller, P.W.Chaturvedi, K.S.Seddiki, N.Fairman, J.W.Noinaj, N.Kirby, T.L.Henderson, J.P.Steven, A.C.Hinnebusch, B.J.Buchanan, S.K.

(2012) Proc.Natl.Acad.Sci.USA 109: 9857-9862

  • DOI: 10.1073/pnas.1203472109
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Bacterial pathogens are becoming increasingly resistant to antibiotics. As an alternative therapeutic strategy, phage therapy reagents containing purified viral lysins have been developed against gram-positive organisms but not against gram-negative ...

    Bacterial pathogens are becoming increasingly resistant to antibiotics. As an alternative therapeutic strategy, phage therapy reagents containing purified viral lysins have been developed against gram-positive organisms but not against gram-negative organisms due to the inability of these types of drugs to cross the bacterial outer membrane. We solved the crystal structures of a Yersinia pestis outer membrane transporter called FyuA and a bacterial toxin called pesticin that targets this transporter. FyuA is a β-barrel membrane protein belonging to the family of TonB dependent transporters, whereas pesticin is a soluble protein with two domains, one that binds to FyuA and another that is structurally similar to phage T4 lysozyme. The structure of pesticin allowed us to design a phage therapy reagent comprised of the FyuA binding domain of pesticin fused to the N-terminus of T4 lysozyme. This hybrid toxin kills specific Yersinia and pathogenic E. coli strains and, importantly, can evade the pesticin immunity protein (Pim) giving it a distinct advantage over pesticin. Furthermore, because FyuA is required for virulence and is more common in pathogenic bacteria, the hybrid toxin also has the advantage of targeting primarily disease-causing bacteria rather than indiscriminately eliminating natural gut flora.


    Organizational Affiliation

    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Pesticin, Lysozyme Chimera
A, B, C, D
347Yersinia pestisEnterobacteria phage T4
This entity is chimeric
Mutation(s): 4 
Gene Names: pst, E
EC: 3.2.1.17
Find proteins for Q57159 (Yersinia pestis)
Go to UniProtKB:  Q57159
Find proteins for P00720 (Enterobacteria phage T4)
Go to UniProtKB:  P00720
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.251 
  • R-Value Work: 0.199 
  • Space Group: P 32
Unit Cell:
Length (Å)Angle (°)
a = 108.427α = 90.00
b = 108.427β = 90.00
c = 109.752γ = 120.00
Software Package:
Software NamePurpose
SERGUIdata collection
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-06-20
    Type: Initial release
  • Version 1.1: 2012-07-04
    Type: Database references
  • Version 1.2: 2017-07-26
    Type: Refinement description, Source and taxonomy