1ZXV

X-Ray Crystal Structure of the Anthrax Lethal Factor Bound to a Small Molecule Inhibitor, BI-MFM3, 3-{5-[5-(4-Chloro-phenyl)-furan-2-ylmethylene]-4-oxo-2-thioxo-thiazolidin-3-yl}-propionic acid.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.67 Å
  • R-Value Free: 0.272 
  • R-Value Work: 0.231 

Starting Model: experimental
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This is version 1.4 of the entry. See complete history


Literature

Efficient synthetic inhibitors of anthrax lethal factor.

Forino, M.Johnson, S.Wong, T.Y.Rozanov, D.V.Savinov, A.Y.Li, W.Fattorusso, R.Becattini, B.Orry, A.J.Jung, D.Abagyan, R.A.Smith, J.W.Alibek, K.Liddington, R.C.Strongin, A.Y.Pellecchia, M.

(2005) Proc Natl Acad Sci U S A 102: 9499-9504

  • DOI: https://doi.org/10.1073/pnas.0502733102
  • Primary Citation of Related Structures:  
    1ZXV

  • PubMed Abstract: 

    Inhalation anthrax is a deadly disease for which there is currently no effective treatment. Bacillus anthracis lethal factor (LF) metalloproteinase is an integral component of the tripartite anthrax lethal toxin that is essential for the onset and progression of anthrax. We report here on a fragment-based approach that allowed us to develop inhibitors of LF. The small-molecule inhibitors we have designed, synthesized, and tested are highly potent and selective against LF in both in vitro tests and cell-based assays. These inhibitors do not affect the prototype human metalloproteinases that are structurally similar to LF. Initial in vivo evaluation of postexposure efficacy of our inhibitors combined with antibiotic ciprofloxacin against B. anthracis resulted in significant protection. Our data strongly indicate that the scaffold of inhibitors we have identified is the foundation for the development of novel, safe, and effective emergency therapy of postexposure inhalation anthrax.


  • Organizational Affiliation

    Burnham Institute, Cancer Research Center and Infectious and Inflammatory Disease Center, 10901 North Torrey Pines Road, La Jolla, CA 92037, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
lethal factor
A, B
776Bacillus anthracisMutation(s): 0 
Gene Names: lef
EC: 3.4.24.83
UniProt
Find proteins for Q52NH3 (Bacillus anthracis)
Explore Q52NH3 
Go to UniProtKB:  Q52NH3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ52NH3
Sequence Annotations
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  • Reference Sequence
Small Molecules
Binding Affinity Annotations 
IDSourceBinding Affinity
MFM BindingDB:  1ZXV Ki: 800 (nM) from 1 assay(s)
IC50: 1700 (nM) from 1 assay(s)
PDBBind:  1ZXV Ki: 800 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.67 Å
  • R-Value Free: 0.272 
  • R-Value Work: 0.231 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 95.96α = 90
b = 136.65β = 98.23
c = 97.9γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
CNSrefinement
CNSphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2005-07-05
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2023-08-23
    Changes: Data collection, Database references, Derived calculations, Refinement description
  • Version 1.4: 2024-03-13
    Changes: Source and taxonomy, Structure summary