4K6L

Structure of Typhoid Toxin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.39 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.210 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Structure and function of the Salmonella Typhi chimaeric A(2)B(5) typhoid toxin.

Song, J.Gao, X.Galan, J.E.

(2013) Nature 499: 350-354

  • DOI: https://doi.org/10.1038/nature12377
  • Primary Citation of Related Structures:  
    4K6L

  • PubMed Abstract: 

    Salmonella enterica serovar Typhi (S. Typhi) differs from most other salmonellae in that it causes a life-threatening systemic infection known as typhoid fever. The molecular bases for its unique clinical presentation are unknown. Here we find that the systemic administration of typhoid toxin, a unique virulence factor of S. Typhi, reproduces many of the acute symptoms of typhoid fever in an animal model. We identify specific carbohydrate moieties on specific surface glycoproteins that serve as receptors for typhoid toxin, which explains its broad cell target specificity. We present the atomic structure of typhoid toxin, which shows an unprecedented A2B5 organization with two covalently linked A subunits non-covalently associated to a pentameric B subunit. The structure provides insight into the toxin's receptor-binding specificity and delivery mechanisms and reveals how the activities of two powerful toxins have been co-opted into a single, unique toxin that can induce many of the symptoms characteristic of typhoid fever. These findings may lead to the development of potentially life-saving therapeutics against typhoid fever.


  • Organizational Affiliation

    Department of Microbial Pathogenesis, Yale University School of Medicine, New Haven, Connecticut 06536, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Putative pertussis-like toxin subunit
A, B, C, D, E
114Salmonella enterica subsp. enterica serovar TyphiMutation(s): 0 
Gene Names: STY1891t1107
UniProt
Find proteins for Q8Z6A3 (Salmonella typhi)
Explore Q8Z6A3 
Go to UniProtKB:  Q8Z6A3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8Z6A3
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Cytolethal distending toxin subunit B homolog255Salmonella enterica subsp. enterica serovar TyphiMutation(s): 0 
Gene Names: cdtBSTY1886t1111
EC: 3.1
UniProt
Find proteins for Q8Z6A7 (Salmonella typhi)
Explore Q8Z6A7 
Go to UniProtKB:  Q8Z6A7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8Z6A7
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Putative pertussis-like toxin subunit224Salmonella enterica subsp. enterica serovar TyphiMutation(s): 0 
Gene Names: STY1890t1108
EC: 2.4.2
UniProt
Find proteins for Q8Z6A4 (Salmonella typhi)
Explore Q8Z6A4 
Go to UniProtKB:  Q8Z6A4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8Z6A4
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.39 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.210 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 78.386α = 90
b = 261.076β = 90
c = 109.896γ = 90
Software Package:
Software NamePurpose
CrystalCleardata collection
PHASESphasing
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2013-07-17
    Type: Initial release
  • Version 1.1: 2013-07-24
    Changes: Database references
  • Version 1.2: 2013-07-31
    Changes: Database references
  • Version 1.3: 2014-10-29
    Changes: Structure summary
  • Version 1.4: 2023-09-20
    Changes: Data collection, Database references, Derived calculations, Refinement description