1PTO

THE STRUCTURE OF A PERTUSSIS TOXIN-SUGAR COMPLEX AS A MODEL FOR RECEPTOR BINDING


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.50 Å
  • R-Value Work: 0.183 
  • R-Value Observed: 0.183 

wwPDB Validation   3D Report Full Report


This is version 2.0 of the entry. See complete history


Literature

Structure of a pertussis toxin-sugar complex as a model for receptor binding.

Stein, P.E.Boodhoo, A.Armstrong, G.D.Heerze, L.D.Cockle, S.A.Klein, M.H.Read, R.J.

(1994) Nat Struct Biol 1: 591-596

  • DOI: https://doi.org/10.1038/nsb0994-591
  • Primary Citation of Related Structures:  
    1PTO

  • PubMed Abstract: 

    Pertussis toxin is an exotoxin from the bacterium Bordetella pertussis which is important the pathogenesis of whooping cough and the generation of a protective immune response. The diverse biological activities of the toxin depend on its ability to recognize carbohydrate-containing receptors on a wide variety of eukaryotic cells. We present here the crystal structure of pertussis toxin complexed with a soluble oligosaccharide from transferrin. Binding sites for the terminal sialic acid-galactose moiety are revealed on both subunits S2 and S3 of the B-oligomer. Identification of amino acid residues involved in receptor binding will improve the design of genetically inactivated toxins for use in new acellular whooping cough vaccines.


  • Organizational Affiliation

    Department of Medical Microbiology and Infectious Diseases, University of Alberta, Edmonton, Canada.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
PERTUSSIS TOXIN (SUBUNIT S1)
A, G
244Bordetella pertussisMutation(s): 0 
UniProt
Find proteins for P04977 (Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251))
Explore P04977 
Go to UniProtKB:  P04977
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP04977
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
PERTUSSIS TOXIN196Bordetella pertussisMutation(s): 0 
UniProt
Find proteins for P04978 (Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251))
Explore P04978 
Go to UniProtKB:  P04978
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP04978
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
PERTUSSIS TOXIN
C, I
196Bordetella pertussisMutation(s): 0 
UniProt
Find proteins for P04979 (Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251))
Explore P04979 
Go to UniProtKB:  P04979
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP04979
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
PERTUSSIS TOXIN (SUBUNIT S4)
D, E, J, K
110Bordetella pertussisMutation(s): 0 
UniProt
Find proteins for P0A3R5 (Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251))
Explore P0A3R5 
Go to UniProtKB:  P0A3R5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0A3R5
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
PERTUSSIS TOXIN (SUBUNIT S5)
F, L
98Bordetella pertussisMutation(s): 0 
UniProt
Find proteins for P04981 (Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251))
Explore P04981 
Go to UniProtKB:  P04981
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP04981
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
PERTUSSIS TOXIN (SUBUNIT S2)198Bordetella pertussisMutation(s): 0 
UniProt
Find proteins for P04978 (Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251))
Explore P04978 
Go to UniProtKB:  P04978
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP04978
Sequence Annotations
Expand
  • Reference Sequence
Oligosaccharides

Help

Entity ID: 7
MoleculeChains Length2D Diagram Glycosylation3D Interactions
N-acetyl-alpha-neuraminic acid-(2-6)-beta-D-galactopyranose
M, N, O
2N/A
Glycosylation Resources
GlyTouCan:  G63069TR
GlyCosmos:  G63069TR
GlyGen:  G63069TR
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.50 Å
  • R-Value Work: 0.183 
  • R-Value Observed: 0.183 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 163.8α = 90
b = 98.2β = 90
c = 194.5γ = 90
Software Package:
Software NamePurpose
X-PLORmodel building
X-PLORrefinement
X-PLORphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1995-09-15
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Advisory, Atomic model, Data collection, Derived calculations, Other, Structure summary