1P5U

X-ray structure of the ternary Caf1M:Caf1:Caf1 chaperone:subunit:subunit complex

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.99 Å
  • R-Value Free: 0.216 
  • R-Value Work: 0.166 
  • R-Value Observed: 0.168 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history. 


Literature

Structure and Biogenesis of the Capsular F1 Antigen from Yersinia pestis. Preserved Folding Energy Drives Fiber Formation

Zavialov, A.V., Berglund, J., Pudney, A.F., Fooks, L.J., Ibrahim, T.M., MacIntyre, S., Knight, S.D.

(2003) Cell 113: 587-596

  • DOI: 10.1016/s0092-8674(03)00351-9
  • Primary Citation of Related Structures:  
    1P5U, 1P5V

  • PubMed Abstract: 

    • Most gram-negative pathogens express fibrous adhesive virulence organelles that mediate targeting to the sites of infection. The F1 capsular antigen from the plague pathogen Yersinia pestis consists of linear fibers of a single subunit (Caf1) and serves as a prototype for nonpilus organelles assembled via the chaperone/usher pathway ...

    Most gram-negative pathogens express fibrous adhesive virulence organelles that mediate targeting to the sites of infection. The F1 capsular antigen from the plague pathogen Yersinia pestis consists of linear fibers of a single subunit (Caf1) and serves as a prototype for nonpilus organelles assembled via the chaperone/usher pathway. Genetic data together with high-resolution X-ray structures corresponding to snapshots of the assembly process reveal the structural basis of fiber formation. Comparison of chaperone bound Caf1 subunit with the subunit in the fiber reveals a novel type of conformational change involving the entire hydrophobic core of the protein. The observed conformational change suggests that the chaperone traps a high-energy folding intermediate of Caf1. A model is proposed in which release of the subunit allows folding to be completed, driving fiber formation.

    Related Citations: 
    • Overexpression, purification, crystallization and preliminary X-ray diffraction analysis of the F1 antigen Caf1MCaf1 chaperonesubunit pre-assembly complex from Yersinia pestis
      Zavialov, A., Berglund, J., Knight, S.D.
      (2003) Acta Crystallogr D Biol Crystallogr 59: 359
    • Donor strand complementation mechanism in the biogenesis of non-pilus systems
      Zavialov, A.V., Kersley, J., Korpela, T., Zav'yalov, V.P., MacIntyre, S., Knight, S.D.
      (2002) Mol Microbiol 45: 983
    Organizational Affiliation: 

    Department of Molecular Biosciences/Structural Biology, Uppsala Biomedical Center, Swedish University of Agricultural Sciences, Box 590, SE-751 24 Uppsala, Sweden.



Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Chaperone protein Caf1MA235Yersinia pestisMutation(s): 0 
Gene Names: caf1M, YPMT1.82, Y1098, YP_pMT084
UniProt
Find proteins for P26926 (Yersinia pestis)
Explore P26926 
Go to UniProtKB:  P26926
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP26926
Protein Feature View
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  • Reference Sequence
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(by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
F1 capsule antigenB149Yersinia pestisMutation(s): 1 
Gene Names: caf1, YPMT1.84, Y1100, YP_pMT082
UniProt
Find proteins for P26948 (Yersinia pestis)
Explore P26948 
Go to UniProtKB:  P26948
Entity Groups  
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UniProt GroupP26948
Protein Feature View
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  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
F1 capsule antigenC147Yersinia pestisMutation(s): 0 
Gene Names: caf1, YPMT1.84, Y1100, YP_pMT082
UniProt
Find proteins for P26948 (Yersinia pestis)
Explore P26948 
Go to UniProtKB:  P26948
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP26948
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.99 Å
  • R-Value Free: 0.216 
  • R-Value Work: 0.166 
  • R-Value Observed: 0.168 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 178.816α = 90
b = 69.62β = 90
c = 45.271γ = 90
Software Package:
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling
AMoREphasing
REFMACrefinement
CCP4data scaling

Structure Validation

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View more in-depth experimental data

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2003-06-24
    Type: Initial release
  • Version 1.1: 2008-04-29
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2021-10-27
    Changes: Database references