4V96

The structure of a 1.8 MDa viral genome injection device suggests alternative infection mechanisms


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.80 Å
  • R-Value Free: 0.264 
  • R-Value Work: 0.237 
  • R-Value Observed: 0.237 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structure of the phage TP901-1 1.8 MDa baseplate suggests an alternative host adhesion mechanism.

Veesler, D.Spinelli, S.Mahony, J.Lichiere, J.Blangy, S.Bricogne, G.Legrand, P.Ortiz-Lombardia, M.Campanacci, V.van Sinderen, D.Cambillau, C.

(2012) Proc Natl Acad Sci U S A 109: 8954-8958

  • DOI: https://doi.org/10.1073/pnas.1200966109
  • Primary Citation of Related Structures:  
    3U6X, 3UH8, 4V96

  • PubMed Abstract: 

    Phages of the Caudovirales order possess a tail that recognizes the host and ensures genome delivery upon infection. The X-ray structure of the approximately 1.8 MDa host adsorption device (baseplate) from the lactococcal phage TP901-1 shows that the receptor-binding proteins are pointing in the direction of the host, suggesting that this organelle is in a conformation ready for host adhesion. This result is in marked contrast with the lactococcal phage p2 situation, whose baseplate is known to undergo huge conformational changes in the presence of Ca(2+) to reach its active state. In vivo infection experiments confirmed these structural observations by demonstrating that Ca(2+) ions are required for host adhesion among p2-like phages (936-species) but have no influence on TP901-1-like phages (P335-species). These data suggest that these two families rely on diverse adhesion strategies which may lead to different signaling for genome release.


  • Organizational Affiliation

    Architecture et Fonction des Macromolécules Biologiques, Aix-Marseille Université, Campus de Luminy, Case 932, 13288 Marseille Cedex 09, France. david.veesler@afmb.univ-mrs.fr


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
ORF48299Lactococcus phage TP901-1Mutation(s): 0 
Gene Names: BppU (ORF48)
UniProt
Find proteins for Q9AZ56 (Lactococcus phage TP901-1)
Explore Q9AZ56 
Go to UniProtKB:  Q9AZ56
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9AZ56
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
ORF46253Lactococcus phage TP901-1Mutation(s): 0 
Gene Names: Dit (ORF46)
UniProt
Find proteins for Q9AZ58 (Lactococcus phage TP901-1)
Explore Q9AZ58 
Go to UniProtKB:  Q9AZ58
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9AZ58
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
BPP173Lactococcus phage TP901-1Mutation(s): 0 
Gene Names: bppBppL (ORF49)
UniProt
Find proteins for Q9G096 (Lactococcus phage TP901-1)
Explore Q9G096 
Go to UniProtKB:  Q9G096
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9G096
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.80 Å
  • R-Value Free: 0.264 
  • R-Value Work: 0.237 
  • R-Value Observed: 0.237 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 163.53α = 90
b = 287.36β = 101.73
c = 323.14γ = 90
Software Package:
Software NamePurpose
ADSCdata collection
SHARPphasing
BUSTERrefinement
XDSdata reduction
XSCALEdata scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-07-09
    Type: Initial release
  • Version 1.1: 2014-12-10
    Changes: Other
  • Version 1.2: 2024-02-28
    Changes: Data collection, Database references