2WZP

Structures of Lactococcal Phage p2 Baseplate Shed Light on a Novel Mechanism of Host Attachment and Activation in Siphoviridae


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 0.208 
  • R-Value Work: 0.179 
  • R-Value Observed: 0.179 

Starting Model: experimental
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This is version 1.3 of the entry. See complete history


Literature

Structure of Lactococcal Phage P2 Baseplate and its Mechanism of Activation.

Sciara, G.Bebeacua, C.Bron, P.Tremblay, D.Ortiz-Lombardia, M.Lichiere, J.Van Heel, M.Campanacci, V.Moineau, S.Cambillau, C.

(2010) Proc Natl Acad Sci U S A 107: 6852

  • DOI: https://doi.org/10.1073/pnas.1000232107
  • Primary Citation of Related Structures:  
    2WZP, 2X53, 4V5I

  • PubMed Abstract: 

    Siphoviridae is the most abundant viral family on earth which infects bacteria as well as archaea. All known siphophages infecting gram+ Lactococcus lactis possess a baseplate at the tip of their tail involved in host recognition and attachment. Here, we report analysis of the p2 phage baseplate structure by X-ray crystallography and electron microscopy and propose a mechanism for the baseplate activation during attachment to the host cell. This approximately 1 MDa, Escherichia coli-expressed baseplate is composed of three protein species, including six trimers of the receptor-binding protein (RBP). RBPs host-recognition domains point upwards, towards the capsid, in agreement with the electron-microscopy map of the free virion. In the presence of Ca(2+), a cation mandatory for infection, the RBPs rotated 200 degrees downwards, presenting their binding sites to the host, and a channel opens at the bottom of the baseplate for DNA passage. These conformational changes reveal a novel siphophage activation and host-recognition mechanism leading ultimately to DNA ejection.


  • Organizational Affiliation

    Architecture et Fonction des Macromolécules Biologiques, UMR 6098 Centre National de la Recherche Scientifique and Universités d'Aix-Marseille I & II, Campus de Luminy, Case 932, 13288 Marseille Cedex 09, France.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
PUTATIVE RECEPTOR BINDING PROTEIN
A, B, C, G, H
A, B, C, G, H, I
266Lactococcus virus P2Mutation(s): 0 
UniProt
Find proteins for Q71AW2 (Lactococcus phage p2)
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Go to UniProtKB:  Q71AW2
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UniProt GroupQ71AW2
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
CAMELID VHH5
D, E, F, J, K
D, E, F, J, K, L
123Lama glamaMutation(s): 0 
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
LACTOCOCCAL PHAGE P2 ORF15M [auth P],
N [auth Q]
326Lactococcus virus P2Mutation(s): 0 
UniProt
Find proteins for D3WAD3 (Lactococcus phage p2)
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Go to UniProtKB:  D3WAD3
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UniProt GroupD3WAD3
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
LACTOCOCCAL PHAGE P2 ORF16O [auth R]375Lactococcus virus P2Mutation(s): 0 
UniProt
Find proteins for D3KFX4 (Lactococcus phage p2)
Explore D3KFX4 
Go to UniProtKB:  D3KFX4
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UniProt GroupD3KFX4
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 0.208 
  • R-Value Work: 0.179 
  • R-Value Observed: 0.179 
  • Space Group: H 3 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 202.881α = 90
b = 202.881β = 90
c = 760.52γ = 120
Software Package:
Software NamePurpose
BUSTERrefinement
XDSdata reduction
SCALAdata scaling
PHASERphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2010-02-16
    Type: Initial release
  • Version 1.1: 2011-05-08
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2023-12-20
    Changes: Data collection, Database references, Derived calculations, Other, Refinement description