5TJT

T5 bacteriophage major capsid protein - one PB8 hexon


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 9.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

High affinity anchoring of the decoration protein pb10 onto the bacteriophage T5 capsid.

Vernhes, E.Renouard, M.Gilquin, B.Cuniasse, P.Durand, D.England, P.Hoos, S.Huet, A.Conway, J.F.Glukhov, A.Ksenzenko, V.Jacquet, E.Nhiri, N.Zinn-Justin, S.Boulanger, P.

(2017) Sci Rep 7: 41662-41662

  • DOI: https://doi.org/10.1038/srep41662
  • Primary Citation of Related Structures:  
    5LXK, 5LXL, 5TJT

  • PubMed Abstract: 

    Bacteriophage capsids constitute icosahedral shells of exceptional stability that protect the viral genome. Many capsids display on their surface decoration proteins whose structure and function remain largely unknown. The decoration protein pb10 of phage T5 binds at the centre of the 120 hexamers formed by the major capsid protein. Here we determined the 3D structure of pb10 and investigated its capsid-binding properties using NMR, SAXS, cryoEM and SPR. Pb10 consists of an α-helical capsid-binding domain and an Ig-like domain exposed to the solvent. It binds to the T5 capsid with a remarkably high affinity and its binding kinetics is characterized by a very slow dissociation rate. We propose that the conformational exchange events observed in the capsid-binding domain enable rearrangements upon binding that contribute to the quasi-irreversibility of the pb10-capsid interaction. Moreover we show that pb10 binding is a highly cooperative process, which favours immediate rebinding of newly dissociated pb10 to the 120 hexamers of the capsid protein. In extreme conditions, pb10 protects the phage from releasing its genome. We conclude that pb10 may function to reinforce the capsid thus favouring phage survival in harsh environments.


  • Organizational Affiliation

    Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ Paris-Sud, Université Paris-Saclay, Gif-sur-Yvette cedex, France.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Major capsid protein
A, B, C, D, E
A, B, C, D, E, F
299Tequintavirus T5Mutation(s): 0 
UniProt
Find proteins for Q6QGD8 (Escherichia phage T5)
Explore Q6QGD8 
Go to UniProtKB:  Q6QGD8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6QGD8
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 9.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONAuto3DEM
MODEL REFINEMENTMDFF

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2017-02-22
    Type: Initial release
  • Version 1.1: 2018-03-07
    Changes: Data collection, Database references
  • Version 1.2: 2018-07-18
    Changes: Data collection
  • Version 1.3: 2024-10-30
    Changes: Data collection, Database references, Derived calculations, Structure summary