5NGJ

Crystal structure of pb6, major tail tube protein of bacteriophage T5

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.235 
  • R-Value Work: 0.205 
  • R-Value Observed: 0.206 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history. 


Literature

Bacteriophage T5 tail tube structure suggests a trigger mechanism for Siphoviridae DNA ejection.

Arnaud, C.A., Effantin, G., Vives, C., Engilberge, S., Bacia, M., Boulanger, P., Girard, E., Schoehn, G., Breyton, C.

(2017) Nat Commun 8: 1953-1953

  • DOI: 10.1038/s41467-017-02049-3
  • Primary Citation of Related Structures:  
    5NGJ

  • PubMed Abstract: 

    • The vast majority of phages, bacterial viruses, possess a tail ensuring host recognition, cell wall perforation and safe viral DNA transfer from the capsid to the host cytoplasm. Long flexible tails are formed from the tail tube protein (TTP) polymerised as hexameric rings around and stacked along the tape measure protein (TMP) ...

    The vast majority of phages, bacterial viruses, possess a tail ensuring host recognition, cell wall perforation and safe viral DNA transfer from the capsid to the host cytoplasm. Long flexible tails are formed from the tail tube protein (TTP) polymerised as hexameric rings around and stacked along the tape measure protein (TMP). Here, we report the crystal structure of T5 TTP pb6 at 2.2 Å resolution. Pb6 is unusual in forming a trimeric ring, although structure analysis reveals homology with all classical TTPs and related tube proteins of bacterial puncturing devices (type VI secretion system and R-pyocin). Structures of T5 tail tubes before and after interaction with the host receptor were determined by cryo-electron microscopy at 6 Å resolution. Comparison of these two structures reveals that host-binding information is not propagated to the capsid through conformational changes in the tail tube, suggesting a role of the TMP in this information transduction process.

    Organizational Affiliation: 

    Université Grenoble Alpes, CNRS, CEA, Institut for Structural Biology (IBS), 38000, Grenoble, France. Cecile.Breyton@ibs.fr.



Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Tail tube proteinA, B477Escherichia virus T5Mutation(s): 0 
Gene Names: N4, ORF134, T5.145, T5p141
UniProt
Find proteins for Q6QGE2 (Escherichia phage T5)
Explore Q6QGE2 
Go to UniProtKB:  Q6QGE2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6QGE2
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.235 
  • R-Value Work: 0.205 
  • R-Value Observed: 0.206 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 76.79α = 90
b = 115.081β = 111.88
c = 83.366γ = 90
Software Package:
Software NamePurpose
BUSTERrefinement
XDSdata reduction
SCALAdata scaling
SHARPphasing

Structure Validation

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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
French National Research AgencyFranceANR-10-INSB-05-02
LABEX GRALFranceANR-10-LABX-49-01

Revision History  (Full details and data files)

  • Version 1.0: 2018-01-03
    Type: Initial release
  • Version 1.1: 2019-10-16
    Changes: Data collection