7ZN4 | pdb_00007zn4

Tail tip of siphophage T5 : bent fibre after interaction with its bacterial receptor FhuA


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.32 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 7ZN4

This is version 1.2 of the entry. See complete history

Literature

Structural basis of bacteriophage T5 infection trigger and E. coli cell wall perforation.

Linares, R.Arnaud, C.A.Effantin, G.Darnault, C.Epalle, N.H.Boeri Erba, E.Schoehn, G.Breyton, C.

(2023) Sci Adv 9: eade9674-eade9674

  • DOI: https://doi.org/10.1126/sciadv.ade9674
  • Primary Citation Related Structures: 
    7QG9, 7ZHJ, 7ZLV, 7ZN2, 7ZN4, 7ZQB, 7ZQP

  • PubMed Abstract: 

    Most bacteriophages present a tail allowing host recognition, cell wall perforation, and viral DNA channeling from the capsid to the infected bacterium cytoplasm. The majority of tailed phages bear a long flexible tail ( Siphoviridae ) at the tip of which receptor binding proteins (RBPs) specifically interact with their host, triggering infection. In siphophage T5, the unique RBP is located at the extremity of a central fiber. We present the structures of T5 tail tip, determined by cryo-electron microscopy before and after interaction with its E. coli receptor, FhuA, reconstituted into nanodisc. These structures bring out the important conformational changes undergone by T5 tail tip upon infection, which include bending of T5 central fiber on the side of the tail tip, tail anchoring to the membrane, tail tube opening, and formation of a transmembrane channel. The data allow to detail the first steps of an otherwise undescribed infection mechanism.


  • Organizational Affiliation
    • Univ. Grenoble Alpes, CNRS, CEA, IBS, Grenoble F-38000, France.

Macromolecule Content 

  • Total Structure Weight: 546.39 kDa 
  • Atom Count: 19,989 
  • Modeled Residue Count: 2,581 
  • Deposited Residue Count: 4,911 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Probable baseplate hub proteinA [auth d],
B [auth b],
F [auth c]
949Escherichia phage T5Mutation(s): 0 
UniProt
Find proteins for Q6QGE9 (Escherichia phage T5)
Explore Q6QGE9 
Go to UniProtKB:  Q6QGE9
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6QGE9
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Probable central straight fiberC [auth f],
D [auth e],
E [auth g]
688Escherichia phage T5Mutation(s): 0 
UniProt
Find proteins for Q6QGF0 (Escherichia phage T5)
Explore Q6QGF0 
Go to UniProtKB:  Q6QGF0
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6QGF0
Sequence Annotations
Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.32 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX
MODEL REFINEMENTCoot
RECONSTRUCTIONRELION3.0/3.1

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Agence Nationale de la Recherche (ANR)FranceANR-16-CE11-0027
Agence Nationale de la Recherche (ANR)FranceANR-21-CE11-0023

Revision History  (Full details and data files)

  • Version 1.0: 2023-02-08
    Type: Initial release
  • Version 1.1: 2023-07-05
    Changes: Database references
  • Version 1.2: 2024-07-24
    Changes: Data collection