9GB1 | pdb_00009gb1

Extended phiCD508 tail


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.71 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: HELICAL 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Molecular mechanism of bacteriophage contraction structure of an S-layer-penetrating bacteriophage.

Wilson, J.S.Fortier, L.C.Fagan, R.P.Bullough, P.A.

(2025) Life Sci Alliance 8

  • DOI: https://doi.org/10.26508/lsa.202403088
  • Primary Citation of Related Structures:  
    9G8S, 9GAY, 9GAZ, 9GB0, 9GB1, 9GB2, 9GB3, 9GB4, 9GB5, 9GB6, 9GB7, 9GB8

  • PubMed Abstract: 

    The molecular details of phage tail contraction and bacterial cell envelope penetration remain poorly understood and are completely unknown for phages infecting bacteria enveloped by proteinaceous S-layers. Here, we reveal the extended and contracted atomic structures of an intact contractile-tailed phage (φCD508) that binds to and penetrates the protective S-layer of the Gram-positive human pathogen Clostridioides difficile The tail is unusually long (225 nm), and it is also notable that the tail contracts less than those studied in related contractile injection systems such as the model phage T4 (∼20% compared with ∼50%). Surprisingly, we find no evidence of auxiliary enzymatic domains that other phages exploit in cell wall penetration, suggesting that sufficient energy is released upon tail contraction to penetrate the S-layer and the thick cell wall without enzymatic activity. Instead, the unusually long tail length, which becomes more flexible upon contraction, likely contributes toward the required free energy release for envelope penetration.


  • Organizational Affiliation
    • Molecular Microbiology, School of Biosciences, University of Sheffield, Sheffield, UK j.s.wilson@sheffield.ac.uk.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
gp56 - Tail tube protein137Clostridioides difficileMutation(s): 0 
UniProt
Find proteins for A0A9X8RMX9 (Clostridioides difficile)
Explore A0A9X8RMX9 
Go to UniProtKB:  A0A9X8RMX9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A9X8RMX9
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
gp55 - Tail sheath protein473Clostridioides difficileMutation(s): 0 
UniProt
Find proteins for A0A9X8RMY4 (Clostridioides difficile)
Explore A0A9X8RMY4 
Go to UniProtKB:  A0A9X8RMY4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A9X8RMY4
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.71 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: HELICAL 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Biotechnology and Biological Sciences Research Council (BBSRC)United KingdomBB/P02002X/1

Revision History  (Full details and data files)

  • Version 1.0: 2025-03-26
    Type: Initial release
  • Version 1.1: 2025-04-09
    Changes: Data collection, Database references