8JOU

Fiber I and fiber-tail-adaptor of phage GP4

  • Classification: VIRAL PROTEIN
  • Organism(s): Ralstonia phage GP4
  • Mutation(s): No 

  • Deposited: 2023-06-08 Released: 2024-01-03 
  • Deposition Author(s): Liu, H., Chen, W.
  • Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Asymmetric Structure of Podophage GP4 Reveals a Novel Architecture of Three Types of Tail Fibers.

Zheng, J.Chen, W.Xiao, H.Yang, F.Song, J.Cheng, L.Liu, H.

(2023) J Mol Biol 435: 168258-168258

  • DOI: https://doi.org/10.1016/j.jmb.2023.168258
  • Primary Citation of Related Structures:  
    8JOU, 8JOV

  • PubMed Abstract: 

    Bacteriophage tail fibers (or called tail spikes) play a critical role in the early stage of infection by binding to the bacterial surface. Podophages with known structures usually possess one or two types of fibers. Here, we resolved an asymmetric structure of the podophage GP4 to near-atomic resolution by cryo-EM. Our structure revealed a symmetry-mismatch relationship between the components of the GP4 tail with previously unseen topologies. In detail, two dodecameric adaptors (adaptors I and II), a hexameric nozzle, and a tail needle form a conserved tail body connected to a dodecameric portal occupying a unique vertex of the icosahedral head. However, five chain-like extended fibers (fiber I) and five tulip-like short fibers (fiber II) are anchored to a 15-fold symmetric fiber-tail adaptor, encircling the adaptor I, and six bamboo-like trimeric fibers (fiber III) are connected to the nozzle. Five fibers I, each composed of five dimers of the protein gp80 linked by an elongated rope protein, are attached to the five edges of the tail vertex of the icosahedral head. In this study, we identified a new structure of the podophage with three types of tail fibers, and such phages with different types of fibers may have a broad host range and/or infect host cells with considerably high efficiency, providing evolutionary advantages in harsh environments.


  • Organizational Affiliation

    Institute of Interdisciplinary Studies, Key Laboratory for Matter Microstructure and Function of Hunan Province, Key Laboratory of Low-dimensional Quantum Structures and Quantum Control, School of Physics and Electronics, Hunan Normal University, Changsha 410082, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Virion-associated phage protein140Ralstonia phage GP4Mutation(s): 0 
UniProt
Find proteins for A0A345GU11 (Ralstonia phage GP4)
Explore A0A345GU11 
Go to UniProtKB:  A0A345GU11
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A345GU11
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
rope protein of phage GP4K [auth A]120Ralstonia phage GP4Mutation(s): 0 
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Virion-associated phage proteinL [auth D],
M [auth B],
N [auth C]
93Ralstonia phage GP4Mutation(s): 0 
UniProt
Find proteins for A0A345GU08 (Ralstonia phage GP4)
Explore A0A345GU08 
Go to UniProtKB:  A0A345GU08
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A345GU08
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China12034006
National Natural Science Foundation of China (NSFC)China32071209
National Natural Science Foundation of China (NSFC)China31971122
National Natural Science Foundation of China (NSFC)China32200994

Revision History  (Full details and data files)

  • Version 1.0: 2024-01-03
    Type: Initial release