8ZKK image
Entry Detail
PDB ID:
8ZKK
EMDB ID:
Keywords:
Title:
Portal-tail of Vibrio cholerae typing phage mature VP1
Biological Source:
Source Organism:
PDB Version:
Deposition Date:
2024-05-16
Release Date:
2024-08-14
Method Details:
Experimental Method:
Resolution:
3.60 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:portal gp5
Chain IDs:B (auth: A), D (auth: U)
Chain Length:652
Number of Molecules:2
Biological Source:Vibrio cholerae
Polymer Type:polypeptide(L)
Description:adaptor gp12
Chain IDs:C (auth: B), E (auth: D)
Chain Length:202
Number of Molecules:2
Biological Source:Vibrio cholerae
Polymer Type:polypeptide(L)
Description:nozzle gp16
Chain IDs:A (auth: O)
Chain Length:521
Number of Molecules:1
Biological Source:Vibrio cholerae
Polymer Type:polypeptide(L)
Description:ring protein gp10
Chain IDs:F (auth: m)
Chain Length:239
Number of Molecules:1
Biological Source:Vibrio cholerae
Polymer Type:polypeptide(L)
Description:gp13
Chain IDs:G (auth: p), H (auth: u), I (auth: z)
Chain Length:93
Number of Molecules:3
Biological Source:Vibrio cholerae
Ligand Molecules
Primary Citation
Three-dimensional structures of Vibrio cholerae typing podophage VP1 in two states.
Structure 32 2364 2374.e2 (2024)
PMID: 39471801 DOI: 10.1016/j.str.2024.10.005

Abstact

Lytic podophages (VP1-VP5) play crucial roles in subtyping Vibrio cholerae O1 biotype El Tor. However, until now no structures of these phages have been available, which hindered our understanding of the molecular mechanisms of infection and DNA release. Here, we determined the cryoelectron microscopy (cryo-EM) structures of mature and DNA-ejected VP1 structures at near-atomic and subnanometer resolutions, respectively. The VP1 head is composed of 415 copies of the major capsid protein gp7 and 11 turret-shaped spikes. The VP1 tail consists of an adapter, a nozzle, a slender ring, and a tail needle, and is flanked by three extended fibers I and six trimeric fibers II. Conformational changes of fiber II in DNA-ejected VP1 may cause the release of the tail needle and core proteins, forming an elongated tail channel. Our structures provide insights into the molecular mechanisms of infection and DNA release for podophages with a tail needle.

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Disease

Primary Citation of related structures