9IN6 image
Entry Detail
PDB ID:
9IN6
EMDB ID:
Keywords:
Title:
Capsid of Vibrio cholerae phage mature VP1
Biological Source:
Source Organism:
PDB Version:
Deposition Date:
2024-07-05
Release Date:
2024-08-14
Method Details:
Experimental Method:
Resolution:
2.80 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:major capsid of VP1
Chain IDs:A (auth: M), B (auth: N), C (auth: O), D (auth: P), E (auth: Q), F (auth: R), G (auth: T)
Chain Length:399
Number of Molecules:7
Biological Source:Vibrio cholerae
Polymer Type:polypeptide(L)
Description:SHP of VP1
Chain IDs:H (auth: c)
Chain Length:111
Number of Molecules:1
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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Chemical

Disease

Primary Citation of related structures