5VF3 image
Deposition Date 2017-04-06
Release Date 2017-09-13
Last Version Date 2024-03-13
Entry Detail
PDB ID:
5VF3
Keywords:
Title:
Bacteriophage T4 isometric capsid
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
3.30 Å
Aggregation State:
2D ARRAY
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Major capsid protein
Gene (Uniprot):gp23
Chain IDs:B (auth: A), C (auth: B), D (auth: C), E (auth: D), F (auth: E), G (auth: F), H (auth: G), I (auth: H), J (auth: I), K (auth: J), L (auth: K), M (auth: L)
Chain Length:417
Number of Molecules:12
Biological Source:Enterobacteria phage T4
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small outer capsid protein
Gene (Uniprot):soc
Chain IDs:N (auth: O), O (auth: P), P (auth: Q), Q (auth: R), R (auth: S), S (auth: T), T (auth: U), U (auth: V), V (auth: W), W (auth: X), X (auth: Y)
Chain Length:80
Number of Molecules:11
Biological Source:Enterobacteria phage T4
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Highly immunogenic outer capsid protein
Gene (Uniprot):hoc
Chain IDs:Y (auth: Z)
Chain Length:376
Number of Molecules:1
Biological Source:Enterobacteria phage T4
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Capsid vertex protein gp24
Gene (Uniprot):24
Chain IDs:A (auth: a)
Chain Length:417
Number of Molecules:1
Biological Source:Enterobacteria phage T4
Polymer Type:polypeptide(L)
Molecule:Highly immunogenic outer capsid protein
Chain IDs:Z (auth: z)
Chain Length:376
Number of Molecules:1
Biological Source:Enterobacteria phage T4
Ligand Molecules
Primary Citation
Cryo-EM structure of the bacteriophage T4 isometric head at 3.3- angstrom resolution and its relevance to the assembly of icosahedral viruses.
Proc. Natl. Acad. Sci. U.S.A. 114 E8184 E8193 (2017)
PMID: 28893988 DOI: 10.1073/pnas.1708483114

Abstact

The 3.3-Å cryo-EM structure of the 860-Å-diameter isometric mutant bacteriophage T4 capsid has been determined. WT T4 has a prolate capsid characterized by triangulation numbers (T numbers) Tend = 13 for end caps and Tmid = 20 for midsection. A mutation in the major capsid protein, gp23, produced T=13 icosahedral capsids. The capsid is stabilized by 660 copies of the outer capsid protein, Soc, which clamp adjacent gp23 hexamers. The occupancies of Soc molecules are proportional to the size of the angle between the planes of adjacent hexameric capsomers. The angle between adjacent hexameric capsomers is greatest around the fivefold vertices, where there is the largest deviation from a planar hexagonal array. Thus, the Soc molecules reinforce the structure where there is the greatest strain in the gp23 hexagonal lattice. Mutations that change the angles between adjacent capsomers affect the positions of the pentameric vertices, resulting in different triangulation numbers in bacteriophage T4. The analysis of the T4 mutant head assembly gives guidance to how other icosahedral viruses reproducibly assemble into capsids with a predetermined T number, although the influence of scaffolding proteins is also important.

Legend

Protein

Chemical

Disease

Primary Citation of related structures