8Y6V image
Deposition Date 2024-02-03
Release Date 2024-08-14
Last Version Date 2024-08-14
Entry Detail
PDB ID:
8Y6V
Keywords:
Title:
Near-atomic structure of icosahedrally averaged jumbo bacteriophage PhiKZ capsid
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
3.50 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:gp35
Chain IDs:B
Chain Length:747
Number of Molecules:1
Biological Source:Phikzvirus phiKZ
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:gp244
Chain IDs:PA (auth: C)
Chain Length:118
Number of Molecules:1
Biological Source:Phikzvirus phiKZ
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:gp28
Chain IDs:A (auth: D)
Chain Length:747
Number of Molecules:1
Biological Source:Phikzvirus phiKZ
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:gp85
Chain IDs:C (auth: E), D (auth: F)
Chain Length:149
Number of Molecules:2
Biological Source:Phikzvirus phiKZ
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:gp86
Chain IDs:E (auth: G)
Chain Length:428
Number of Molecules:1
Biological Source:Phikzvirus phiKZ
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:gp91
Chain IDs:F (auth: H)
Chain Length:181
Number of Molecules:1
Biological Source:Phikzvirus phiKZ
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:gp184
Chain IDs:OA (auth: I)
Chain Length:747
Number of Molecules:1
Biological Source:Phikzvirus phiKZ
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:gp119
Chain IDs:J
Chain Length:747
Number of Molecules:1
Biological Source:Phikzvirus phiKZ
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:gp93
Chain IDs:G (auth: K), H (auth: L), I (auth: M)
Chain Length:435
Number of Molecules:3
Biological Source:Phikzvirus phiKZ
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:gp162
Chain IDs:LA (auth: N), MA (auth: O), NA (auth: P)
Chain Length:747
Number of Molecules:3
Biological Source:Phikzvirus phiKZ
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:gp120
Chain IDs:K (auth: a), L (auth: b), M (auth: c), N (auth: d), O (auth: e), P (auth: f), Q (auth: g), R (auth: h), S (auth: i), T (auth: j), U (auth: k), V (auth: l), W (auth: m), X (auth: n), Y (auth: o), Z (auth: p), AA (auth: q), BA (auth: r), CA (auth: s), DA (auth: t), EA (auth: u), FA (auth: v), GA (auth: w), HA (auth: x), IA (auth: y), JA (auth: z), KA (auth: A)
Chain Length:747
Number of Molecules:27
Biological Source:Phikzvirus phiKZ
Ligand Molecules
Primary Citation
Capsid structure of bacteriophage Phi KZ provides insights into assembly and stabilization of jumbo phages.
Nat Commun 15 6551 6551 (2024)
PMID: 39095371 DOI: 10.1038/s41467-024-50811-1

Abstact

Jumbo phages are a group of tailed bacteriophages with large genomes and capsids. As a prototype of jumbo phage, ΦKZ infects Pseudomonas aeruginosa, a multi-drug-resistant (MDR) opportunistic pathogen leading to acute or chronic infection in immunocompromised individuals. It holds potential to be used as an antimicrobial agent and as a model for uncovering basic phage biology. Although previous low-resolution structural studies have indicated that jumbo phages may have more complicated capsid structures than smaller phages such as HK97, the detailed structures and the assembly mechanism of their capsids remain largely unknown. Here, we report a 3.5-Å-resolution cryo-EM structure of the ΦKZ capsid. The structure unveiled ten minor capsid proteins, with some decorating the outer surface of the capsid and the others forming a complex network attached to the capsid's inner surface. This network seems to play roles in driving capsid assembly and capsid stabilization. Similar mechanisms of capsid assembly and stabilization are probably employed by many other jumbo viruses.

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Disease

Primary Citation of related structures