9G8S image
Deposition Date 2024-07-23
Release Date 2025-04-09
Last Version Date 2025-04-09
Entry Detail
PDB ID:
9G8S
Keywords:
Title:
C3 reconstruction of extended phiCD508 needle
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
3.96 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Baseplate J family protein
Gene (Uniprot):phiMMP02_gp23
Chain IDs:A (auth: C), G, H (auth: A), N (auth: H), O (auth: B), U (auth: I), V (auth: D), BA (auth: J), CA (auth: E), IA (auth: K), JA (auth: F), PA (auth: L)
Chain Length:130
Number of Molecules:12
Biological Source:Clostridioides phage phiCD508
Polymer Type:polypeptide(L)
Molecule:XkdT-related protein
Gene (Uniprot):phiMMP02_gp24
Chain IDs:B (auth: N), I (auth: M), P (auth: O), W (auth: P), DA (auth: Q), KA (auth: R)
Chain Length:125
Number of Molecules:6
Biological Source:Clostridioides phage phiCD508
Polymer Type:polypeptide(L)
Molecule:Peptidoglycan-binding LysM protein
Gene (Uniprot):phiMMP02_gp19
Chain IDs:C (auth: T), J (auth: S), Q (auth: U), X (auth: V), EA (auth: W), LA (auth: X)
Chain Length:223
Number of Molecules:6
Biological Source:Clostridioides phage phiCD508
Polymer Type:polypeptide(L)
Molecule:XkdM-related protein
Gene (Uniprot):phiMMP02_gp14
Chain IDs:D (auth: Z), K (auth: Y), R (auth: a), Y (auth: b), FA (auth: c), MA (auth: d)
Chain Length:130
Number of Molecules:6
Biological Source:Clostridioides phage phiCD508
Polymer Type:polypeptide(L)
Molecule:Tail sheath
Gene (Uniprot):phiMMP02_gp13
Chain IDs:E (auth: g), L (auth: e), S (auth: f), Z (auth: h), GA (auth: i), NA (auth: j)
Chain Length:378
Number of Molecules:6
Biological Source:Clostridioides phage phiCD508
Polymer Type:polypeptide(L)
Molecule:XkdS-related protein
Gene (Uniprot):phiMMP02_gp22
Chain IDs:F (auth: m), M (auth: k), T (auth: l), AA (auth: n), HA (auth: o), OA (auth: p)
Chain Length:378
Number of Molecules:6
Biological Source:Clostridioides phage phiCD508
Polymer Type:polypeptide(L)
Molecule:XkdQ-related protein
Chain IDs:SA (auth: q), UA (auth: t), VA (auth: u)
Chain Length:316
Number of Molecules:3
Biological Source:Clostridioides phage phiCD508
Polymer Type:polypeptide(L)
Molecule:Phage protein
Chain IDs:QA (auth: r), RA (auth: v), TA (auth: s)
Chain Length:112
Number of Molecules:3
Biological Source:Clostridioides phage phiCD508
Polymer Type:polypeptide(L)
Molecule:Tail tape measure
Gene (Uniprot):phiMMP02_gp17
Chain IDs:WA (auth: w), XA (auth: x), YA (auth: y)
Chain Length:223
Number of Molecules:3
Biological Source:Clostridioides phage phiCD508
Ligand Molecules
Primary Citation
Molecular mechanism of bacteriophage contraction structure of an S-layer-penetrating bacteriophage.
Life Sci Alliance 8 ? ? (2025)
PMID: 40139691 DOI: 10.26508/lsa.202403088

Abstact

The molecular details of phage tail contraction and bacterial cell envelope penetration remain poorly understood and are completely unknown for phages infecting bacteria enveloped by proteinaceous S-layers. Here, we reveal the extended and contracted atomic structures of an intact contractile-tailed phage (φCD508) that binds to and penetrates the protective S-layer of the Gram-positive human pathogen Clostridioides difficile The tail is unusually long (225 nm), and it is also notable that the tail contracts less than those studied in related contractile injection systems such as the model phage T4 (∼20% compared with ∼50%). Surprisingly, we find no evidence of auxiliary enzymatic domains that other phages exploit in cell wall penetration, suggesting that sufficient energy is released upon tail contraction to penetrate the S-layer and the thick cell wall without enzymatic activity. Instead, the unusually long tail length, which becomes more flexible upon contraction, likely contributes toward the required free energy release for envelope penetration.

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Disease

Primary Citation of related structures