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TitleNearly complete structure of bacteriophage DT57C reveals architecture of head-to-tail interface and lateral tail fibers.
Journal, issue, pagesNat Commun, Vol. 14, Issue 1, Page 8205, Year 2023
Publish dateDec 11, 2023
AuthorsRafael Ayala / Andrey V Moiseenko / Ting-Hua Chen / Eugene E Kulikov / Alla K Golomidova / Philipp S Orekhov / Maya A Street / Olga S Sokolova / Andrey V Letarov / Matthias Wolf /
PubMed AbstractThe T5 family of viruses are tailed bacteriophages characterized by a long non-contractile tail. The bacteriophage DT57C is closely related to the paradigmal T5 phage, though it recognizes a ...The T5 family of viruses are tailed bacteriophages characterized by a long non-contractile tail. The bacteriophage DT57C is closely related to the paradigmal T5 phage, though it recognizes a different receptor (BtuB) and features highly divergent lateral tail fibers (LTF). Considerable portions of T5-like phages remain structurally uncharacterized. Here, we present the structure of DT57C determined by cryo-EM, and an atomic model of the virus, which was further explored using all-atom molecular dynamics simulations. The structure revealed a unique way of LTF attachment assisted by a dodecameric collar protein LtfC, and an unusual composition of the phage neck constructed of three protein rings. The tape measure protein (TMP) is organized within the tail tube in a three-stranded parallel α-helical coiled coil which makes direct contact with the genomic DNA. The presence of the C-terminal fragment of the TMP that remains within the tail tip suggests that the tail tip complex returns to its original state after DNA ejection. Our results provide a complete atomic structure of a T5-like phage, provide insights into the process of DNA ejection as well as a structural basis for the design of engineered phages and future mechanistic studies.
External linksNat Commun / PubMed:38081816 / PubMed Central
MethodsEM (single particle) / EM (helical sym.) / EM (tomography)
Resolution2.9 - 7.9 Å
Structure data

EMDB-34920, PDB-8ho3:
Capsid of DT57C bacteriophage in the full state
Method: EM (single particle) / Resolution: 2.9 Å

EMDB-34949, PDB-8hqk:
Capsid of DT57C bacteriophage in the empty state
Method: EM (single particle) / Resolution: 3.6 Å

EMDB-34952, PDB-8hqo:
Neck of DT57C bacteriophage in the full state
Method: EM (single particle) / Resolution: 3.2 Å

EMDB-34955, PDB-8hqz:
Baseplate of DT57C bacteriophage in the full state
Method: EM (single particle) / Resolution: 3.8 Å

EMDB-34968, PDB-8hre:
Straight fiber of DT57C bacteriophage in the full state
Method: EM (single particle) / Resolution: 5.5 Å

EMDB-34972, PDB-8hrg:
Tail tube of DT57C bacteriophage in the full state
Method: EM (helical sym.) / Resolution: 4.5 Å

EMDB-34973: Curved tail segment of the DT57C bacteriophage in the full state
Method: EM (single particle) / Resolution: 4.6 Å

EMDB-35003: Focused refinement of the TTrP region of the neck of the DT57C bacteriophage in the full state
Method: EM (single particle) / Resolution: 4.0 Å

EMDB-35006: Map of the neck of the DT57C bacteriophage in the full state with C12 symmetry
Method: EM (single particle) / Resolution: 3.4 Å

EMDB-35099: Consensus refinement for the baseplate of DT57C bacteriophage
Method: EM (single particle) / Resolution: 3.8 Å

EMDB-35100: Focused refinement of the baseplate of DT57C focused around its core region
Method: EM (single particle) / Resolution: 3.8 Å

EMDB-35101: Focused refinement of the baseplate of DT57C focused around the baseplate hub protein
Method: EM (single particle) / Resolution: 3.8 Å

EMDB-37449: Focused map for the TMP N-terminus of DT57C
Method: EM (single particle) / Resolution: 7.9 Å

EMDB-37518: Tomogram of DT57C bacteriophage (1 of 9)
Method: EM (tomography)

EMDB-37519: Tomogram of DT57C bacteriophage (2 out of 9)
Method: EM (tomography)

EMDB-37521: Tomogram of DT57C bacteriophage (3 out of 9)
Method: EM (tomography)

EMDB-37531: Tomogram of DT57C bacteriophage (4 out of 9)
Method: EM (tomography)

EMDB-37534: Tomogram of DT57C bacteriophage (5 out of 9)
Method: EM (tomography)

EMDB-37536: Tomogram of DT57C bacteriophage (6 out of 9)
Method: EM (tomography)

EMDB-37539: Tomogram of DT57C bacteriophage (7 out of 9)
Method: EM (tomography)

EMDB-37543: Tomogram of DT57C bacteriophage (8 out of 9)
Method: EM (tomography)

EMDB-37544: Tomogram of DT57C bacteriophage (9 out of 9)
Method: EM (tomography)

Source
  • escherichia phage dt57c (virus)
KeywordsVIRUS / Capsid / T5 / MHP / VIRAL PROTEIN / Neck / Portal / Baseplate / Straight fiber / Tail tube

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