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Structure paper

TitleArchitecture and self-assembly of the jumbo bacteriophage nuclear shell.
Journal, issue, pagesNature, Vol. 608, Issue 7922, Page 429-435, Year 2022
Publish dateAug 3, 2022
AuthorsThomas G Laughlin / Amar Deep / Amy M Prichard / Christian Seitz / Yajie Gu / Eray Enustun / Sergey Suslov / Kanika Khanna / Erica A Birkholz / Emily Armbruster / J Andrew McCammon / Rommie E Amaro / Joe Pogliano / Kevin D Corbett / Elizabeth Villa /
PubMed AbstractBacteria encode myriad defences that target the genomes of infecting bacteriophage, including restriction-modification and CRISPR-Cas systems. In response, one family of large bacteriophages uses a ...Bacteria encode myriad defences that target the genomes of infecting bacteriophage, including restriction-modification and CRISPR-Cas systems. In response, one family of large bacteriophages uses a nucleus-like compartment to protect its replicating genomes by excluding host defence factors. However, the principal composition and structure of this compartment remain unknown. Here we find that the bacteriophage nuclear shell assembles primarily from one protein, which we name chimallin (ChmA). Combining cryo-electron tomography of nuclear shells in bacteriophage-infected cells and cryo-electron microscopy of a minimal chimallin compartment in vitro, we show that chimallin self-assembles as a flexible sheet into closed micrometre-scale compartments. The architecture and assembly dynamics of the chimallin shell suggest mechanisms for its nucleation and growth, and its role as a scaffold for phage-encoded factors mediating macromolecular transport, cytoskeletal interactions, and viral maturation.
External linksNature / PubMed:35922510 / PubMed Central
MethodsEM (subtomogram averaging) / EM (single particle)
Resolution2.3 - 27.0 Å
Structure data

EMDB-25183: P. chlororaphis 70S ribosome in situ subtomogram average
Method: EM (subtomogram averaging) / Resolution: 10.2 Å

EMDB-25220: In situ subtomogram average of the 201phi2-1 phage nucleus major shell protein, chimallin (concave class)
Method: EM (subtomogram averaging) / Resolution: 20.0 Å

EMDB-25221: In situ consensus subtomogram average of the 201phi2-1 chimallin
Method: EM (subtomogram averaging) / Resolution: 24.0 Å

EMDB-25222: In situ subtomogram average of 201phi2-1 phage nucleus major shell protein, chimallin (intermediate/flat class)
Method: EM (subtomogram averaging) / Resolution: 18.0 Å

EMDB-25223: In situ subtomogram average of the 201phi2-1 phage nucleus major shell protein, chimallin (convex class)
Method: EM (subtomogram averaging) / Resolution: 23.0 Å

EMDB-25229: In situ subtomogram average of the Goslar major phage nucleus shell protein, chimallin (consensus class)
Method: EM (subtomogram averaging) / Resolution: 27.0 Å

EMDB-25262: In situ subtomogram average of Goslar phage nucleus major shell protein, chimallin (concave class)
Method: EM (subtomogram averaging) / Resolution: 20.0 Å

EMDB-25358: In situ subtomogram average of the major Goslar phage nucleus shell protein, chimallin (convex class)
Method: EM (subtomogram averaging) / Resolution: 25.0 Å

EMDB-25359: In situ subtomogram average of the APEC2248 70S ribosome
Method: EM (subtomogram averaging) / Resolution: 8.53 Å

EMDB-25360: In situ subtomogram average of the APEC2248 50S ribosome
Method: EM (subtomogram averaging) / Resolution: 12.0 Å

EMDB-25390, PDB-7sqq:
201Phi2-1 Chimallin Cubic (O, 24mer) assembly
Method: EM (single particle) / Resolution: 4.2 Å

EMDB-25391, PDB-7sqr:
201phi2-1 Chimallin localized tetramer reconstruction
Method: EM (single particle) / Resolution: 3.4 Å

EMDB-25392, PDB-7sqs:
201phi2-1 Chimallin C1 localized reconstruction
Method: EM (single particle) / Resolution: 3.1 Å

EMDB-25393: 201phi2-1 chimallin rectangular (D4,40mer) assembly
Method: EM (single particle) / Resolution: 21.0 Å

EMDB-25394, PDB-7sqt:
Goslar chimallin cubic (O, 24mer) assembly
Method: EM (single particle) / Resolution: 4.0 Å

EMDB-25395, PDB-7squ:
Goslar chimallin C4 tetramer localized reconstruction
Method: EM (single particle) / Resolution: 2.6 Å

EMDB-25396, PDB-7sqv:
Goslar chimallin C1 localized reconstruction
Method: EM (single particle) / Resolution: 2.3 Å

Chemicals

ChemComp-HOH:
WATER

Source
  • Pseudomonas chlororaphis (bacteria)
  • pseudomonas phage 201phi2-1 (virus)
  • Goslarvirus
  • Escherichia coli (E. coli)
  • escherichia phage vb_ecom_goslar (virus)
KeywordsSTRUCTURAL PROTEIN / Phage / virus / viral protein

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