Double-stranded RNA virus outer shell assembly by bona fide domain-swapping

Nat Commun. 2017 Mar 13:8:14814. doi: 10.1038/ncomms14814.

Abstract

Correct outer protein shell assembly is a prerequisite for virion infectivity in many multi-shelled dsRNA viruses. In the prototypic dsRNA bacteriophage φ6, the assembly reaction is promoted by calcium ions but its biomechanics remain poorly understood. Here, we describe the near-atomic resolution structure of the φ6 double-shelled particle. The outer T=13 shell protein P8 consists of two alpha-helical domains joined by a linker, which allows the trimer to adopt either a closed or an open conformation. The trimers in an open conformation swap domains with each other. Our observations allow us to propose a mechanistic model for calcium concentration regulated outer shell assembly. Furthermore, the structure provides a prime exemplar of bona fide domain-swapping. This leads us to extend the theory of domain-swapping from the level of monomeric subunits and multimers to closed spherical shells, and to hypothesize a mechanism by which closed protein shells may arise in evolution.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amino Acid Sequence
  • Bacteriophage phi 6 / chemistry
  • Bacteriophage phi 6 / ultrastructure*
  • Binding Sites
  • Calcium / chemistry
  • Calcium / metabolism
  • Capsid / chemistry
  • Capsid / ultrastructure
  • Capsid Proteins / chemistry*
  • Capsid Proteins / genetics
  • Capsid Proteins / metabolism
  • Cryoelectron Microscopy
  • Evolution, Molecular
  • Gene Expression
  • Models, Molecular
  • Protein Binding
  • Protein Conformation, alpha-Helical
  • Protein Interaction Domains and Motifs
  • Protein Multimerization
  • Protein Subunits / chemistry*
  • Protein Subunits / genetics
  • Protein Subunits / metabolism
  • Pseudomonas syringae / virology
  • RNA, Double-Stranded / chemistry*
  • RNA, Double-Stranded / genetics
  • RNA, Double-Stranded / metabolism
  • RNA, Viral / chemistry*
  • RNA, Viral / genetics
  • RNA, Viral / metabolism
  • Virion / chemistry
  • Virion / ultrastructure*
  • Virus Assembly

Substances

  • Capsid Proteins
  • Protein Subunits
  • RNA, Double-Stranded
  • RNA, Viral
  • Calcium