5LK8

single particle reconstruction of slow bee paralysis virus empty particle

Summary for 5LK8

• Entry DOI: 10.2210/pdb5lk8/pdb
• EMDB information: 4064
• Descriptor: VP1, VP2, VP3 (3 entities in total)
• Functional Keywords: icosahedral virus, honebee virus, iflavirus, virus
• Biological source: Slow bee paralysis virus; More
• Total number of polymer chains: 3
• Total formula weight: 107755.33

Authors

Kalynych, S.,Fuzik, T.,Plevka, P. (deposition date: 2016-07-21, release date: 2017-01-18, Last modification date: 2024-05-15)

Primary citation

Kalynych, S.,Fuzik, T.,Pridal, A.,de Miranda, J.,Plevka, P.
Cryo-EM study of slow bee paralysis virus at low pH reveals iflavirus genome release mechanism.
Proc. Natl. Acad. Sci. U.S.A., 114:598-603, 2017

PubMed Abstract: Viruses from the family Iflaviridae are insect pathogens. Many of them, including slow bee paralysis virus (SBPV), cause lethal diseases in honeybees and bumblebees, resulting in agricultural losses. Iflaviruses have nonenveloped icosahedral virions containing single-stranded RNA genomes. However, their genome release mechanism is unknown. Here, we show that low pH promotes SBPV genome release, indicating that the virus may use endosomes to enter host cells. We used cryo-EM to study a heterogeneous population of SBPV virions at pH 5.5. We determined the structures of SBPV particles before and after genome release to resolutions of 3.3 and 3.4 Å, respectively. The capsids of SBPV virions in low pH are not expanded. Thus, SBPV does not appear to form "altered" particles with pores in their capsids before genome release, as is the case in many related picornaviruses. The egress of the genome from SBPV virions is associated with a loss of interpentamer contacts mediated by N-terminal arms of VP2 capsid proteins, which result in the expansion of the capsid. Pores that are 7 Å in diameter form around icosahedral threefold symmetry axes. We speculate that they serve as channels for the genome release. Our findings provide an atomic-level characterization of the genome release mechanism of iflaviruses.

PubMed: 28053231
DOI: 10.1073/pnas.1616562114

Experimental method

ELECTRON MICROSCOPY (3.42 Å)