8H2I

Near-atomic structure of five-fold averaged PBCV-1 capsid

This is a non-PDB format compatible entry.

Summary for 8H2I

• Entry DOI: 10.2210/pdb8h2i/pdb
• EMDB information: 34438
• Descriptor: Major capsid protein (MCP), P5, P6, ... (26 entities in total)
• Functional Keywords: giant virus, nucleocytoplasmic large dna viruses (ncldvs), viral assembly, paramecium bursaria chlorella virus 1 (pbcv-1), chlorovirus, major capsid protein, minor capsid protein, virus, viral protein
• Biological source: Paramecium bursaria Chlorella virus 1; More
• Total number of polymer chains: 177
• Total formula weight: 9133988.60

Authors

Shao, Q.,Agarkova, I.V.,Noel, E.A.,Dunigan, D.D.,Liu, Y.,Wang, A.,Guo, M.,Xie, L.,Zhao, X.,Rossmann, M.G.,Van Etten, J.L.,Klose, T.,Fang, Q. (deposition date: 2022-10-06, release date: 2022-11-16, Last modification date: 2023-09-06)

Primary citation

Shao, Q.,Agarkova, I.V.,Noel, E.A.,Dunigan, D.D.,Liu, Y.,Wang, A.,Guo, M.,Xie, L.,Zhao, X.,Rossmann, M.G.,Van Etten, J.L.,Klose, T.,Fang, Q.
Near-atomic, non-icosahedrally averaged structure of giant virus Paramecium bursaria chlorella virus 1.
Nat Commun, 13:6476-6476, 2022

PubMed Abstract: Giant viruses are a large group of viruses that infect many eukaryotes. Although components that do not obey the overall icosahedral symmetry of their capsids have been observed and found to play critical roles in the viral life cycles, identities and high-resolution structures of these components remain unknown. Here, by determining a near-atomic-resolution, five-fold averaged structure of Paramecium bursaria chlorella virus 1, we unexpectedly found the viral capsid possesses up to five major capsid protein variants and a penton protein variant. These variants create varied capsid microenvironments for the associations of fibers, a vesicle, and previously unresolved minor capsid proteins. Our structure reveals the identities and atomic models of the capsid components that do not obey the overall icosahedral symmetry and leads to a model for how these components are assembled and initiate capsid assembly, and this model might be applicable to many other giant viruses.

PubMed: 36309542
DOI: 10.1038/s41467-022-34218-4

Experimental method

ELECTRON MICROSCOPY (3.8 Å)