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TitleSegmentation and Comparative Modeling in an 8.6-Å Cryo-EM Map of the Singapore Grouper Iridovirus.
Journal, issue, pagesStructure, Vol. 27, Issue 10, Page 1561-11569.e4, Year 2019
Publish dateOct 1, 2019
AuthorsGrigore Pintilie / Dong-Hua Chen / Bich Ngoc Tran / Joanita Jakana / Jinlu Wu / Choy Leong Hew / Wah Chiu /
PubMed AbstractSGIV, or Singapore grouper iridovirus, is a large double-stranded DNA virus, reaching a diameter of 220 nm and packaging a genome of 140 kb. We present a 3D cryoelectron microscopy (cryo-EM) ...SGIV, or Singapore grouper iridovirus, is a large double-stranded DNA virus, reaching a diameter of 220 nm and packaging a genome of 140 kb. We present a 3D cryoelectron microscopy (cryo-EM) icosahedral reconstruction of SGIV determined at 8.6-Å resolution. It reveals several layers including a T = 247 icosahedral outer coat, anchor proteins, a lipid bilayer, and the encapsidated DNA. A new segmentation tool, iSeg, was applied to extract these layers from the reconstructed map. The outer coat was further segmented into major and minor capsid proteins. None of the proteins extracted by segmentation have known atomic structures. We generated models for the major coat protein using three comparative modeling tools, and evaluated each model using the cryo-EM map. Our analysis reveals a new architecture in the Iridoviridae family of viruses. It shares similarities with others in the same family, e.g., Chilo iridescent virus, but also shows new features of the major and minor capsid proteins.
External linksStructure / PubMed:31447288 / PubMed Central
MethodsEM (single particle)
Resolution8.6 Å
Structure data

20091

6ojn

EMDB-20091: Singapore Grouper Iridovirus (SGIV) at 8.6 Angstrom Resolution
PDB-6ojn: Comparative Model of SGIV Major Coat Protein (MCP) Trimer Based on Cryo-EM Map
Method: EM (single particle) / Resolution: 8.6 Å

Source
  • singapore grouper iridovirus
KeywordsVIRAL PROTEIN / icosahedral / trimers / outer coat / anchor proteins / zip proteins

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