6ojn | pdb_00006ojn

Comparative Model of SGIV Major Coat Protein (MCP) Trimer Based on Cryo-EM Map

Loading... Status: waiting for Mol* initialization Structural highlights 6ojn is a 3 chain structure with sequence from Singapore grouper iridovirus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Publication Abstract from PubMed 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-A 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. Segmentation and Comparative Modeling in an 8.6-A Cryo-EM Map of the Singapore Grouper Iridovirus.,Pintilie G, Chen DH, Tran BN, Jakana J, Wu J, Hew CL, Chiu W Structure. 2019 Oct 1;27(10):1561-1569.e4. doi: 10.1016/j.str.2019.08.002. Epub, 2019 Aug 22. PMID:31447288 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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