4rfu | pdb_00004rfu

Crystal structure of truncated P-domain from Grouper nervous necrosis virus capsid protein at 1.2A

spinqualitylabelsall models 4rfu, resolution 1.20Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 4rfu is a 3 chain structure. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Ligands: CA, GOL, PEG Related: 4rft, 4wiz Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum Publication Abstract from PubMed Betanodaviruses cause massive mortality in marine fish species with viral nervous necrosis. The structure of a T = 3 Grouper nervous necrosis virus-like particle (GNNV-LP) is determined by the ab initio method with non-crystallographic symmetry averaging at 3.6 A resolution. Each capsid protein (CP) shows three major domains: (i) the N-terminal arm, an inter-subunit extension at the inner surface; (ii) the shell domain (S-domain), a jelly-roll structure; and (iii) the protrusion domain (P-domain) formed by three-fold trimeric protrusions. In addition, we have determined structures of the T = 1 subviral particles (SVPs) of (i) the delta-P-domain mutant (residues 35-217) at 3.1 A resolution; and (ii) the N-ARM deletion mutant (residues 35-338) at 7 A resolution; and (iii) the structure of the individual P-domain (residues 214-338) at 1.2 A resolution. The P-domain reveals a novel DxD motif asymmetrically coordinating two Ca2+ ions, and seems to play a prominent role in the calcium-mediated trimerization of the GNNV CPs during the initial capsid assembly process. The flexible N-ARM (N-terminal arginine-rich motif) appears to serve as a molecular switch for T = 1 or T = 3 assembly. Finally, we find that polyethylene glycol, which is incorporated into the P-domain during the crystallization process, enhances GNNV infection. The present structural studies together with the biological assays enhance our understanding of the role of the P-domain of GNNV in the capsid assembly and viral infection by this betanodavirus. Crystal Structures of a Piscine Betanodavirus: Mechanisms of Capsid Assembly and Viral Infection.,Chen NC, Yoshimura M, Guan HH, Wang TY, Misumi Y, Lin CC, Chuankhayan P, Nakagawa A, Chan SI, Tsukihara T, Chen TY, Chen CJ PLoS Pathog. 2015 Oct 22;11(10):e1005203. doi: 10.1371/journal.ppat.1005203., eCollection 2015 Oct. PMID:26491970 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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