4v99

The Crystallographic Structure of Panicum Mosaic Virus

spinqualitylabelsall models 4v99, resolution 2.90Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 4v99 is a 480 chain structure with sequence from Panicum mosaic virus. This structure supersedes the now removed PDB entries 4fy1, 4fy2, 4fy3, 4fy4, 4fy5, 4fy6, 4fy7, 4fy8, 4fy9 and 4fya. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Ligands: CA Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Function [CAPSD_PMVK] Capsid protein self-assembles to form an icosahedral capsid with a T=3 symmetry, about 32-35 nm in diameter, and consisting of 180 capsid proteins. Publication Abstract from PubMed The structure of Panicum Mosaic Virus (PMV) was determined by X-ray diffraction analysis to 2.9A resolution. The crystals were of pseudo symmetry F23; the true crystallographic unit cell was of space group P2(1) with a=411.7A, b=403.9A and c=412.5A, with beta=89.7 degrees . The asymmetric unit was two entire T=3 virus particles, or 360 protein subunits. The structure was solved by conventional molecular replacement from two distant homologues, Cocksfoot Mottle Virus (CfMV) and Tobacco Necrosis Virus (TNV), of approximately 20% sequence identity followed by phase extension. The model was initially refined with exact icosahedral constraints and then with icosahedral restraints. The virus has Ca(++) ions octahedrally coordinated by six aspartic acid residues on quasi threefold axes, which is completely different than for either CfMV or TNV. Amino terminal residues 1-53, 1-49 and 1-21 of the A, B and C subunits, respectively, and the four C-terminal residues (239-242) are not visible in electron density maps. The additional ordered residues of the C chain form a prominent "arm" that intertwines with symmetry equivalent "arms" at icosahedral threefold axes, as was seen in both CfMV and TNV. A 17 nucleotide hairpin segment of genomic RNA is icosahedrally ordered and bound at 60 equivalent sites at quasi twofold A-B subunit interfaces at the interior surface of the capsid. This segment of RNA may serve as a conformational switch for coat protein subunits, as has been proposed for similar RNA segments in other viruses. The crystallographic structure of Panicum Mosaic Virus (PMV).,Makino DL, Larson SB, McPherson A J Struct Biol. 2012 Nov 1. pii: S1047-8477(12)00294-8. doi:, 10.1016/j.jsb.2012.10.012. PMID:23123270 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See Also Virus coat proteins 3D structures

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