|Entry||Database: EMDB / ID: EMD-1459|
|Title||Partitivirus structure reveals a 120-subunit, helix-rich capsid with distinctive surface arches formed by quasisymmetric coat-protein dimers.|
|Biological species||Penicillium stoloniferum virus S (PsV-S)|
|Method||single particle reconstruction / cryo EM / Resolution: 7.3 Å|
|Authors||Ochoa WF / Havens WM / Sinkovits RS / Nibert ML / Ghabrial SA / Baker TS|
|Citation||Journal: Structure / Year: 2008|
Title: Partitivirus structure reveals a 120-subunit, helix-rich capsid with distinctive surface arches formed by quasisymmetric coat-protein dimers.
Authors: Wendy F Ochoa / Wendy M Havens / Robert S Sinkovits / Max L Nibert / Said A Ghabrial / Timothy S Baker /
Abstract: Two distinct partitiviruses, Penicillium stoloniferum viruses S and F, can be isolated from the fungus Penicillium stoloniferum. The bisegmented dsRNA genomes of these viruses are separately packaged ...Two distinct partitiviruses, Penicillium stoloniferum viruses S and F, can be isolated from the fungus Penicillium stoloniferum. The bisegmented dsRNA genomes of these viruses are separately packaged in icosahedral capsids containing 120 coat-protein subunits. We used transmission electron cryomicroscopy and three-dimensional image reconstruction to determine the structure of Penicillium stoloniferum virus S at 7.3 A resolution. The capsid, approximately 350 A in outer diameter, contains 12 pentons, each of which is topped by five arched protrusions. Each of these protrusions is, in turn, formed by a quasisymmetric dimer of coat protein, for a total of 60 such dimers per particle. The density map shows numerous tubular features, characteristic of alpha helices and consistent with secondary structure predictions for the coat protein. This three-dimensional structure of a virus from the family Partitiviridae exhibits both similarities to and differences from the so-called "T = 2" capsids of other dsRNA viruses.
|Structure viewer||EM map: |
Downloads & links
|File||Download / File: emd_1459.map.gz / Format: CCP4 / Size: 206 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)|
|Projections & slices|
Images are generated by Spider.
|Voxel size||X=Y=Z: 1.23 Å|
|Symmetry||Space group: 1|
CCP4 map header:
|Entire||Name: PsV-S / Number of components: 1|
-Component #1: virus, Penicillium stoloniferum virus S
|Virus||Name: Penicillium stoloniferum virus S / a.k.a: PsV-S / Class: VIRION / Empty: No / Enveloped: No / Isolate: SPECIES|
|Species||Species: Penicillium stoloniferum virus S (PsV-S)|
|Source (natural)||Host Species: Penicillium Stoloniferum (fungus) / Host category: FUNGI|
|Shell #1||Name of element: PsV-S / Diameter: 35 Å / T number (triangulation number): 2|
|Specimen||Specimen state: Particle / Method: cryo EM|
|Vitrification||Cryogen name: ETHANE|
-Electron microscopy imaging
|Imaging||Microscope: FEI TECNAI SPHERA|
|Electron gun||Electron source: FIELD EMISSION GUN / Accelerating voltage: 200 kV / Illumination mode: SPOT SCAN|
|Lens||Imaging mode: OTHER|
|Specimen Holder||Holder: Polara / Model: GATAN LIQUID NITROGEN|
|Processing||Method: single particle reconstruction / Applied symmetry: I (正20面体型対称)|
|3D reconstruction||Resolution: 7.3 Å / Resolution method: FSC 0.5|
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