|Entry||Database: EMDB / ID: 1153|
|Title||Kelp fly virus: a novel group of insect picorna-like viruses as defined by genome sequence analysis and a distinctive virion structure.|
|Map data||Reconstruction of Kelp fly virus in which only a single vertex presents a turret|
|Sample||Kelp fly virus:|
|Source||Kelp fly virus (KFV)|
|Method||single particle reconstruction / cryo EM / 15 Å resolution|
|Authors||Hartley CJ / Greenwood DR / Gilbert RJC|
|Citation||Journal: J. Virol. / Year: 2005|
Title: Kelp fly virus: a novel group of insect picorna-like viruses as defined by genome sequence analysis and a distinctive virion structure.
Authors: C J Hartley / D R Greenwood / R J C Gilbert / A Masoumi / K H J Gordon / T N Hanzlik / E E Fry / D I Stuart / P D Scotti
|Date||Deposition: Aug 10, 2005 / Header (metadata) release: Aug 17, 2005 / Map release: Sep 2, 2005 / Last update: May 26, 2011|
|Structure viewer||EM map: |
Downloads & links
|File||emd_1153.map.gz (map file in CCP4 format, 10720 KB)|
|Projections & slices|
Images are generated by Spider.
|Voxel size||X=Y=Z: 4.38 Å|
CCP4 map header:
-Entire Kelp fly virus
|Entire||Name: Kelp fly virus|
Details: The sample displays evidence of a substoichiometric level of turret decoration.
Oligomeric State: One icosahedral virion / Number of components: 1
|Mass||Experimental: 4.38 MDa|
Measured by: Volumetrically from the reconstruction and by comparison with the known volume to mass ratio of other insect viruses
-Component #1: virus, Kelp fly virus
|Virus||Name: Kelp fly virus / a.k.a: KFV / Class: VIRION / Empty: No / Enveloped: No / Isolate: SPECIES|
|Mass||Theoretical: 4.38 MDa|
|Species||Species: Kelp fly virus (KFV)|
|Source (natural)||Host Species: Chaetocoelopa sydneyensis / Host category: INVERTEBRATES|
|Shell #1||Name of element: Capsid / Diameter: 330 Å|
|Shell #2||Name of element: Capsid and turret / Diameter: 450 Å|
|Specimen||Specimen state: particle / Method: cryo EM|
|Sample solution||Specimen conc.: 1 mg/ml / Buffer solution: 100 mM TRIS, pH 7.2 / pH: 7.2|
|Support film||300 mesh copper grid, carbon lacey film|
|Vitrification||Cryogen name: ETHANE|
Method: Blot until grid pulls away from Whatman number 1 paper before plunging
-Electron microscopy imaging
|Imaging||Microscope: FEI/PHILIPS CM200FEG / Date: Jun 1, 2001|
|Electron gun||Electron source: FIELD EMISSION GUN / Accelerating voltage: 200 kV / Electron dose: 2 e/Å2 / Illumination mode: SPOT SCAN|
|Lens||Magnification: 38000 X (nominal) / Astigmatism: objective lens astigmatism was corrected at / Cs: 2 mm / Imaging mode: BRIGHT FIELD / Defocus: 1000 - 7000 nm|
|Specimen Holder||Holder: Eucentric / Model: GATAN LIQUID NITROGEN / Temperature: 100 K|
|Camera||Detector: KODAK SO-163 FILM|
|Image acquisition||Number of digital images: 27 / Scanner: OTHER / Sampling size: 4.38 microns / Bit depth: 8|
|Processing||Method: single particle reconstruction / Number of projections: 3890 / Applied symmetry: C5 (5 fold cyclic)|
|3D reconstruction||Algorithm: Single particle / Software: SPIDER / CTF correction: By micrograph / Resolution: 15 Å / Resolution method: FSC 0.5 / Euler angles: SPIDER|
Details: Final map was calculated from images that had previously been CTF-corrected. Map has a single turret on a unique vertex and has had 5fold symmetry applied after map calculation.
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