|Entry||Database: EMDB / ID: EMD-3655|
|Title||Cryo-Electron Microscopy Structure of the Macrobrachium rosenbergii Nodavirus Capsid at 7 Angstroms Resolution|
|Sample||Macrobrachium rosenbergii Nodavirus Capsid:|
|Biological species||Macrobrachium rosenbergii Nodavirus|
|Method||single particle reconstruction / cryo EM / Resolution: 7.5 Å|
|Authors||Bhella D / Ho KL|
|Citation||Journal: Sci Rep / Year: 2017|
Title: Cryo-Electron Microscopy Structure of the Macrobrachium rosenbergii Nodavirus Capsid at 7 Angstroms Resolution.
Authors: Kok Lian Ho / Chare Li Kueh / Poay Ling Beh / Wen Siang Tan / David Bhella /
Abstract: White tail disease in the giant freshwater prawn Macrobrachium rosenbergii causes significant economic losses in shrimp farms and hatcheries and poses a threat to food-security in many developing ...White tail disease in the giant freshwater prawn Macrobrachium rosenbergii causes significant economic losses in shrimp farms and hatcheries and poses a threat to food-security in many developing countries. Outbreaks of Macrobrachium rosenbergii nodavirus (MrNV), the causative agent of white tail disease (WTD) are associated with up to 100% mortality rates. There are no interventions available to treat or prevent MrNV disease however. Here we show the structure of MrNV virus-like particles (VLPs) produced by recombinant expression of the capsid protein, using cryogenic electron microscopy. Our data show that MrNV VLPs package nucleic acids in a manner reminiscent of other known nodavirus structures. The structure of the capsid however shows striking differences from insect and fish infecting nodaviruses, which have been shown to assemble trimer-clustered T = 3 icosahedral virus particles. MrNV particles have pronounced dimeric blade-shaped spikes extending up to 6 nm from the outer surface of the capsid shell. Our structural analysis supports the assertion that MrNV may belong to a new genus of the Nodaviridae. Moreover, our study provides the first structural view of an important pathogen affecting aquaculture industries across the world.
|Structure viewer||EM map: |
Downloads & links
|File||Download / File: emd_3655.map.gz / Format: CCP4 / Size: 512 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)|
|Projections & slices|
Images are generated by Spider.
|Voxel size||X=Y=Z: 1.09 Å|
|Symmetry||Space group: 1|
CCP4 map header:
-Entire Macrobrachium rosenbergii Nodavirus Capsid
|Entire||Name: Macrobrachium rosenbergii Nodavirus Capsid / Number of components: 1|
-Component #1: virus, Macrobrachium rosenbergii Nodavirus
|Virus||Name: Macrobrachium rosenbergii Nodavirus / Class: VIRUS-LIKE PARTICLE / Empty: No / Enveloped: No / Isolate: OTHER|
|Species||Species: Macrobrachium rosenbergii Nodavirus|
|Source (natural)||Host Species: Macrobrachium rosenbergii (giant freshwater prawn)|
|Specimen||Specimen state: Particle / Method: cryo EM|
|Sample solution||pH: 7.2|
|Support film||C-flats had an additional carbon evaporation applied|
|Vitrification||Instrument: FEI VITROBOT MARK IV / Cryogen name: ETHANE / Temperature: 277 K / Humidity: 100 % / Details: Blot for 4 seconds, Blot force 25.|
-Electron microscopy imaging
|Imaging||Microscope: JEOL 2200FSC|
|Electron gun||Electron source: FIELD EMISSION GUN / Accelerating voltage: 200 kV / Electron dose: 70 e/Å2 / Illumination mode: FLOOD BEAM|
|Lens||Cs: 2 mm / Imaging mode: BRIGHT FIELD|
|Specimen Holder||Model: GATAN LIQUID NITROGEN|
|Camera||Detector: DIRECT ELECTRON DE-20 (5k x 3k)|
|Image acquisition||Number of digital images: 281|
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