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- EMDB-3952: CPMV eVLP -

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Basic information

Database: EMDB / ID: 3952
SampleCowpea mosaic virus
SourceCowpea mosaic virus / virus /
Map dataCowpea mosaic virus empty virus like particle
Methodsingle particle (icosahedral) reconstruction, at 2.7 Å resolution
AuthorsMeshcheriakova Y / Durrant A / Hesketh EL / Ranson NA / Lomonossoff GP
CitationBiochem. Soc. Trans., 2017, 45, 1263-1269

Biochem. Soc. Trans., 2017, 45, 1263-1269 Yorodumi Papers
Combining high-resolution cryo-electron microscopy and mutagenesis to develop cowpea mosaic virus for bionanotechnology.
Yulia Meshcheriakova / Alex Durrant / Emma L Hesketh / Neil A Ranson / George P Lomonossoff

DateDeposition: Oct 26, 2017 / Header (metadata) release: Nov 15, 2017 / Map release: Dec 27, 2017 / Last update: Dec 27, 2017

Structure visualization

  • Surface view with section colored by density value
  • Surface level: 0.09
  • Imaged by UCSF CHIMERA
  • Download
  • Surface view colored by radius
  • Surface level: 0.09
  • Imaged by UCSF CHIMERA
  • Download
3D viewer
Supplemental images

Downloads & links


Fileemd_3952.map.gz (map file in CCP4 format, 296353 KB)
Projections & slices

Image control

AxesZ (Sec.)Y (Row.)X (Col.)
420 pix
1.07 Å/pix.
= 447.342 Å
420 pix
1.07 Å/pix.
= 447.342 Å
420 pix
1.07 Å/pix.
= 447.342 Å



Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider package.

Voxel sizeX=Y=Z: 1.0651 Å
Contour Level:0.09 (by author), 0.09 (movie #1):
Minimum - Maximum-0.21496366 - 0.36677027
Average (Standard dev.)0.00047987353 (0.02091691)


Space Group Number1
Map Geometry
Axis orderXYZ
CellA=B=C: 447.34198 Å
α=β=γ: 90 deg.

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z1.06511.06511.0651
M x/y/z420420420
origin x/y/z0.0000.0000.000
length x/y/z447.342447.342447.342
start NX/NY/NZ
MAP C/R/S123
start NC/NR/NS000
D min/max/mean-0.2150.3670.000

Supplemental data

Sample components

Entire Cowpea mosaic virus

EntireName: Cowpea mosaic virus / Number of components: 1

Component #1: virus, Cowpea mosaic virus

VirusName: Cowpea mosaic virus / Class: VIRUS-LIKE PARTICLE / Empty: Yes / Enveloped: No / Isolate: STRAIN
SpeciesSpecies: Cowpea mosaic virus / virus /
Source (engineered)Expression System: Nicotiana benthamiana / plant / image: Nicotiana tabacum

Experimental details

Sample preparation

Specimen stateparticle
Sample solutionpH: 7.5
VitrificationCryogen name: ETHANE

Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
ImagingMicroscope: FEI TITAN KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Electron dose: 67.5 e/Å2 / Illumination mode: SPOT SCAN
LensImaging mode: BRIGHT FIELD
Specimen HolderModel: OTHER
CameraDetector: OTHER

Image processing

ProcessingMethod: single particle (icosahedral) reconstruction / Applied symmetry: I (icosahedral) / Number of projections: 280000
3D reconstructionSoftware: RELION / Resolution: 2.7 Å / Resolution method: FSC 0.143 CUT-OFF
FSC plot (resolution assessment)

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