EMD-20433 Experiments and Validation

Kaposi's sarcoma-associated herpesvirus (KSHV), C1 penton vertex register, CATC-absent structure

Single particle reconstruction
Overview of EMD-20433
Sample name: Human gammaherpesvirus 8
Organisms: Human gammaherpesvirus 8, HHV-8
Fitted atomic model: 6ppd
Related EM entries by publication: EMD-20430, EMD-20431, EMD-20432, EMD-20436, EMD-20437

Map parameters

Recommended contour level: 0.02 (author)
Number of grid points: 384 × 384 × 384
Voxel size: 1.03 × 1.03 × 1.03 Å
Minimum density: 0.00
Maximum density: 1.00
Average density: 0.031
Standard deviation: 0.173

Sample information

Sample name: Human gammaherpesvirus 8
Proteins: Small capsomere-interacting protein, Major capsid protein, Triplex capsid protein 1, Triplex capsid protein 2
Virus: Human gammaherpesvirus 8

Validation information

Experimental information

 

Image processing

Applied symmetry: C1
Software: RELION
Number of particles: 1521505
Reconstruction protocol: FOURIER SPACE

Fitting

Target criteria: Correlation coefficient
Overall B value: 177.40000000000001
Refinement space: REAL

Imaging

Session
Microscope model: FEI TITAN KRIOS
Electron source: FIELD EMISSION GUN
Electron dose (e/A**2): 25.0
Nominal CS (mm): 2.70
Nominal magnification: 14000.0
Holder model: FEI TITAN KRIOS AUTOGRID HOLDER
Acquisition
Number of images: 8007
Sampling interval (μm): 2.5

Specimen

Preparation
Specimen state: particle
Vitrification
Apparatus: HOMEMADE PLUNGER
Cryogen: ETHANE
Details: The sample was manually blotted and frozen with a homemade plunger..