EMD-5650 Experiments and Validation

Pseudorabies virus C-capsid from cryo-electron microscopy

Single particle reconstruction
Overview of EMD-5650
Sample name: Pseudorabies virus (PRV) C-capsid
Organism: Suid herpesvirus 1

Map parameters

Recommended contour level: 5,000.00 (author)
Number of grid points: 823 × 823 × 823
Voxel size: 1.63 × 1.63 × 1.63 Å
Minimum density: -16,347.00
Maximum density: 32,443.00
Average density: 751.03
Standard deviation: 3,070.182

Sample information

Sample name: Pseudorabies virus (PRV) C-capsid
Virus: Suid herpesvirus 1

Validation information

Experimental information

 

Image processing

Applied symmetry: I
Software: AUTO3DEM
Number of particles: 11908
Reconstruction protocol: Fourier methods
CTF correction: Each micrograph

Imaging

Session
Microscope model: FEI POLARA 300
Electron source: FIELD EMISSION GUN
Nominal CS (mm): 2.00
Nominal magnification: 39000.0
Holder model: GATAN LIQUID NITROGEN
Acquisition
Number of images: 535
Scanner model: NIKON SUPER COOLSCAN 9000
Sampling interval (μm): 6.3499999999999996

Specimen

Preparation
Specimen state: particle
Buffer: TNE: 500mM NaCl, 10mM Tris, 1mM EDTA
Specimen support: Quantifoil R2/1, 200 mesh copper, glow discharged for 10-15 secs
Vitrification
Apparatus: FEI VITROBOT MARK III
Cryogen: ETHANE-PROPANE MIXTURE
Humidity: 95
Protocol: Blot for 6 seconds.