ELECTRON MICROSCOPY

Sample

Venezuelan Equine Encephalitis Virus TC83 strain E3 protein that is cleaved from p62 protein

Specimen Preperation
Sample Aggregation State PARTICLE
Vitrification Instrument FEI VITROBOT MARK I
Cryogen Name ETHANE
Sample Vitrification Details vitrification carried out in Chiu lab, Houston, TX
3D Reconstruction
Reconstruction Method SINGLE PARTICLE
Number of Particles 37000
Reported Resolution (Å) 4.8
Resolution Method ?
Other Details After each iteration, the non-icosahedral parts (which included the lipids and the RNA) in the reconstruction were removed by a soft-edged mask derived from an icosahedrally organized, protein-only map that was low-pass filtered to 30 Angstroms. This map then served as the reference model for the next iteration.
Refinement Type
Symmetry Type POINT
Map-Model Fitting and Refinement
ID 1
Refinement Space REAL
Refinement Protocol RIGID BODY FIT
Refinement Target ?
Overall B Value ?
Fitting Procedure ?
Details METHOD--rigid-body fitting DETAILS--The E3 homology model was not further refined against the cryo-EM density map due to its less-resolved quality
Data Acquisition
Detector Type GATAN ULTRASCAN 4000 (4k x 4k)
Electron Dose (electrons/Å2) 18
Imaging Experiment
Date of Experiment 2008-04-09
Temprature (Kelvin)
Microscope Model JEOL 3200FSC
Minimum Defocus (nm) 400
Maximum Defocus (nm) 2500
Minimum Tilt Angle (degrees) 0.0
Maximum Tilt Angle (degrees) 0.0
Nominal CS 4.3
Imaging Mode BRIGHT FIELD
Specimen Holder Model JEOL 3200FSC CRYOHOLDER
Nominal Magnification 100000
Calibrated Magnification ?
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 300
Imaging Details omega energy filter
Imaging Experiment
Task Software Package Version
MODEL FITTING UCSF Chimera ?
RECONSTRUCTION EMAN ?
Image Processing
CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details
. CTF parameters were determined from particles within each CCD image