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Venezuelan Equine Encephalitis Virus TC83 strain E3 protein that is cleaved from p62 protein
Specimen Preparation
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 derive ...
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
Point Symmetry
I
Map-Model Fitting and Refinement
Id
1 (3N40)
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/Å**2)
18
Imaging Experiment
1
Date of Experiment
2008-04-09
Temperature (Kelvin)
96
Microscope Model
JEOL 3200FSC
Minimum Defocus (nm)
400
Maximum Defocus (nm)
2500
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
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
EM Software
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