ELECTRON MICROSCOPY

Sample

Equine infectious anemia virus

Specimen Preperation
Sample Aggregation State PARTICLE
Vitrification Instrument FEI VITROBOT MARK II
Cryogen Name ETHANE
Sample Vitrification Details 1-2 seconds blot time, offset -3mm
3D Reconstruction
Reconstruction Method SUBTOMOGRAM AVERAGING
Number of Particles 64961
Reported Resolution (Å) 3.7
Resolution Method FSC 0.143 CUT-OFF
Other Details ?
Refinement Type
Symmetry Type POINT
Map-Model Fitting and Refinement
ID 1
Refinement Space REAL
Refinement Protocol OTHER
Refinement Target Cross-correlation coefficient
Overall B Value ?
Fitting Procedure ?
Details Rigid body fitting was done in Chimera. Missing residues were built de novo in Coot. Refinement was performed iteratively in Phenix and Coot.
Data Acquisition
Detector Type GATAN K2 QUANTUM (4k x 4k)
Electron Dose (electrons/Å2) 3.4
Imaging Experiment
Date of Experiment ?
Temprature (Kelvin)
Microscope Model FEI TITAN KRIOS
Minimum Defocus (nm) -1500
Maximum Defocus (nm) -3500
Minimum Tilt Angle (degrees) ?
Maximum Tilt Angle (degrees) ?
Nominal CS 2.7
Imaging Mode BRIGHT FIELD
Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification 130000
Calibrated Magnification ?
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 300
Imaging Details nanoprobe
Imaging Experiment
Task Software Package Version
VOLUME SELECTION MATLAB ?
IMAGE ACQUISITION SerialEM ?
CTF CORRECTION CTFFIND 4
CTF CORRECTION NOVACTF ?
MODEL FITTING UCSF Chimera ?
MODEL FITTING Coot ?
FINAL EULER ASSIGNMENT AV3 ?
FINAL EULER ASSIGNMENT TOM Toolbox ?
RECONSTRUCTION AV3 ?
RECONSTRUCTION TOM Toolbox ?
MODEL REFINEMENT PHENIX ?
MODEL REFINEMENT Coot ?
Image Processing
CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION CTF-correction was performed using NOVACTF