ELECTRON MICROSCOPY

Sample

Ebola virus - Mayinga, Zaire, 1976

Specimen Preperation
Sample Aggregation State HELICAL ARRAY
Vitrification Instrument FEI VITROBOT MARK II
Cryogen Name ETHANE
Sample Vitrification Details ?
3D Reconstruction
Reconstruction Method SUBTOMOGRAM AVERAGING
Number of Particles 1
Reported Resolution (Å) 6.6
Resolution Method FSC 0.143 CUT-OFF
Other Details Local resolution was estimated using moving window FSC calculations.
Refinement Type
Symmetry Type POINT
Map-Model Fitting and Refinement
ID 1
Refinement Space ?
Refinement Protocol FLEXIBLE FIT
Refinement Target ?
Overall B Value ?
Fitting Procedure ?
Details Crystal structure was rigid-body fitted into density using Chimera. Missing regions of the structure was built using ideal secondary structures in coot. These were then flexibly fit using MDFF and NAMD.
Data Acquisition
Detector Type GATAN K2 QUANTUM (4k x 4k)
Electron Dose (electrons/Å2) 2.4
Imaging Experiment
Date of Experiment ?
Temprature (Kelvin)
Microscope Model FEI TITAN KRIOS
Minimum Defocus (nm) 2000
Maximum Defocus (nm) 4500
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 81000
Calibrated Magnification ?
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 300
Imaging Details ?
Imaging Experiment
Task Software Package Version
VOLUME SELECTION Amira 4
VOLUME SELECTION TOM Toolbox ?
IMAGE ACQUISITION SerialEM ?
CTF CORRECTION CTFFIND 4
CTF CORRECTION CTFPHASEFLIP ?
MODEL FITTING UCSF Chimera ?
MODEL REFINEMENT Coot ?
MODEL REFINEMENT NAMD ?
FINAL EULER ASSIGNMENT AV3 ?
RECONSTRUCTION AV3 ?
MODEL REFINEMENT MDFF ?
Image Processing
CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details
PHASE FLIPPING ONLY CTF amplitude correction was performed during the wedge-weighted subtomogram averaging step.