ELECTRON MICROSCOPY

Sample

TFIIH

Specimen Preperation
Sample Aggregation State PARTICLE
Vitrification Instrument FEI VITROBOT MARK IV
Cryogen Name ETHANE
Sample Vitrification Details 3-4 minute incubation, 2 second blot
3D Reconstruction
Reconstruction Method SINGLE PARTICLE
Number of Particles 122900
Reported Resolution (Å) 4.4
Resolution Method FSC 0.143 CUT-OFF
Other Details RELION 3D auto-refinement (gold standard).
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 Initial model assembled from high-resolution structures and homology models. Subsequently rebuilt in O and COOT, refined into the cryo-EM map using PHENIX and REFMAC, and fully validated.
Data Acquisition
Detector Type GATAN K2 SUMMIT (4k x 4k)
Electron Dose (electrons/Å2) 40
Imaging Experiment
Date of Experiment ?
Temprature (Kelvin)
Microscope Model FEI TITAN
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 GATAN 626 SINGLE TILT LIQUID NITROGEN CRYO TRANSFER HOLDER
Nominal Magnification ?
Calibrated Magnification 37879
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 300
Imaging Details ?
Imaging Experiment
Task Software Package Version
IMAGE ACQUISITION Leginon ?
CTF CORRECTION CTFFIND 4
MODEL FITTING UCSF Chimera ?
MODEL FITTING O ?
MODEL FITTING Coot ?
INITIAL EULER ASSIGNMENT RELION 1.4
FINAL EULER ASSIGNMENT RELION 1.4
CLASSIFICATION RELION 1.4
RECONSTRUCTION RELION 1.4
MODEL REFINEMENT PHENIX development versions
MODEL REFINEMENT REFMAC 5.9
Image Processing
CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION Correction in RELION based on values determined in CTFFIND4.