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Structure of TFIIH in TFIIH/Rad4-Rad23-Rad33 DNA opening complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5OQJ experimental model PDB 6NMI
Sample Ternary complex of TFIIH/Rad4-Rad23-Rad33 with AAF damaged DNA
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument LEICA EM CPC Cryogen Name ETHANE Sample Vitrification Details Grids were manually blotted for 2-3 seconds prior to plunge freezing
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 56101 Reported Resolution (Å) 3.9 Resolution Method FSC 0.143 CUT-OFF Other Details Final reconstruction performed in RELION. Map locally filtered to FSC=0.5 by blocres Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (5OQJ, 6NMI) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 50
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 800 Maximum Defocus (nm) 2800 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 105000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details Images collected with image shift
EM Software Task Software Package Version IMAGE ACQUISITION SerialEM CTF CORRECTION CTFFIND 4.13 MODEL FITTING UCSF Chimera MODEL FITTING PHENIX MODEL REFINEMENT PHENIX INITIAL EULER ASSIGNMENT RELION 3.0.8 FINAL EULER ASSIGNMENT RELION 3.0.8 RECONSTRUCTION RELION
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 1159858 Particles picked by elliptical blob picking in cryoSPARC