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CryoEM structure of Yeast TFIIK (Kin28/Ccl1/Tfb3) Complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1UA2 experimental model PDB 1KXU
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 26.404 f_angle_d 1.414 f_chiral_restr 0.071 f_plane_restr 0.01 f_bond_d 0.005
Sample Ternary complex of Kin28-Ccl1-Tfb3 from Saccharomyces cerevisiae.
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument LEICA EM CPC Cryogen Name ETHANE Sample Vitrification Details blotted for 2 seconds with Whatman 41 ashless filter paper
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 81466 Reported Resolution (Å) 3.5 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 (1UA2, 1KXU) Refinement Space 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) 45
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 600 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
EM Software Task Software Package Version IMAGE ACQUISITION Latitude CTF CORRECTION CTFFIND 4.13 MODEL FITTING UCSF Chimera MODEL REFINEMENT Coot MODEL REFINEMENT PHENIX INITIAL EULER ASSIGNMENT RELION 3.0.8 FINAL EULER ASSIGNMENT RELION 3.0.8 CLASSIFICATION RELION 3.0.8 RECONSTRUCTION RELION 3.1
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 3288475 small particle set picked by blob used to generate 2D references used for large scale particle picking