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Cryo-EM structure of human RNA Polymerase I in complex with RRN3
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7AEI
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 12.2138 f_angle_d 1.2294 f_chiral_restr 0.0712 f_bond_d 0.0137 f_plane_restr 0.0098
Sample RNA polymerase I in complex with RRN3 Sample Components RNA polymerase I RNA polymerase I-specific transcription initiation factor RRN3
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details blot force 3, blot time 0 s, wait time 0 s
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 260363 Reported Resolution (Å) 3.1 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 (7AEI, 7AEI, 7AEI, 7AEI, 7AEI, 7AEI, 7AEI) Refinement Space Refinement Protocol Refinement Target Overall B Value Fitting Procedure Details Initial rigid body fitting with UCSF Chimera followed by manual model fitting in Coot.
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 41.2
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 750 Maximum Defocus (nm) 2250 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 SerialEM CTF CORRECTION Warp 1.0.6 CTF CORRECTION RELION 3.1 MODEL FITTING UCSF Chimera 1.11.2 MODEL FITTING Coot 0.9 MODEL REFINEMENT PHENIX 1.13 INITIAL EULER ASSIGNMENT cryoSPARC 3.1 INITIAL EULER ASSIGNMENT RELION 3.1 FINAL EULER ASSIGNMENT RELION 3.1 CLASSIFICATION RELION 3.1 RECONSTRUCTION RELION 3.1
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 2628144