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Human RAD51B-RAD51C-RAD51D-XRCC2 (BCDX2) complex, 2.2 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8OUY
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 15.5896 f_angle_d 0.5605 f_chiral_restr 0.0437 f_plane_restr 0.0028 f_bond_d 0.0025
Sample RAD51B-RAD51C-RAD51D-XRCC2 (BCDX2)
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 1371033 Reported Resolution (Å) 2.2 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (8OUY) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value 50.38 Fitting Procedure Details PDB-8OUY was initially docked into the postprocessed map using ChimeraX 1.4, and iteratively real space refined with Phenix and manually modified usin ... PDB-8OUY was initially docked into the postprocessed map using ChimeraX 1.4, and iteratively real space refined with Phenix and manually modified using COOT
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 53.2
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 PARTICLE SELECTION Topaz 0.2.5 IMAGE ACQUISITION EPU 2.13 CTF CORRECTION CTFFIND 4 MODEL FITTING PHENIX 1.2 MODEL REFINEMENT PHENIX 1.2 MODEL REFINEMENT Coot 0.9.8.7 INITIAL EULER ASSIGNMENT RELION 4.0 FINAL EULER ASSIGNMENT RELION 4.0 CLASSIFICATION RELION 4
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 25886382