8OUY
Human RAD51B-RAD51C-RAD51D-XRCC2 (BCDX2) complex, 3.4 A resolution
ELECTRON MICROSCOPY
Refinement
RMS Deviations | |
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Key | Refinement Restraint Deviation |
f_dihedral_angle_d | 4.7375 |
f_angle_d | 0.4973 |
f_chiral_restr | 0.0423 |
f_plane_restr | 0.0028 |
f_bond_d | 0.0023 |
Sample |
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RAD51B-RAD51C-RAD51D-XRCC2 (BCDX2) |
Specimen Preparation | |
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Sample Aggregation State | PARTICLE |
Vitrification Instrument | FEI VITROBOT MARK IV |
Cryogen Name | ETHANE |
Sample Vitrification Details |
3D Reconstruction | |
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Reconstruction Method | SINGLE PARTICLE |
Number of Particles | 87572 |
Reported Resolution (Å) | 3.4 |
Resolution Method | FSC 0.143 CUT-OFF |
Other Details | Map was enhanced using DeepEMhancer |
Refinement Type | |
Symmetry Type | POINT |
Point Symmetry | C1 |
Map-Model Fitting and Refinement | |||||
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Id | 1 | ||||
Refinement Space | REAL | ||||
Refinement Protocol | |||||
Refinement Target | |||||
Overall B Value | |||||
Fitting Procedure | |||||
Details | AlphaFold2 monomer predictions of RAD51B, RAD51C, RAD51D and XRCC2 were docked into the EM density using Dock and Rebuild in Phenix. ATP and Mg2+ were ... |
Data Acquisition | |||||||||
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Detector Type | GATAN K2 SUMMIT (4k x 4k) | ||||||||
Electron Dose (electrons/Å**2) | 47 |
Imaging Experiment | 1 |
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Date of Experiment | |
Temperature (Kelvin) | |
Microscope Model | FEI TITAN KRIOS |
Minimum Defocus (nm) | 1500 |
Maximum Defocus (nm) | 3500 |
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 | 130000 |
Calibrated Magnification | |
Source | FIELD EMISSION GUN |
Acceleration Voltage (kV) | 300 |
Imaging Details |
EM Software | ||
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Task | Software Package | Version |
IMAGE ACQUISITION | EPU | 2.10 |
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 |
RECONSTRUCTION | RELION | 4.0 |
Image Processing | ||||
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CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
PHASE FLIPPING AND AMPLITUDE CORRECTION | 4528940 |