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Cryo-EM structure of CRBN in complex with HBS1L and TNG-4857 (focused refinement)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5HXB experimental model Other
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 5.9913 f_angle_d 0.5483 f_chiral_restr 0.0424 f_plane_restr 0.0045 f_bond_d 0.0038
Sample Dimeric assembly of the ternary complex of CRBN/DDB1 plus HBS1L and TNG-4857 Sample Components Dimeric assembly of CRBN + HBS1L in complex with TNG-4857 (region of focused refinement)
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 661458 Reported Resolution (Å) 2.6 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C2
Map-Model Fitting and Refinement Id 1 (5HXB) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target cross-correlation coefficent Overall B Value Fitting Procedure Details
Data Acquisition Detector Type FEI FALCON IV (4k x 4k) Electron Dose (electrons/Å**2) 48
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 1000 Maximum Defocus (nm) 2000 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification 130000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION RELION 5.0 IMAGE ACQUISITION RELION 5.0 MODEL FITTING PHENIX 1.20.1_4487 RECONSTRUCTION RELION 5.0 MODEL REFINEMENT PHENIX 1.20.1_4487
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 10420085