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Cryo-EM structure of KBTBD4 P313PRR mutant-HDAC2 2:2 complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7ZZT in silico model AlphaFold AF-Q9N010-F1
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 3.928 f_angle_d 0.774 f_chiral_restr 0.048 f_plane_restr 0.006 f_bond_d 0.004
Sample KBTBD4 R313PRR cancer mutant in complex with HDAC2 at 2:2 stoichiometry
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 295217 Reported Resolution (Å) 2.71 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C2
Map-Model Fitting and Refinement Id 1 (7ZZT) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value 107.7 Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 38.6
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 1000 Maximum Defocus (nm) 2800 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification 105000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version 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