☰ Navigation Tabs
Cryo-EM structure of CAK with averaged inhibitor density
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8ORM
Refinement RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.913 r_dihedral_angle_4_deg 17.264 r_dihedral_angle_3_deg 14.417 r_long_range_B_refined 7.741 r_long_range_B_other 7.739 r_dihedral_angle_1_deg 5.638 r_scangle_other 4.892 r_mcangle_it 4.395 r_mcangle_other 4.394 r_scbond_it 3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.913 r_dihedral_angle_4_deg 17.264 r_dihedral_angle_3_deg 14.417 r_long_range_B_refined 7.741 r_long_range_B_other 7.739 r_dihedral_angle_1_deg 5.638 r_scangle_other 4.892 r_mcangle_it 4.395 r_mcangle_other 4.394 r_scbond_it 3 r_scbond_other 3 r_mcbond_it 2.949 r_mcbond_other 2.949 r_angle_refined_deg 1.347 r_angle_other_deg 1.203 r_chiral_restr 0.069 r_bond_other_d 0.031 r_bond_refined_d 0.007 r_gen_planes_refined 0.006 r_gen_planes_other 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Sample CDK-activating kinase
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 2060053 Reported Resolution (Å) 1.7 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 (8ORM) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type TFS FALCON 4i (4k x 4k) Electron Dose (electrons/Å**2) 70
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 400 Maximum Defocus (nm) 1900 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 Calibrated Magnification 245614 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC v3.3.1 IMAGE ACQUISITION EPU CTF CORRECTION RELION 4.0 beta CTF CORRECTION cryoSPARC v3.3.1 MODEL FITTING UCSF ChimeraX 1.2.5 MODEL REFINEMENT REFMAC 5.8.0267 INITIAL EULER ASSIGNMENT RELION 4.0 beta FINAL EULER ASSIGNMENT RELION 4.0 beta CLASSIFICATION RELION 4.0 beta RECONSTRUCTION RELION 4.0 beta
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION