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Structure of CDK11-cyclin L-SAP30BP in complex with IACS-054647
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 9QKT
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 6.914 f_angle_d 0.601 f_chiral_restr 0.046 f_bond_d 0.006 f_plane_restr 0.005
Sample CDK11-cyclin L-SAP30BP bound by IACS-054647
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 363221 Reported Resolution (Å) 2.9 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (9QKT) 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) 60
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS GLACIOS Minimum Defocus (nm) 500 Maximum Defocus (nm) 1800 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 165000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 200 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 5.0.6 IMAGE ACQUISITION EPU 3.8.1 CTF CORRECTION cryoSPARC 5.0.6 CTF CORRECTION RELION 5.0.1 MODEL FITTING UCSF ChimeraX 1.10 MODEL FITTING Coot 0.9.6 MODEL REFINEMENT PHENIX 1.21.2_5419 INITIAL EULER ASSIGNMENT cryoSPARC 5.0.6 FINAL EULER ASSIGNMENT RELION 5.0.1 CLASSIFICATION RELION 5.0.1 RECONSTRUCTION RELION 5.0.1
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 7674974 Three independent picking methods employed; each method picked approx. 5-8 million particles; figure above is the greatest number picked by any of the three methods.