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XMAP215 TOG5 interaction with GMPCPP tubulin lattice
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold experimental model PDB 6DPU
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 6.05 f_angle_d 0.843 f_chiral_restr 0.055 f_plane_restr 0.007 f_bond_d 0.005
Sample XMAP215 TOG5 and bovine alpha-beta tubulin
Specimen Preparation Sample Aggregation State FILAMENT Vitrification Instrument LEICA EM GP Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method HELICAL Number of Particles 334570 Reported Resolution (Å) 2.89 Resolution Method FSC 0.143 CUT-OFF Other Details Symmetry expansion was used based on microtubule pseudo-helical symmetry. Refinement Type Symmetry Type HELICAL Axial Symmetry C1 Axial Rise 9.012 Angular Rotation -25.75
Map-Model Fitting and Refinement Id 1 (6DPU, 6DPU, 6DPU, 6DPU) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 15
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 2000 Maximum Defocus (nm) 3500 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 0.1 Imaging Mode BRIGHT FIELD Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER Nominal Magnification 105000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version IMAGE ACQUISITION EPU 2.12.1.2782REL CTF CORRECTION cryoSPARC 3.3.2 MODEL FITTING Coot 0.8.9.2 MODEL REFINEMENT PHENIX 1.21-5207-000 INITIAL EULER ASSIGNMENT cryoSPARC 3.3.2 FINAL EULER ASSIGNMENT cryoSPARC 3.3.2 CLASSIFICATION cryoSPARC 3.3.2 RECONSTRUCTION cryoSPARC 3.3.2
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION