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13pf wildtype microtubule from recombinant human tubulin decorated with kinesin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6DPU
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 14.311 f_angle_d 0.563 f_chiral_restr 0.042 f_bond_d 0.005 f_plane_restr 0.004
Sample 13pf wildtype microtubule from recombinant human tubulin and decorated with kinesin
Specimen Preparation Sample Aggregation State HELICAL ARRAY Vitrification Instrument Cryogen Name ETHANE-PROPANE Sample Vitrification Details 30 second adsorption time onto grid. blot force 15, 4 second blot time, 37 degrees, and 100 percent humidity. 0.5 second drain time.
3D Reconstruction Reconstruction Method HELICAL Number of Particles 23364 Reported Resolution (Å) 3.6 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type HELICAL Axial Symmetry C1 Axial Rise 81.69 Angular Rotation -0.09
Map-Model Fitting and Refinement Id 1 (6DPU) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Correlation Coefficient Overall B Value 115 Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 40
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 700 Maximum Defocus (nm) 2400 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.6 Imaging Mode BRIGHT FIELD Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER Nominal Magnification 64000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version IMAGE ACQUISITION SerialEM CTF CORRECTION CTFFIND 4 CTF CORRECTION RELION 3.1 MODEL FITTING PHENIX dev-2883 MODEL REFINEMENT PHENIX dev-2883 INITIAL EULER ASSIGNMENT RELION 3.1 FINAL EULER ASSIGNMENT FREALIGN 9.11 CLASSIFICATION RELION 3.1 RECONSTRUCTION FREALIGN 9.11
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION CTFFind4 and CTFRefine were used within the RELION3.1 framework. Microtubules were picked within RELION 3.1 helical picking functionality and extracted along the filament with an 82A sliding box.