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In situ microtubule structure in the axon of a human neuron
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8V4K
Sample Axonal alpha1A and betaIIB microtubule
Specimen Preparation Sample Aggregation State FILAMENT Vitrification Instrument FEI VITROBOT MARK II Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method HELICAL Number of Particles 1887666 Reported Resolution (Å) 2.69 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type HELICAL Axial Symmetry C1 Axial Rise 9.60742 Angular Rotation -27.6723
Map-Model Fitting and Refinement Id 1 (8v4k) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target cross-correlation Overall B Value 69 Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 56.57
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 1200 Maximum Defocus (nm) 2500 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 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 PARTICLE SELECTION cryoSPARC 4 IMAGE ACQUISITION SerialEM CTF CORRECTION cryoSPARC 4 MODEL FITTING ISOLDE 1.6 MODEL FITTING Coot 0.9.8.91 INITIAL EULER ASSIGNMENT cryoSPARC 4 FINAL EULER ASSIGNMENT cryoSPARC 4 RECONSTRUCTION cryoSPARC 4 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 288841