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Cryo-EM structure of amyloid fibril extracted from the heart of a variant ATTR D38A amyloidosis patient
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8E7D
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 5.997 f_angle_d 0.749 f_chiral_restr 0.05 f_plane_restr 0.007 f_bond_d 0.003
Sample Amyloid fibrils of transthyretin
Specimen Preparation Sample Aggregation State FILAMENT Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method HELICAL Number of Particles 36014 Reported Resolution (Å) 3.6 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type HELICAL Axial Symmetry C1 Axial Rise 4.74 Angular Rotation -1.25
Map-Model Fitting and Refinement Id 1 (8E7D) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 50
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 1500 Maximum Defocus (nm) 2100 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION RELION 4.0 IMAGE ACQUISITION SerialEM CTF CORRECTION RELION 4.0 MODEL FITTING Coot 0.981 INITIAL EULER ASSIGNMENT RELION 4.0 CLASSIFICATION RELION 4.0 RECONSTRUCTION RELION 4.0 MODEL REFINEMENT PHENIX 1.20.1_4487
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details NONE 46577