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Amyloid-beta (1-40) fibrils derived from a CAA patient
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6SHS
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 10.634 f_angle_d 0.41 f_chiral_restr 0.044 f_bond_d 0.005 f_plane_restr 0.002
Sample Fibrillar assembly of human Amyloid-beta 1-40 derived from vascular deposits in a cerebral amyloid angiopathy patient
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 59075 Reported Resolution (Å) 2.87 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type HELICAL Axial Symmetry C1 Axial Rise 2.44 Angular Rotation -178.83
Map-Model Fitting and Refinement Id 1 (6SHS) Refinement Space REAL Refinement Protocol AB INITIO MODEL Refinement Target Overall B Value 31.1 Fitting Procedure Details
Data Acquisition Detector Type FEI FALCON III (4k x 4k) Electron Dose (electrons/Å**2) 49.7
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TALOS ARCTICA Minimum Defocus (nm) 800 Maximum Defocus (nm) 1400 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification 92000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 200 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION RELION 3.1.1 IMAGE ACQUISITION EPU CTF CORRECTION Gctf 1.06 CTF CORRECTION RELION 3.1.1 MODEL FITTING Coot MODEL REFINEMENT PHENIX 1.19.1 MODEL REFINEMENT ISOLDE 1.4 INITIAL EULER ASSIGNMENT RELION 3.1.1 FINAL EULER ASSIGNMENT RELION 3.1.1 CLASSIFICATION RELION 3.1.1 RECONSTRUCTION RELION 3.1.1
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION Per-micrograph correction via Gctf.
Aberration, magnification, and per-particle corrections via RELION. 68357 Manual helical picking and extraction