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Type I amyloid-beta 42 filaments from high-spin supernatants of aqueous extracts from Alzheimer's disease brains | ABeta42
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7Q4B
Refinement RMS Deviations Key Refinement Restraint Deviation r_lrange_other 22.036 r_lrange_it 21.682 r_dihedral_angle_6_deg 16.392 r_scangle_it 16.304 r_scangle_other 16.258 r_mcangle_other 12.521 r_dihedral_angle_3_deg 12.204 r_mcangle_it 12.154 r_scbond_it 9.681 r_scbond_other 9.642
RMS Deviations Key Refinement Restraint Deviation r_lrange_other 22.036 r_lrange_it 21.682 r_dihedral_angle_6_deg 16.392 r_scangle_it 16.304 r_scangle_other 16.258 r_mcangle_other 12.521 r_dihedral_angle_3_deg 12.204 r_mcangle_it 12.154 r_scbond_it 9.681 r_scbond_other 9.642 r_dihedral_angle_1_deg 8.203 r_mcbond_it 8.158 r_mcbond_other 8.099 r_angle_refined_deg 1.363 r_angle_other_deg 0.516 r_nbd_other 0.203 r_nbd_refined 0.188 r_symmetry_nbd_other 0.183 r_nbtor_refined 0.17 r_symmetry_nbd_refined 0.113 r_symmetry_nbtor_other 0.077 r_chiral_restr 0.073 r_xyhbond_nbd_refined 0.067 r_bond_refined_d 0.008 r_gen_planes_refined 0.007 r_gen_planes_other 0.001 r_bond_other_d
Sample Type I amyloid-beta 42 filaments in soluble high-molecular weight aggregate fractions extracted from Alzheimer's disease brain
Specimen Preparation Sample Aggregation State FILAMENT Vitrification Instrument Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method HELICAL Number of Particles 37380 Reported Resolution (Å) 2.9 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type HELICAL Axial Symmetry C1 Axial Rise 2.4 Angular Rotation 178.4
Map-Model Fitting and Refinement Id 1 (7Q4B) Refinement Space Refinement Protocol Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 40
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 1000 Maximum Defocus (nm) 2400 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 MODEL FITTING Coot RECONSTRUCTION RELION MODEL REFINEMENT REFMAC
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION