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Type II 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 7Q4M
Refinement RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 32.991 r_long_range_B_other 32.944 r_scangle_other 25.021 r_mcangle_it 20.241 r_mcangle_other 20.236 r_dihedral_angle_3_deg 16.574 r_scbond_it 14.675 r_scbond_other 14.607 r_mcbond_it 13.754 r_mcbond_other 13.724
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 32.991 r_long_range_B_other 32.944 r_scangle_other 25.021 r_mcangle_it 20.241 r_mcangle_other 20.236 r_dihedral_angle_3_deg 16.574 r_scbond_it 14.675 r_scbond_other 14.607 r_mcbond_it 13.754 r_mcbond_other 13.724 r_dihedral_angle_1_deg 10.268 r_angle_refined_deg 1.843 r_angle_other_deg 0.767 r_chiral_restr 0.083 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 r_gen_planes_other 0.003 r_bond_other_d 0.001 r_dihedral_angle_2_deg r_dihedral_angle_4_deg r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Sample Type II 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 14740 Reported Resolution (Å) 3.7 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type HELICAL Axial Symmetry C2 Axial Rise 4.8 Angular Rotation -2.8
Map-Model Fitting and Refinement Id 1 (7Q4M) 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