8CGH

Structure of TDP-43 amyloid filament from type A FTLD-TDP (variant 3)


ELECTRON MICROSCOPY

Refinement

RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg14.603
r_long_range_B_other11.327
r_long_range_B_refined11.223
r_scangle_other8.361
r_dihedral_angle_1_deg8.183
r_mcangle_other6.103
r_mcangle_it6.071
r_scbond_it5.196
r_scbond_other5.161
r_dihedral_angle_2_deg4.144
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg14.603
r_long_range_B_other11.327
r_long_range_B_refined11.223
r_scangle_other8.361
r_dihedral_angle_1_deg8.183
r_mcangle_other6.103
r_mcangle_it6.071
r_scbond_it5.196
r_scbond_other5.161
r_dihedral_angle_2_deg4.144
r_mcbond_it3.709
r_mcbond_other3.655
r_angle_refined_deg1.47
r_angle_other_deg0.482
r_chiral_restr0.066
r_bond_refined_d0.007
r_gen_planes_refined0.005
r_gen_planes_other0.001
r_bond_other_d
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
TDP-43 amyloid filaments extracted from the frontal cortex of an individual with type A FTLD-TDP
Specimen Preparation
Sample Aggregation StateFILAMENT
Vitrification Instrument
Cryogen NameETHANE
Sample Vitrification Details
3D Reconstruction
Reconstruction MethodHELICAL
Number of Particles16260
Reported Resolution (Å)2.68
Resolution MethodFSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry TypeHELICAL
Axial SymmetryC1
Axial Rise4.98
Angular Rotation1.248
Map-Model Fitting and Refinement
Id1
Refinement Space
Refinement Protocol
Refinement Target
Overall B Value
Fitting Procedure
Details
Data Acquisition
Detector TypeGATAN K3 (6k x 4k)
Electron Dose (electrons/Å**2)35.896
Imaging Experiment1
Date of Experiment
Temperature (Kelvin)
Microscope ModelFEI TITAN KRIOS
Minimum Defocus (nm)1000
Maximum Defocus (nm)2200
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS
Imaging ModeBRIGHT FIELD
Specimen Holder Model
Nominal Magnification
Calibrated Magnification
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)300
Imaging Details
EM Software
TaskSoftware PackageVersion
IMAGE ACQUISITIONEPU
RECONSTRUCTIONRELION4.0
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION