8BG9 | pdb_00008bg9

Murine amyloid-beta filaments with the Arctic mutation (E22G) from APP(NL-G-F) mouse brains | ABeta


ELECTRON MICROSCOPY

Refinement

RMS Deviations
KeyRefinement Restraint Deviation
r_long_range_B_refined19.356
r_long_range_B_other19.342
r_dihedral_angle_3_deg16.894
r_mcangle_it12.734
r_mcangle_other12.728
r_scangle_other12.613
r_dihedral_angle_1_deg8.366
r_mcbond_other7.948
r_mcbond_it7.941
r_scbond_it7.268
RMS Deviations
KeyRefinement Restraint Deviation
r_long_range_B_refined19.356
r_long_range_B_other19.342
r_dihedral_angle_3_deg16.894
r_mcangle_it12.734
r_mcangle_other12.728
r_scangle_other12.613
r_dihedral_angle_1_deg8.366
r_mcbond_other7.948
r_mcbond_it7.941
r_scbond_it7.268
r_scbond_other7.256
r_dihedral_angle_2_deg3.51
r_angle_refined_deg1.243
r_angle_other_deg0.525
r_chiral_restr0.062
r_bond_refined_d0.005
r_gen_planes_refined0.005
r_gen_planes_other0.003
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
Amyloid-beta filaments extracted from the mouse brains with APP NL-G-F mutations
Specimen Preparation
Sample Aggregation StateFILAMENT
Vitrification Instrument
Cryogen NameETHANE
Sample Vitrification Details
3D Reconstruction
Reconstruction MethodHELICAL
Number of Particles39823
Reported Resolution (Å)3.5
Resolution MethodFSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry TypeHELICAL
Axial SymmetryC1
Axial Rise2.46009
Angular Rotation179.347
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)40
Imaging Experiment1
Date of Experiment
Temperature (Kelvin)
Microscope ModelFEI TITAN KRIOS
Minimum Defocus (nm)1000
Maximum Defocus (nm)2600
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
PARTICLE SELECTIONRELION
IMAGE ACQUISITIONEPU
CTF CORRECTIONRELION
MODEL FITTINGCoot
MODEL REFINEMENTREFMAC
INITIAL EULER ASSIGNMENTRELION
FINAL EULER ASSIGNMENTRELION
CLASSIFICATIONRELION
RECONSTRUCTIONRELION
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION