9M5R | pdb_00009m5r

ES-type (short pitch) amyloid fibril (40) of Tottori (D7N) mutant

ELECTRON MICROSCOPY

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Refinement

RMS Deviations
Key	Refinement Restraint Deviation
s_dihedral_angle_6_deg	11.9248
s_dihedral_angle_3_deg	10.3724
s_dihedral_angle_1_deg	6.3267
s_angle_nonh_deg	0.8486
s_nbtor	0.2096
s_nbd	0.1909
s_dihedral_angle_2_deg	0.1395
s_hbond_nbd	0.0287
s_chiral_restr	0.028
s_bond_nonh_d	0.0035
s_planes	0.002

Sample
V'-shaped short pitch amyloid fiber (40) of Tottori (D7N) mutant

Specimen Preparation
Sample Aggregation State	HELICAL ARRAY
Vitrification Instrument
Cryogen Name	ETHANE
Sample Vitrification Details

3D Reconstruction
Reconstruction Method	HELICAL
Number of Particles	40424
Reported Resolution (Å)	3.6
Resolution Method	FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type	HELICAL
Axial Symmetry	C1
Axial Rise	2.38205
Angular Rotation	177.573

Map-Model Fitting and Refinement
Id	1
Refinement Space
Refinement Protocol
Refinement Target
Overall B Value
Fitting Procedure
Details

Data Acquisition
Detector Type	GATAN K3 BIOQUANTUM (6k x 4k)
Electron Dose (electrons/Å**2)	50

Imaging Experiment	1
Date of Experiment
Temperature (Kelvin)
Microscope Model	TFS KRIOS
Minimum Defocus (nm)	800
Maximum Defocus (nm)	1200
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS	0.021
Imaging Mode	BRIGHT FIELD
Specimen Holder Model
Nominal Magnification
Calibrated Magnification
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	300
Imaging Details

Image Processing
CTF Correction Type	CTF Correction Details	Number of Particles Selected	Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION