9THM | pdb_00009thm

TAF15 amyloid filament fold B variant 1

ELECTRON MICROSCOPY

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model

Refinement

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	13.28
r_dihedral_angle_3_deg	11.099
r_lrange_other	6.547
r_lrange_it	6.528
r_dihedral_angle_1_deg	6.397
r_scangle_other	4.882
r_scangle_it	4.874
r_mcangle_it	3.244
r_mcangle_other	3.244
r_scbond_it	2.898
r_scbond_other	2.861
r_mcbond_it	1.87
r_mcbond_other	1.868
r_angle_refined_deg	1.017
r_angle_other_deg	0.376
r_nbd_other	0.214
r_symmetry_nbd_other	0.199
r_nbd_refined	0.196
r_nbtor_refined	0.189
r_symmetry_xyhbond_nbd_refined	0.124
r_symmetry_nbd_refined	0.114
r_symmetry_nbtor_other	0.077
r_xyhbond_nbd_refined	0.074
r_chiral_restr	0.058
r_gen_planes_refined	0.004
r_bond_refined_d	0.003
r_gen_planes_other	0.001
r_bond_other_d

Sample
TATA-binding protein-associated factor 2N

Specimen Preparation
Sample Aggregation State	FILAMENT
Vitrification Instrument	FEI VITROBOT MARK IV
Cryogen Name	ETHANE
Sample Vitrification Details

3D Reconstruction
Reconstruction Method	HELICAL
Number of Particles	266924
Reported Resolution (Å)	1.64
Resolution Method	FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type	HELICAL
Axial Symmetry	C1
Axial Rise	4.8
Angular Rotation	-1.94558

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

Data Acquisition
Detector Type	TFS FALCON 4i (4k x 4k)
Electron Dose (electrons/Å**2)	40

Imaging Experiment	1
Date of Experiment
Temperature (Kelvin)
Microscope Model	TFS KRIOS
Minimum Defocus (nm)	300
Maximum Defocus (nm)	1300
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
PARTICLE SELECTION	RELION	5.0.1
RECONSTRUCTION	RELION	5

Image Processing
CTF Correction Type	CTF Correction Details	Number of Particles Selected	Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION		850270