9TKA | pdb_00009tka

Structure of human CLN8 in the presence of oleate

ELECTRON MICROSCOPY

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Refinement

RMS Deviations
Key	Refinement Restraint Deviation
s_dihedral_angle_6_deg	13.9834
s_dihedral_angle_3_deg	11.8424
s_dihedral_angle_1_deg	5.5085
s_dihedral_angle_2_deg	1.9144
s_angle_nonh_deg	0.9602
s_nbtor	0.2694
s_symmetry_nbd	0.234
s_nbd	0.1792
s_hbond_nbd	0.0841
s_chiral_restr	0.0736
s_symmetry_hbond_nbd	0.0134
s_planes	0.0034
s_bond_nonh_d	0.0023

Sample
CLN8 dimer

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument
Cryogen Name	ETHANE
Sample Vitrification Details

3D Reconstruction
Reconstruction Method	SINGLE PARTICLE
Number of Particles	247856
Reported Resolution (Å)	2.7
Resolution Method	FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type	POINT

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)	51.05

Imaging Experiment	1
Date of Experiment
Temperature (Kelvin)
Microscope Model	TFS KRIOS
Minimum Defocus (nm)	600
Maximum Defocus (nm)	1800
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	Warp
IMAGE ACQUISITION	EPU
CTF CORRECTION	Warp
INITIAL EULER ASSIGNMENT	cryoSPARC
RECONSTRUCTION	cryoSPARC

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