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The mTORC1 cholesterol sensor LYCHOS (GPR155)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold Q7Z3F1
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 12.376 f_angle_d 0.79 f_chiral_restr 0.053 f_plane_restr 0.006 f_bond_d 0.005
Sample Homodimeric complex of LYCHOS (GPR155)
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 85794 Reported Resolution (Å) 2.65 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C2
Map-Model Fitting and Refinement Id 1 Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 60
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 500 Maximum Defocus (nm) 2000 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode BRIGHT FIELD Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER Nominal Magnification 105000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION Topaz IMAGE ACQUISITION EPU 2.12.1.2782 CTF CORRECTION cryoSPARC 4.1.1 MODEL FITTING ISOLDE 1.1.0 MODEL FITTING Coot 0.9.2 MODEL REFINEMENT PHENIX 1.20.1 INITIAL EULER ASSIGNMENT cryoSPARC 4.1.1 FINAL EULER ASSIGNMENT cryoSPARC 4.1.1 CLASSIFICATION cryoSPARC 4.1.1 RECONSTRUCTION cryoSPARC 4.1.1
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 2892753