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mouse TMEM63b in LMNG-CHS micelle
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold Q3TWI9
Refinement RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 43.445 r_long_range_B_other 43.444 r_mcangle_it 27.544 r_mcangle_other 27.543 r_scangle_other 25.959 r_dihedral_angle_2_deg 18.132 r_mcbond_it 17 r_mcbond_other 16.996 r_dihedral_angle_3_deg 16.074 r_scbond_it 15.663
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 43.445 r_long_range_B_other 43.444 r_mcangle_it 27.544 r_mcangle_other 27.543 r_scangle_other 25.959 r_dihedral_angle_2_deg 18.132 r_mcbond_it 17 r_mcbond_other 16.996 r_dihedral_angle_3_deg 16.074 r_scbond_it 15.663 r_scbond_other 15.661 r_dihedral_angle_1_deg 7.834 r_angle_refined_deg 1.53 r_angle_other_deg 0.512 r_chiral_restr 0.082 r_gen_planes_refined 0.007 r_bond_refined_d 0.006 r_gen_planes_other 0.001 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
Specimen Preparation Sample Aggregation State 2D ARRAY Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 110878 Reported Resolution (Å) 3.4 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
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 FEI TITAN KRIOS Minimum Defocus (nm) 800 Maximum Defocus (nm) 1600 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification 105000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 4.2.1 IMAGE ACQUISITION EPU CTF CORRECTION cryoSPARC 4.2.1 MODEL FITTING Coot 0.9.9.8 MODEL FITTING ISOLDE 1.4.3 INITIAL EULER ASSIGNMENT cryoSPARC 4.2.1 FINAL EULER ASSIGNMENT cryoSPARC 4.2.1 CLASSIFICATION cryoSPARC 4.2.1 RECONSTRUCTION cryoSPARC 4.2.1 MODEL REFINEMENT Servalcat 0.2.24
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING ONLY