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Sla2 C-terminal region (Residues 560-968) (REND and THATCH domains)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold AF-P33338-F1
Refinement RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 74.709 r_long_range_B_other 74.708 r_mcangle_it 51.26 r_mcangle_other 51.255 r_scangle_other 49.306 r_mcbond_it 34.128 r_mcbond_other 34.128 r_scbond_other 31.001 r_scbond_it 31 r_dihedral_angle_3_deg 13.603
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 74.709 r_long_range_B_other 74.708 r_mcangle_it 51.26 r_mcangle_other 51.255 r_scangle_other 49.306 r_mcbond_it 34.128 r_mcbond_other 34.128 r_scbond_other 31.001 r_scbond_it 31 r_dihedral_angle_3_deg 13.603 r_dihedral_angle_1_deg 8.046 r_dihedral_angle_2_deg 3.292 r_angle_refined_deg 1.847 r_angle_other_deg 0.621 r_chiral_restr 0.085 r_bond_refined_d 0.009 r_gen_planes_refined 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
Sample ScSla2 residues 351-968
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE-PROPANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 249299 Reported Resolution (Å) 3.62 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 CC Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 45
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS 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 120000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 4 IMAGE ACQUISITION EPU CTF CORRECTION CTFFIND 4.1 MODEL FITTING ISOLDE MODEL FITTING UCSF ChimeraX MODEL REFINEMENT PHENIX INITIAL EULER ASSIGNMENT cryoSPARC 4 FINAL EULER ASSIGNMENT cryoSPARC 4 CLASSIFICATION cryoSPARC 4 RECONSTRUCTION cryoSPARC 4
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION