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Mouse otoferlin (216-1931) in the lipid-free Ca2+-bound state, "open" conformation (class 1)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other 9QE2
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 6.2395 f_angle_d 0.9147 f_chiral_restr 0.0523 f_plane_restr 0.0074 f_bond_d 0.0044
Sample Lipid-free mouse otoferlin (216-1931) in the Ca2+-bound state, "open" conformation (class 1)
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 189916 Reported Resolution (Å) 2.91 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 REAL Refinement Protocol OTHER Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type FEI FALCON IV (4k x 4k) Electron Dose (electrons/Å**2) 38.13
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 1100 Maximum Defocus (nm) 2300 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 165000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC v.4.7 IMAGE ACQUISITION EPU v.3.6 CTF CORRECTION cryoSPARC v.4.7 MODEL FITTING UCSF ChimeraX v.1.8 INITIAL EULER ASSIGNMENT cryoSPARC v.4.7 FINAL EULER ASSIGNMENT cryoSPARC v.4.7 CLASSIFICATION cryoSPARC v.4.7 RECONSTRUCTION cryoSPARC v.4.7 MODEL REFINEMENT PHENIX 1.21.2_5419
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 5201261