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Cryo-EM structure of the Sec complex from T. lanuginosus, wild-type, class with Sec62, plug-closed conformation
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 23.085 f_angle_d 0.504 f_chiral_restr 0.036 f_plane_restr 0.004 f_bond_d 0.003
Sample Endoplasmic reticulum protein-transport machinery Sec complex from T. lanuginosus
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 143227 Reported Resolution (Å) 3.8 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 (6k x 4k) Electron Dose (electrons/Å**2) 50
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TALOS ARCTICA Minimum Defocus (nm) Maximum Defocus (nm) Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode BRIGHT FIELD Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER Nominal Magnification Calibrated Magnification 43860 Source FIELD EMISSION GUN Acceleration Voltage (kV) 200 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION Warp 1.0.7 IMAGE ACQUISITION SerialEM 3.7 CTF CORRECTION Warp 1.0.7 CTF CORRECTION cryoSPARC 2.12 MODEL REFINEMENT PHENIX INITIAL EULER ASSIGNMENT cryoSPARC 2.12 FINAL EULER ASSIGNMENT cryoSPARC 2.12 RECONSTRUCTION cryoSPARC 2.12
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 1632659 autopicked particles