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Cryo-EM structure of the human Sec61 complex in a partially-open apo state (Class 1)
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 11.8105 f_angle_d 0.5927 f_chiral_restr 0.0385 f_plane_restr 0.0051 f_bond_d 0.0038
Sample A human-yeast chimeric Sec complex
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details blot for 4 seconds before plunging
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 188637 Reported Resolution (Å) 3.03 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 FLEXIBLE FIT 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 TITAN KRIOS Minimum Defocus (nm) 800 Maximum Defocus (nm) 1600 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 81000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION Warp 1.0.9 IMAGE ACQUISITION SerialEM CTF CORRECTION Warp 1.0.9 CTF CORRECTION cryoSPARC 3.3 MODEL FITTING Coot 0.9.8 MODEL REFINEMENT PHENIX 1.19 INITIAL EULER ASSIGNMENT cryoSPARC 3.3 FINAL EULER ASSIGNMENT cryoSPARC 3.3 RECONSTRUCTION cryoSPARC 3.3
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 616121