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Characterization of the SARS-CoV-2 S Protein: Biophysical, Biochemical, Structural, and Antigenic Analysis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6VXX
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 13.3833 f_angle_d 1.0184 f_chiral_restr 0.0633 f_bond_d 0.0119 f_plane_restr 0.006
Sample Severe acute respiratory syndrome coronavirus 2
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument LEICA EM GP Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 54395 Reported Resolution (Å) 3.22 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C3
Map-Model Fitting and Refinement Id 1 (6VXX) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target CC Overall B Value 120 Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 66.5
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 800 Maximum Defocus (nm) 2500 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 2.14.2 IMAGE ACQUISITION RELION CTF CORRECTION cryoSPARC 2.14.2 MODEL FITTING Coot 0.8.9.2 MODEL REFINEMENT PHENIX 1.18-3845 INITIAL EULER ASSIGNMENT cryoSPARC 2.14.2 FINAL EULER ASSIGNMENT cryoSPARC 2.14.2 CLASSIFICATION cryoSPARC 2.14.2 RECONSTRUCTION cryoSPARC 2.14.2
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 75582