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SARS-COV-2-6P-MUT7 S PROTEIN-DY-III-281 complex 1 RBD up conformation
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7RU1
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 6.949 f_angle_d 0.547 f_chiral_restr 0.045 f_plane_restr 0.004 f_bond_d 0.002
Sample SARS-COV-2-6P-MUT7 S PROTEIN in complex with DY-III-281
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument LEICA PLUNGER Cryogen Name ETHANE Sample Vitrification Details blotted for 5 s
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 214848 Reported Resolution (Å) 3.3 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (7RU1) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 54.2
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 500 Maximum Defocus (nm) 2700 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 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC IMAGE ACQUISITION SerialEM CTF CORRECTION cryoSPARC MODEL FITTING UCSF ChimeraX RECONSTRUCTION cryoSPARC 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