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SD1-2 Fab in complex with SARS-CoV-2 BA.2.12.1 Spike Glycoprotein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8CIM
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 5.066 f_angle_d 0.849 f_chiral_restr 0.045 f_bond_d 0.008 f_plane_restr 0.005
Sample SD1-2 fab in complex with SARS-COV-2 BA.2.12.1 Spike Glycoprotein Sample Components SD1-2 fab BA.2.12.1 Spike Glycoprotein Ectodomain
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 503734 Reported Resolution (Å) 2.2 Resolution Method FSC 0.143 CUT-OFF Other Details Estimation determined by cryoSPARC. Refinement Type Symmetry Type POINT Point Symmetry C3
Map-Model Fitting and Refinement Id 1 (8CIM) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value 68 Fitting Procedure Details
Data Acquisition Detector Type FEI FALCON IV (4k 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) 2600 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 Calibrated Magnification 165000 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC IMAGE ACQUISITION EPU CTF CORRECTION cryoSPARC MODEL FITTING Coot INITIAL EULER ASSIGNMENT cryoSPARC FINAL EULER ASSIGNMENT cryoSPARC CLASSIFICATION cryoSPARC RECONSTRUCTION cryoSPARC MODEL REFINEMENT PHENIX
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION Patch CTF and Motion correction, on-the-fly. 764482 Blob picker in cryoSPARC live interface.