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SARS-CoV-2 spike protein in complex with Fab 15033-7, 2-"up"-1-"down" conformation
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7KML
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 8.8849 f_angle_d 1.841 f_chiral_restr 0.0978 f_plane_restr 0.0194 f_bond_d 0.0186
Sample SARS-CoV-2 spike protein in complex with Fab 15033-7
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details blotting force = 1
blotting time = 2.5 s
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 32257 Reported Resolution (Å) 5 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (7KML) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type FEI FALCON IV (4k x 4k) Electron Dose (electrons/Å**2) 38.08
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 1000 Maximum Defocus (nm) 2200 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 75000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version IMAGE ACQUISITION EPU CTF CORRECTION Gctf MODEL FITTING UCSF Chimera RECONSTRUCTION cryoSPARC 2.15 MODEL REFINEMENT RosettaEM MODEL REFINEMENT PHENIX
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION