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SARS-CoV-2 Spike (2P) in complex with C12C9 Fab (NTD local reconstruction)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7C2L experimental model PDB 5GGU experimental model PDB 6GHG
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 14.279 f_angle_d 0.7972 f_chiral_restr 0.0527 f_plane_restr 0.0064 f_bond_d 0.0062
Sample SARS-CoV-2 Spike in complex with 12-C9 Fab
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument GATAN CRYOPLUNGE 3 Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 147461 Reported Resolution (Å) 4 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (7C2L, 5GGU, 6GHG) Refinement Space REAL Refinement Protocol Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 54.97
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) -1200 Maximum Defocus (nm) -2500 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification 105000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION crYOLO IMAGE ACQUISITION SerialEM CTF CORRECTION CTFFIND 4.1 MODEL FITTING Coot 0.8.6.1 INITIAL EULER ASSIGNMENT RELION 3.1 FINAL EULER ASSIGNMENT RELION 3.1 CLASSIFICATION RELION 3.1 RECONSTRUCTION RELION 3.1 MODEL REFINEMENT PHENIX 1.18.2-3874
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 2842883