☰ Navigation Tabs
SARS CoV-2 full-length spike protein with Lys1269Ala and His1271Ala substitutions in the coatomer binding motif, 2RBD-up conformation (SPIKE-AXA)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7KRQ
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 9.6722 f_angle_d 0.6653 f_chiral_restr 0.047 f_plane_restr 0.004 f_bond_d 0.003
Sample SARS CoV-2 full-length spike with Lys1269Ala and His1271Ala substitutions in the coatomer binding motif
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 59137 Reported Resolution (Å) 4.15 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 (7KRQ) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type TFS FALCON 4i (4k x 4k) Electron Dose (electrons/Å**2) 42.19
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 800 Maximum Defocus (nm) 2000 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification Calibrated Magnification 105000 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC CTF CORRECTION cryoSPARC MODEL FITTING UCSF Chimera MODEL REFINEMENT PHENIX 1.20.1.4487-000 MODEL REFINEMENT Coot INITIAL EULER ASSIGNMENT cryoSPARC CLASSIFICATION cryoSPARC RECONSTRUCTION cryoSPARC V4.4.1
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION