7SN3
Structure of human SARS-CoV-2 spike glycoprotein trimer bound by neutralizing antibody C1C-A3 Fab (variable region)
ELECTRON MICROSCOPY
Refinement
| RMS Deviations | |
|---|---|
| Key | Refinement Restraint Deviation |
| f_dihedral_angle_d | 8.362 |
| f_angle_d | 1.083 |
| f_chiral_restr | 0.066 |
| f_plane_restr | 0.012 |
| f_bond_d | 0.009 |
| Sample |
|---|
| SARS-CoV-2 spike protein trimer in complex with human patient antibody C1C-A3 Fab |
| Sample Components |
| SARS-CoV-2 spike protein |
| C1C-A3 Fab (variable region) |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | PARTICLE |
| Vitrification Instrument | FEI VITROBOT MARK IV |
| Cryogen Name | ETHANE |
| Sample Vitrification Details | blotting time 4-6 seconds |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | SINGLE PARTICLE |
| Number of Particles | 344920 |
| Reported Resolution (Å) | 3.1 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | |
| Refinement Type | |
| Symmetry Type | POINT |
| Point Symmetry | C1 |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 | ||||
| Refinement Space | REAL | ||||
| Refinement Protocol | OTHER | ||||
| Refinement Target | correlation coefficient | ||||
| Overall B Value | 77.28 | ||||
| Fitting Procedure | |||||
| Details | |||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | GATAN K3 BIOQUANTUM (6k x 4k) | ||||||||
| Electron Dose (electrons/Å**2) | 56.6 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | |
| Temperature (Kelvin) | |
| Microscope Model | FEI TITAN KRIOS |
| Minimum Defocus (nm) | 1000 |
| Maximum Defocus (nm) | 2500 |
| 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 | 105000 |
| Calibrated Magnification | 60606 |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 300 |
| Imaging Details | Cs-corrected, energy filtered |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| PARTICLE SELECTION | crYOLO | 1.7.6 |
| IMAGE ACQUISITION | SerialEM | 3.8 |
| CTF CORRECTION | CTFFIND | 4.1 |
| MODEL FITTING | UCSF Chimera | 1.13.1 |
| MODEL REFINEMENT | PHENIX | 1.19-4080 |
| INITIAL EULER ASSIGNMENT | RELION | 3.1.2 |
| FINAL EULER ASSIGNMENT | cryoSPARC | 2.14.2 |
| CLASSIFICATION | cryoSPARC | 2.14.2 |
| RECONSTRUCTION | cryoSPARC | 2.14.2 |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| NONE | 1296929 | |||
