6YOR
Structure of the SARS-CoV-2 spike S1 protein in complex with CR3022 Fab
ELECTRON MICROSCOPY
Refinement
| RMS Deviations | |
|---|---|
| Key | Refinement Restraint Deviation |
| f_dihedral_angle_d | 17.164 |
| f_angle_d | 0.515 |
| f_chiral_restr | 0.044 |
| f_plane_restr | 0.004 |
| f_bond_d | 0.002 |
| Sample |
|---|
| Binary complex of SARS-CoV-2 spike S1 with CR3022 Fab |
| Sample Components |
| RBD |
| Immunoblobulin heavy chain |
| Immunoblobulin light chain |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | PARTICLE |
| Vitrification Instrument | |
| Cryogen Name | ETHANE |
| Sample Vitrification Details | |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | SINGLE PARTICLE |
| Number of Particles | 327945 |
| Reported Resolution (Å) | 3.3 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | |
| Refinement Type | |
| Symmetry Type | POINT |
| Number of Particles | 100295 |
| Reported Resolution (Å) | 3.9 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | |
| Refinement Type | |
| Symmetry Type | POINT |
| Point Symmetry | C1 |
| Point Symmetry | C1 |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 | ||||
| Refinement Space | |||||
| Refinement Protocol | |||||
| Refinement Target | |||||
| Overall B Value | |||||
| Fitting Procedure | |||||
| Details | |||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | GATAN K3 (6k x 4k) | ||||||||
| Electron Dose (electrons/Å**2) | 42 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | |
| Temperature (Kelvin) | |
| Microscope Model | FEI TITAN KRIOS |
| Minimum Defocus (nm) | |
| Maximum Defocus (nm) | |
| Minimum Tilt Angle (degrees) | |
| Maximum Tilt Angle (degrees) | |
| Nominal CS | |
| Imaging Mode | BRIGHT FIELD |
| Specimen Holder Model | |
| Nominal Magnification | |
| Calibrated Magnification | |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 300 |
| Imaging Details |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| PARTICLE SELECTION | cryoSPARC | 2.14.1-live |
| CTF CORRECTION | Gctf | 1.06 |
| INITIAL EULER ASSIGNMENT | cryoSPARC | 2.14.1-live |
| CLASSIFICATION | cryoSPARC | 2.14.1-live |
| RECONSTRUCTION | RELION | 3.1 |
| PARTICLE SELECTION | cryoSPARC | 2.14.1-live |
| CTF CORRECTION | Gctf | |
| INITIAL EULER ASSIGNMENT | cryoSPARC | 2.14.1-live |
| FINAL EULER ASSIGNMENT | cryoSPARC | 2.14.1-live |
| CLASSIFICATION | cryoSPARC | 2.14.1-live |
| RECONSTRUCTION | cryoSPARC | 2.14.1-live |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| PHASE FLIPPING AND AMPLITUDE CORRECTION | Default settings in Gctf. | 4852523 | Initial from template generated with subset of data. | |
| PHASE FLIPPING AND AMPLITUDE CORRECTION | 4852523 | |||
