8YB7
SARS-CoV-2 DMV nsp3-4 pore complex (consensus-pore, C3 symmetry)
ELECTRON MICROSCOPY
Refinement
| RMS Deviations | |
|---|---|
| Key | Refinement Restraint Deviation |
| f_dihedral_angle_d | 9.3388 |
| f_angle_d | 0.4703 |
| f_chiral_restr | 0.0379 |
| f_plane_restr | 0.0036 |
| f_bond_d | 0.0015 |
| Sample |
|---|
| SARS-CoV-2 nsp3-4 pore complex |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | PARTICLE |
| Vitrification Instrument | FEI VITROBOT MARK IV |
| Cryogen Name | ETHANE |
| Sample Vitrification Details | |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | SUBTOMOGRAM AVERAGING |
| Number of Particles | 113163 |
| Reported Resolution (Å) | 4.6 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | |
| Refinement Type | |
| Symmetry Type | POINT |
| Point Symmetry | C3 |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 | ||||
| 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) | 3 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | |
| Temperature (Kelvin) | |
| Microscope Model | TFS KRIOS |
| Minimum Defocus (nm) | 1000 |
| Maximum Defocus (nm) | 6000 |
| Minimum Tilt Angle (degrees) | |
| Maximum Tilt Angle (degrees) | |
| Nominal CS | |
| Imaging Mode | BRIGHT FIELD |
| Specimen Holder Model | |
| Nominal Magnification | 81000 |
| Calibrated Magnification | |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 300 |
| Imaging Details |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| VOLUME SELECTION | emClarity | v1.6.2 |
| CTF CORRECTION | emClarity | v1.6.2 |
| CTF CORRECTION | RELION | v4 |
| MODEL FITTING | UCSF Chimera | 1.16 |
| MODEL FITTING | UCSF ChimeraX | 1.6.1 |
| MODEL FITTING | Coot | 0.9.8 |
| MODEL FITTING | ISOLDE | 1.6.0 |
| FINAL EULER ASSIGNMENT | RELION | v4 |
| CLASSIFICATION | RELION | v4 |
| RECONSTRUCTION | RELION | v4 |
| MODEL REFINEMENT | PHENIX | 1.21_5207 |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| PHASE FLIPPING AND AMPLITUDE CORRECTION | ||||
