7QW9
Cryo-EM structure of coxsackievirus A6 mature virion
ELECTRON MICROSCOPY
Refinement
| RMS Deviations | |
|---|---|
| Key | Refinement Restraint Deviation |
| r_dihedral_angle_2_deg | 33.01 |
| r_long_range_B_refined | 20.96 |
| r_long_range_B_other | 20.96 |
| r_dihedral_angle_4_deg | 15.267 |
| r_mcangle_it | 14.59 |
| r_mcangle_other | 14.59 |
| r_dihedral_angle_3_deg | 13.134 |
| r_scangle_other | 12.954 |
| r_mcbond_it | 10.258 |
| r_mcbond_other | 10.257 |
| Sample |
|---|
| Coxsackievirus A6 |
| Sample Components |
| Capsid |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | PARTICLE |
| Vitrification Instrument | FEI VITROBOT MARK IV |
| Cryogen Name | ETHANE-PROPANE |
| Sample Vitrification Details | |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | SINGLE PARTICLE |
| Number of Particles | 1769 |
| Reported Resolution (Å) | 2.68 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | |
| Refinement Type | |
| Symmetry Type | POINT |
| Point Symmetry | I |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 (5XS4) | ||||
| Refinement Space | RECIPROCAL | ||||
| Refinement Protocol | RIGID BODY FIT | ||||
| Refinement Target | correlation coefficient | ||||
| Overall B Value | 66 | ||||
| Fitting Procedure | |||||
| Details | iterative cycles of building - real space refinement - reciprocal space refinement | ||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | FEI FALCON II (4k x 4k) | ||||||||
| Electron Dose (electrons/Å**2) | 45 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | |
| Temperature (Kelvin) | |
| Microscope Model | FEI TITAN KRIOS |
| Minimum Defocus (nm) | 1000 |
| Maximum Defocus (nm) | 3000 |
| 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 | 75000 |
| Calibrated Magnification | |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 300 |
| Imaging Details |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| PARTICLE SELECTION | crYOLO | |
| IMAGE ACQUISITION | EPU | 1.12 |
| CTF CORRECTION | Gctf | 1.06 |
| MODEL FITTING | UCSF Chimera | |
| MODEL REFINEMENT | Coot | 0.9.5 |
| MODEL REFINEMENT | PHENIX | 1.19.2 |
| MODEL REFINEMENT | REFMAC | 5 |
| INITIAL EULER ASSIGNMENT | RELION | 3.1 |
| FINAL EULER ASSIGNMENT | RELION | 3.1 |
| CLASSIFICATION | RELION | 3.1 |
| RECONSTRUCTION | RELION | 3.1 |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| PHASE FLIPPING AND AMPLITUDE CORRECTION | 211991 | |||
