7Q5B
Cryo-EM structure of Ty3 retrotransposon targeting a TFIIIB-bound tRNA gene
ELECTRON MICROSCOPY
Refinement
| RMS Deviations | |
|---|---|
| Key | Refinement Restraint Deviation |
| f_dihedral_angle_d | 30.6476 |
| f_angle_d | 0.8529 |
| f_chiral_restr | 0.0523 |
| f_plane_restr | 0.0056 |
| f_bond_d | 0.0042 |
| Sample |
|---|
| Ty3 retrotransposon engaged with TFIIIB transcription factor and tRNA promoter |
| Sample Components |
| DNA |
| TFIIIB transcription factor |
| 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 | 101469 |
| Reported Resolution (Å) | 3.98 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | |
| Refinement Type | |
| Symmetry Type | POINT |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 | ||||
| Refinement Space | REAL | ||||
| Refinement Protocol | OTHER | ||||
| Refinement Target | Correlation Coefficient | ||||
| Overall B Value | |||||
| Fitting Procedure | |||||
| Details | |||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | GATAN K2 SUMMIT (4k x 4k) | GATAN K3 (6k x 4k) | |||||||
| Electron Dose (electrons/Å**2) | 50 | 70 | |||||||
| Imaging Experiment | 1 | 2 |
|---|---|---|
| Date of Experiment | ||
| Temperature (Kelvin) | ||
| Microscope Model | FEI TITAN KRIOS | FEI TITAN KRIOS |
| Minimum Defocus (nm) | 1700 | 2400 |
| Maximum Defocus (nm) | 3200 | 4000 |
| Minimum Tilt Angle (degrees) | ||
| Maximum Tilt Angle (degrees) | ||
| Nominal CS | ||
| Imaging Mode | BRIGHT FIELD | BRIGHT FIELD |
| Specimen Holder Model | FEI TITAN KRIOS AUTOGRID HOLDER | FEI TITAN KRIOS AUTOGRID HOLDER |
| Nominal Magnification | 130000 | 81000 |
| Calibrated Magnification | ||
| Source | FIELD EMISSION GUN | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 300 | 300 |
| Imaging Details |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| IMAGE ACQUISITION | EPU | |
| CTF CORRECTION | CTFFIND | 4 |
| IMAGE ACQUISITION | EPU | |
| INITIAL EULER ASSIGNMENT | RELION | 3.0.4 |
| FINAL EULER ASSIGNMENT | RELION | 3.0.4 |
| CLASSIFICATION | RELION | 3.0.4 |
| RECONSTRUCTION | RELION | 3.1 |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| NONE | 628998 | |||
