6OM6
Structure of trans-translation inhibitor bound to E. coli 70S ribosome with P site tRNA
ELECTRON MICROSCOPY
| Sample |
|---|
| Structure of trans-translation inhibitor bound to E. coli 70S ribosome with P site tRNA |
| Sample Components |
| 50S subunit |
| 30S subunit |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | PARTICLE |
| Vitrification Instrument | FEI VITROBOT MARK IV |
| Cryogen Name | ETHANE |
| Sample Vitrification Details | Blot time: 3.5 seconds |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | SINGLE PARTICLE |
| Number of Particles | 28121 |
| 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 (5MDV) | ||||
| Refinement Space | REAL | ||||
| Refinement Protocol | RIGID BODY FIT | ||||
| Refinement Target | |||||
| Overall B Value | |||||
| Fitting Procedure | |||||
| Details | |||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | DIRECT ELECTRON DE-64 (8k x 8k) | ||||||||
| Electron Dose (electrons/Å**2) | 58 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | |
| Temperature (Kelvin) | |
| Microscope Model | FEI TITAN KRIOS |
| Minimum Defocus (nm) | 1500 |
| 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 | 59000 |
| Calibrated Magnification | |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 300 |
| Imaging Details |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| PARTICLE SELECTION | FindEM | 2.00 |
| PARTICLE SELECTION | DoG Picker | 0.2 |
| IMAGE ACQUISITION | Leginon | 3.3 |
| CTF CORRECTION | CTFFIND | 4 |
| CTF CORRECTION | Gctf | 1.06 |
| MODEL REFINEMENT | PHENIX | 1.15-3448 |
| INITIAL EULER ASSIGNMENT | cryoSPARC | |
| FINAL EULER ASSIGNMENT | RELION | 2.00 |
| CLASSIFICATION | RELION | 3.00 |
| RECONSTRUCTION | RELION | 3.00 |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| PHASE FLIPPING AND AMPLITUDE CORRECTION | 474382 | 100,537 particles were selected from first dataset and 373,845 partciles from the second dataset. | ||
