7KMT
Structure of the yeast TRAPPIII-Ypt1(Rab1) complex
ELECTRON MICROSCOPY
| Sample |
|---|
| TRAPPIII-Ypt1 complex |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | PARTICLE |
| Vitrification Instrument | FEI VITROBOT MARK IV |
| Cryogen Name | ETHANE |
| Sample Vitrification Details | Either 0.02% Tween-20 or 0.025% amphipol A8-35 was added before application of the sample to the grid. |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | SINGLE PARTICLE |
| Number of Particles | 69315 |
| Reported Resolution (Å) | 3.7 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | |
| Refinement Type | |
| Symmetry Type | POINT |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 (3CUE, 2C0J, 2J3W) | ||||
| Refinement Space | REAL | ||||
| Refinement Protocol | AB INITIO MODEL | ||||
| Refinement Target | |||||
| Overall B Value | |||||
| Fitting Procedure | |||||
| Details | |||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | GATAN K3 BIOQUANTUM (6k x 4k) | FEI FALCON III (4k x 4k) | GATAN K2 SUMMIT (4k x 4k) | ||||||
| Electron Dose (electrons/Å**2) | 50 | 20 | 50 | ||||||
| Imaging Experiment | 1 | 2 | 3 |
|---|---|---|---|
| Date of Experiment | |||
| Temperature (Kelvin) | |||
| Microscope Model | FEI TALOS ARCTICA | FEI TITAN KRIOS | FEI TITAN KRIOS |
| Minimum Defocus (nm) | |||
| Maximum Defocus (nm) | |||
| Minimum Tilt Angle (degrees) | |||
| Maximum Tilt Angle (degrees) | |||
| Nominal CS | |||
| Imaging Mode | BRIGHT FIELD | BRIGHT FIELD | BRIGHT FIELD |
| Specimen Holder Model | |||
| Nominal Magnification | |||
| Calibrated Magnification | |||
| Source | FIELD EMISSION GUN | FIELD EMISSION GUN | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 200 | 300 | 300 |
| Imaging Details |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| PARTICLE SELECTION | RELION | 3.1 |
| IMAGE ACQUISITION | SerialEM | |
| CTF CORRECTION | RELION | 3.1 |
| MODEL FITTING | Coot | |
| MODEL FITTING | ISOLDE | |
| MODEL FITTING | UCSF Chimera | |
| IMAGE ACQUISITION | EPU | |
| IMAGE ACQUISITION | SerialEM | |
| INITIAL EULER ASSIGNMENT | RELION | 3.1 |
| FINAL EULER ASSIGNMENT | RELION | 3.1 |
| CLASSIFICATION | RELION | 3.1 |
| RECONSTRUCTION | RELION | 3.1 |
| MODEL REFINEMENT | PHENIX | |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| PHASE FLIPPING AND AMPLITUDE CORRECTION | ||||
