3J9U
Yeast V-ATPase state 2
ELECTRON MICROSCOPY
| Sample |
|---|
| Vacuolar-type ATPase |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | PARTICLE |
| Vitrification Instrument | FEI VITROBOT MARK III |
| Cryogen Name | OTHER |
| Sample Vitrification Details | Blot for 23 seconds before freezing in ethane/propane mixture (FEI VITROBOT MARK III). |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | SINGLE PARTICLE |
| Number of Particles | 38347 |
| Reported Resolution (Å) | 7.6 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | (Single particle details: Particles automatically selected using TMaCS and processed in Relion.) (Single particle--Applied symmetry: C1) |
| Refinement Type | |
| Symmetry Type | POINT |
| Point Symmetry | C1 |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 (1U7L, 1HO8, 4RND, 4RND, 4DL0, 4DL0) | ||||
| Refinement Space | REAL | ||||
| Refinement Protocol | FLEXIBLE FIT | ||||
| Refinement Target | |||||
| Overall B Value | |||||
| Fitting Procedure | |||||
| Details | REFINEMENT PROTOCOL--flexible DETAILS--Rigid body fitting performed in Chimera first, followed by flexible fitting performed using Molecular Dynamics ... | ||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | GATAN K2 (4k x 4k) | ||||||||
| Electron Dose (electrons/Å**2) | 30 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | 2013-10-19 |
| Temperature (Kelvin) | 77 |
| Microscope Model | FEI TECNAI F20 |
| Minimum Defocus (nm) | 1500 |
| Maximum Defocus (nm) | 7000 |
| Minimum Tilt Angle (degrees) | |
| Maximum Tilt Angle (degrees) | |
| Nominal CS | 2 |
| Imaging Mode | BRIGHT FIELD |
| Specimen Holder Model | GATAN LIQUID NITROGEN |
| Nominal Magnification | 34483 |
| Calibrated Magnification | 34483 |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 200 |
| Imaging Details | K2 Summit in counting mode, 2 frames/s for 15 s |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| MODEL FITTING | MDFF | |
| MODEL FITTING | UCSF Chimera | |
| PARTICLE SELECTION | TMaCS | |
| RECONSTRUCTION | RELION | |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| Each particle | ||||
