Structure and assembly of the mouse ASC filament by combined NMR spectroscopy and cryo-electron microscopy
SOLID-STATE NMR - ELECTRON MICROSCOPY
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | NCACX | 15 mg [U-100% 13C; U-100% 15N] ASC filament | 90% H2O/10% D2O | ambient | 288 | |||
| 2 | NCOCX | 15 mg [U-100% 13C; U-100% 15N] ASC filament | 90% H2O/10% D2O | ambient | 288 | |||
| 3 | NCACB | 15 mg [U-100% 13C; U-100% 15N] ASC filament | 90% H2O/10% D2O | ambient | 288 | |||
| 4 | CANCO | 15 mg [U-100% 13C; U-100% 15N] ASC filament | 90% H2O/10% D2O | ambient | 288 | |||
| 5 | CCC | 15 mg [U-100% 13C; U-100% 15N] ASC filament | 90% H2O/10% D2O | ambient | 288 | |||
| 6 | NCA | 15 mg [U-100% 13C; U-100% 15N] ASC filament | 90% H2O/10% D2O | ambient | 288 | |||
| 7 | NCO | 15 mg [U-100% 13C; U-100% 15N] ASC filament | 90% H2O/10% D2O | ambient | 288 | |||
| 8 | 20msDARR | 15 mg [U-100% 13C; U-100% 15N] ASC filament | 90% H2O/10% D2O | ambient | 288 | |||
| 9 | N(CO)CACB | 15 mg [U-100% 13C; U-100% 15N] ASC filament | 90% H2O/10% D2O | ambient | 288 | |||
| 10 | CAN(CO)CA | 15 mg [U-100% 13C; U-100% 15N] ASC filament | 90% H2O/10% D2O | ambient | 288 | |||
| 11 | N(CA)CBCX | 15 mg [U-100% 13C; U-100% 15N] ASC filament | 90% H2O/10% D2O | ambient | 288 | |||
| 12 | 100msPDSD | 15 mg [U-100% 13C; U-100% 15N] ASC filament | 90% H2O/10% D2O | ambient | 288 | |||
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | AVANCE | 850 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing | XPLOR-NIH | |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy |
| Conformers Calculated Total Number | 100 |
| Conformers Submitted Total Number | 10 |
| Representative Model | 1 (lowest energy) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | chemical shift assignment | CYANA | Guntert, Mumenthaler and Wuthrich | |
| 2 | data analysis | CYANA | Guntert, Mumenthaler and Wuthrich | |
| 3 | structure solution | CYANA | Guntert, Mumenthaler and Wuthrich | |
| 4 | refinement | XPLOR-NIH | Schwieters, Kuszewski, Tjandra and Clore | |
| Sample |
|---|
| Mouse ASC-PYD filament |
| Sample Components |
| ASC filament |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | FILAMENT |
| Vitrification Instrument | FEI VITROBOT MARK IV |
| Cryogen Name | ETHANE |
| Sample Vitrification Details | Grids were blotted for one second before plunging into liquid ethane (FEI VITROBOT MARK IV). |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | HELICAL |
| Number of Particles | |
| Reported Resolution (Å) | 4 |
| Resolution Method | FSC 0.5 CUT-OFF |
| Other Details | |
| Refinement Type | |
| Symmetry Type | HELICAL |
| Axial Symmetry | C3 |
| Axial Rise | 14.2 |
| Angular Rotation | 53 |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 | ||||
| Refinement Space | |||||
| Refinement Protocol | |||||
| Refinement Target | |||||
| Overall B Value | |||||
| Fitting Procedure | |||||
| Details | |||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | DIRECT ELECTRON DE-10 (5k x 4k) | ||||||||
| Electron Dose (electrons/Å**2) | 20 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | 2014-10-10 |
| Temperature (Kelvin) | |
| Microscope Model | FEI TITAN KRIOS |
| Minimum Defocus (nm) | |
| Maximum Defocus (nm) | |
| Minimum Tilt Angle (degrees) | -12 |
| Maximum Tilt Angle (degrees) | 12 |
| Nominal CS | |
| Imaging Mode | DIFFRACTION |
| Specimen Holder Model | FEI TITAN KRIOS AUTOGRID HOLDER |
| Nominal Magnification | 22500 |
| Calibrated Magnification | |
| Source | TUNGSTEN HAIRPIN |
| Acceleration Voltage (kV) | 300 |
| Imaging Details |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| RECONSTRUCTION | EMAN | 2 |
| RECONSTRUCTION | IHRSR | |
| RECONSTRUCTION | SPIDER | |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| CTFFIND3 | ||||
