Cryo-EM structure of designed Orb2 amyloid (LVLVF, polymorph 1)
ELECTRON MICROSCOPY
| Sample |
|---|
| Cryo-EM structure of designed Orb2 amyloid (LVLVF; polymorph 1) |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | FILAMENT |
| Vitrification Instrument | FEI VITROBOT MARK IV |
| Cryogen Name | ETHANE |
| Sample Vitrification Details | Vitrification Carried out in liquid Nitrogen atmosphere |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | SINGLE PARTICLE |
| Number of Particles | 58092 |
| Reported Resolution (Å) | 3.3 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | |
| Refinement Type | |
| Symmetry Type | POINT |
| Point Symmetry | C3 |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 | ||||
| Refinement Space | REAL | ||||
| Refinement Protocol | AB INITIO MODEL | ||||
| Refinement Target | Cross Correlation Coefficient | ||||
| Overall B Value | 5817 | ||||
| Fitting Procedure | |||||
| Details | Initial model fitting was performed using Coot and Phenix, with final adjustments completed in ChimeraX. | ||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | TFS FALCON 4i (4k x 4k) | ||||||||
| Electron Dose (electrons/Å**2) | 60 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | |
| Temperature (Kelvin) | |
| Microscope Model | TFS KRIOS |
| Minimum Defocus (nm) | 1000 |
| Maximum Defocus (nm) | 2400 |
| 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 | |
| Calibrated Magnification | |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 300 |
| Imaging Details |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| PARTICLE SELECTION | RELION | 5.0-Beta-1 |
| IMAGE ACQUISITION | SerialEM | 4.0 |
| CTF CORRECTION | CTFFIND | |
| MODEL FITTING | Coot | 0.9.8.96 |
| MODEL REFINEMENT | PHENIX | 1.21 |
| INITIAL EULER ASSIGNMENT | RELION | 5.0-beta-1-commit-b75b38 |
| FINAL EULER ASSIGNMENT | RELION | 5.0-beta-1-commit-b75b38 |
| CLASSIFICATION | RELION | 5.0-beta-1-commit-b75b38 |
| RECONSTRUCTION | RELION | 5.0-beta-1-commit-b75b38 |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| PHASE FLIPPING AND AMPLITUDE CORRECTION | 2713980 | |||
