5JXL
Cryo-EM structure of the flagellar hook of Campylobacter jejuni
ELECTRON MICROSCOPY
| Sample |
|---|
| Campylobacter Hook |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | FILAMENT |
| Vitrification Instrument | GATAN CRYOPLUNGE 3 |
| Cryogen Name | ETHANE |
| Sample Vitrification Details | blotting from both side, Whatman #40 filter paper, 25 seconds blot time |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | HELICAL |
| Number of Particles | 49884 |
| Reported Resolution (Å) | 3.5 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | |
| Refinement Type | |
| Symmetry Type | HELICAL |
| Axial Symmetry | C1 |
| Axial Rise | 4.185 |
| Angular Rotation | 64.34 |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 (5AZ4) | ||||
| Refinement Space | REAL | ||||
| Refinement Protocol | BACKBONE TRACE | ||||
| Refinement Target | CC | ||||
| Overall B Value | 120 | ||||
| Fitting Procedure | |||||
| Details | side chains included, default parameters | ||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | FEI FALCON II (4k x 4k) | ||||||||
| Electron Dose (electrons/Å**2) | 2.4 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | |
| Temperature (Kelvin) | |
| Microscope Model | FEI TITAN KRIOS |
| Minimum Defocus (nm) | 500 |
| Maximum Defocus (nm) | 2500 |
| 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 | 79000 |
| Calibrated Magnification | 105000 |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 300 |
| Imaging Details | parallel illumination |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| PARTICLE SELECTION | e2helixboxer.py | 2.12 |
| IMAGE ACQUISITION | Leginon | 3.1 |
| CTF CORRECTION | ctffind3 | 3.5 |
| CTF CORRECTION | CTFTILT | 1.7 |
| MODEL FITTING | Coot | 0.8.3 |
| MODEL FITTING | O | 14.0 |
| INITIAL EULER ASSIGNMENT | segclassreconstruct | 0.83 |
| FINAL EULER ASSIGNMENT | segrefine3d | 0.83 |
| CLASSIFICATION | segmentclass | 0.83 |
| RECONSTRUCTION | segrefine3d | 0.83 |
| MODEL REFINEMENT | PHENIX | 1.9-1692 |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| PHASE FLIPPING ONLY | SPRING v0.83 | 70477 | ||
