3J0A
Homology model of human Toll-like receptor 5 fitted into an electron microscopy single particle reconstruction
ELECTRON MICROSCOPY
| Sample |
|---|
| Full-length Toll-like receptor 5 |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | PARTICLE |
| Staining Type | NEGATIVE |
| Staining Material | Uranyl Formate |
| Staining Details | |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | SINGLE PARTICLE |
| Number of Particles | 4241 |
| Reported Resolution (Å) | 26 |
| Resolution Method | FSC 0.5 CUT-OFF |
| Other Details | Final maps were calculated from all the particles by back-projection reconstruction. |
| Refinement Type | |
| Symmetry Type | POINT |
| Point Symmetry | C1 |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 | ||||
| Refinement Space | REAL | ||||
| Refinement Protocol | RIGID BODY FIT | ||||
| Refinement Target | Energy minimization | ||||
| Overall B Value | |||||
| Fitting Procedure | |||||
| Details | REFINEMENT PROTOCOL--Rigid body and positional refinement DETAILS--Initial local fitting was done using Chimera and then the energy of the model was ... | ||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | GATAN ULTRASCAN 4000 (4k x 4k) | ||||||||
| Electron Dose (electrons/Å**2) | |||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | 2010-08-01 |
| Temperature (Kelvin) | 298 |
| Microscope Model | FEI TECNAI 12 |
| Minimum Defocus (nm) | 800 |
| Maximum Defocus (nm) | 1200 |
| Minimum Tilt Angle (degrees) | |
| Maximum Tilt Angle (degrees) | |
| Nominal CS | 2.2 |
| Imaging Mode | BRIGHT FIELD |
| Specimen Holder Model | SIDE ENTRY, EUCENTRIC |
| Nominal Magnification | 52000 |
| Calibrated Magnification | 52000 |
| Source | LAB6 |
| Acceleration Voltage (kV) | 120 |
| Imaging Details |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| MODEL FITTING | MODELLER | |
| MODEL FITTING | REFMAC | |
| RECONSTRUCTION | IMAGIC | |
| RECONSTRUCTION | SPIDER | |
