ELECTRON MICROSCOPY
Starting Model(s)
| Initial Refinement Model(s) | |||
|---|---|---|---|
| Type | Source | Accession Code | Details |
| experimental model | PDB | 2TMV | |
| Sample |
|---|
| Tobacco Mosaic Virus |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | FILAMENT |
| Vitrification Instrument | HOMEMADE PLUNGER |
| Cryogen Name | ETHANE |
| Sample Vitrification Details | The sample was plunge-frozen at 4C. |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | HELICAL |
| Number of Particles | |
| Reported Resolution (Å) | 4.4 |
| Resolution Method | |
| Other Details | SIRT algorithm implemented in the SPIDER processing package (command BP RP) |
| Refinement Type | |
| Symmetry Type | HELICAL |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 (2TMV) | ||||
| Refinement Space | REAL | ||||
| Refinement Protocol | FLEXIBLE FIT | ||||
| Refinement Target | Minimization of least-square difference between observed and calculated densities | ||||
| Overall B Value | |||||
| Fitting Procedure | |||||
| Details | METHOD--Torsion angle molecular dynamics REFINEMENT PROTOCOL--Real-space molecular dynamics | ||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | KODAK SO-163 FILM | ||||||||
| Electron Dose (electrons/Å**2) | 15 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | 2005-11-22 |
| Temperature (Kelvin) | 93 |
| Microscope Model | FEI TECNAI F30 |
| Minimum Defocus (nm) | 1.5 |
| Maximum Defocus (nm) | 4 |
| Minimum Tilt Angle (degrees) | |
| Maximum Tilt Angle (degrees) | |
| Nominal CS | 2 |
| Imaging Mode | BRIGHT FIELD |
| Specimen Holder Model | |
| Nominal Magnification | 59000 |
| Calibrated Magnification | 60190 |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 200 |
| Imaging Details |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| MODEL FITTING | X-PLOR | |
| RECONSTRUCTION | SPIDER | |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| Phase correction and amplitude weighting adapted from Grigorieff 1998(after determination of CTF and specimen tilt) | ||||
