3IXX
The pseudo-atomic structure of West Nile immature virus in complex with Fab fragments of the anti-fusion loop antibody E53
ELECTRON MICROSCOPY
| Sample |
|---|
| Immature West Nile Virus complexed with E53 Fab |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | PARTICLE |
| Vitrification Instrument | HOMEMADE PLUNGER |
| Cryogen Name | ETHANE |
| Sample Vitrification Details | |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | SINGLE PARTICLE |
| Number of Particles | 3927 |
| Reported Resolution (Å) | 15 |
| Resolution Method | FSC 0.5 CUT-OFF |
| Other Details | Final maps were calculated from two averaged datasets ( Details about the particle: 400 mesh copper grid ) |
| Refinement Type | |
| Symmetry Type | POINT |
| Point Symmetry | I |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 (2OF6) | 2 (3C5X) | |||
| Refinement Space | REAL | REAL | |||
| Refinement Protocol | RIGID BODY FIT | RIGID BODY FIT | |||
| Refinement Target | |||||
| Overall B Value | |||||
| Fitting Procedure | |||||
| Details | REFINEMENT PROTOCOL--Rigid Body DETAILS--Each E molecule was divided into two rigid bodies, DI-DIII and DII-pr | REFINEMENT PROTOCOL--Rigid Body DETAILS--a model for WNV pr was generated by SWISS-MODEL based on DENV pr structure | |||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | KODAK SO-163 FILM | ||||||||
| Electron Dose (electrons/Å**2) | 12 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | 2008-01-08 |
| Temperature (Kelvin) | 98 |
| Microscope Model | FEI/PHILIPS CM300FEG/T |
| Minimum Defocus (nm) | 1193 |
| Maximum Defocus (nm) | 2859 |
| Minimum Tilt Angle (degrees) | -9999 |
| Maximum Tilt Angle (degrees) | -9999 |
| Nominal CS | 2 |
| Imaging Mode | BRIGHT FIELD |
| Specimen Holder Model | GATAN LIQUID NITROGEN |
| Nominal Magnification | 45000 |
| Calibrated Magnification | 47244 |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 300 |
| Imaging Details | low dose |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| MODEL FITTING | EMfit | |
| RECONSTRUCTION | SPIDER | |
| RECONSTRUCTION | Xmipp | |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| Each particle | ||||
