4BOM
Structure of herpesvirus fusion glycoprotein B-bilayer complex revealing the protein-membrane and lateral protein-protein interaction
ELECTRON MICROSCOPY
Starting Model(s)
| Initial Refinement Model(s) | |||
|---|---|---|---|
| Type | Source | Accession Code | Details |
| experimental model | PDB | 3NWF | |
| Sample |
|---|
| HUMAN HERPESVIRUS 1 ENVELOPED GLYCOPROTEIN GB ECTODOMAIN LACKING THE MEMBRANE PROXIMAL REGION BOUND TO LIPOSOMES |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | PARTICLE |
| Vitrification Instrument | |
| Cryogen Name | ETHANE-PROPANE |
| Sample Vitrification Details | LIQUID NITROGEN PROPANE MIXTURE |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | TOMOGRAPHY |
| Number of Particles | 786 |
| Reported Resolution (Å) | 27 |
| Resolution Method | |
| Other Details | THE MISSING FUSION LOOP RESIDUES 261 AND 262 WERE MODELED IN ALL THE THREE CHAINS OF USING MODELLER BASED ON THE GB CRYSTAL STRUCTURE (PDB ID 2GUM) SU ... |
| Refinement Type | |
| Symmetry Type | POINT |
| Point Symmetry | C3 |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 (3NWF) | ||||
| Refinement Space | REAL | ||||
| Refinement Protocol | FLEXIBLE FIT | ||||
| Refinement Target | |||||
| Overall B Value | |||||
| Fitting Procedure | |||||
| Details | METHOD--FLEXIBLE REFINEMENT PROTOCOL--FLEXIBLE | ||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | GATAN ULTRASCAN 4000 (4k x 4k) | ||||||||
| Electron Dose (electrons/Å**2) | 100 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | 2008-01-17 |
| Temperature (Kelvin) | |
| Microscope Model | FEI TECNAI F20 |
| Minimum Defocus (nm) | 2000 |
| Maximum Defocus (nm) | 2000 |
| Minimum Tilt Angle (degrees) | -60 |
| Maximum Tilt Angle (degrees) | 60 |
| Nominal CS | 2 |
| Imaging Mode | BRIGHT FIELD |
| Specimen Holder Model | |
| Nominal Magnification | |
| Calibrated Magnification | 67000 |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 200 |
| Imaging Details |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| MODEL FITTING | Flex-EM | |
| RECONSTRUCTION | JSUBTOMO | |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| LOW PASS FILTER TO THE FIRST ZERO CROSSING OF THE CTF | ||||
