QUASI-ATOMIC RESOLUTION MODEL OF BACTERIOPHAGE PRD1 CAPSID, OBTAINED BY COMBINED CRYO-EM AND X-RAY CRYSTALLOGRAPHY.
ELECTRON MICROSCOPY
Starting Model(s)
| Initial Refinement Model(s) | |||
|---|---|---|---|
| Type | Source | Accession Code | Details |
| experimental model | PDB | 1GW7 | |
| Sample |
|---|
| BACTERIOPHAGE PRD1 |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | PARTICLE |
| Vitrification Instrument | HOMEMADE PLUNGER |
| Cryogen Name | ETHANE |
| Sample Vitrification Details | ETHANE |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | SINGLE PARTICLE |
| Number of Particles | 1468 |
| Reported Resolution (Å) | 13.5 |
| Resolution Method | |
| Other Details | RIGID BODY REFINEMENT AGAINST CRYO-EM MAP WAS DONE USING XPLOR 3.851 (BRUNGER) DATA USED IN REFINEMENT. NUMBER OF REFLECTIONS 1430672 |
| Refinement Type | |
| Symmetry Type | POINT |
| Point Symmetry | I |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 (1GW7) | ||||
| Refinement Space | RECIPROCAL | ||||
| Refinement Protocol | RIGID BODY FIT | ||||
| Refinement Target | R-factor | ||||
| Overall B Value | |||||
| Fitting Procedure | |||||
| Details | METHOD--RIGID BODY REFINEMENT PROTOCOL--X-RAY | ||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | KODAK SO-163 FILM | ||||||||
| Electron Dose (electrons/Å**2) | 6 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | 2001-12-01 |
| Temperature (Kelvin) | 95 |
| Microscope Model | FEI/PHILIPS CM200FEG |
| Minimum Defocus (nm) | 1300 |
| Maximum Defocus (nm) | 4100 |
| Minimum Tilt Angle (degrees) | |
| Maximum Tilt Angle (degrees) | |
| Nominal CS | 2 |
| Imaging Mode | BRIGHT FIELD |
| Specimen Holder Model | |
| Nominal Magnification | 50000 |
| Calibrated Magnification | 45300 |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 200 |
| Imaging Details |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| MODEL FITTING | EMfit | |
| RECONSTRUCTION | MRC IMAGE PROCESSING PACKAGE | |
| RECONSTRUCTION | SPIDER | |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| PHASE RESTORATION BY CTF- MULTIPLICATION OF IMAGES. AMPLITUDE RESTORATION BY COMPARISON WITH QUASI- ATOMIC MODEL | ||||
