4UPB
Electron cryo-microscopy of the complex formed between the hexameric ATPase RavA and the decameric inducible decarboxylase LdcI
ELECTRON MICROSCOPY
Starting Model(s)
| Initial Refinement Model(s) | |||
|---|---|---|---|
| Type | Source | Accession Code | Details |
| experimental model | PDB | 3N75 | |
| Sample |
|---|
| LDCI-RAVA COMPLEX |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | PARTICLE |
| Vitrification Instrument | FEI VITROBOT MARK III |
| Cryogen Name | ETHANE |
| Sample Vitrification Details | LIQUID ETHANE |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | SINGLE PARTICLE |
| Number of Particles | 21265 |
| Reported Resolution (Å) | 11 |
| Resolution Method | |
| Other Details | SUBMISSION BASED ON EXPERIMENTAL DATA FROM EMDB EMD-2679. (DEPOSITION ID: 12571). |
| Refinement Type | |
| Symmetry Type | POINT |
| Point Symmetry | D5 |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 (3N75, 3N75) | ||||
| Refinement Space | REAL | ||||
| Refinement Protocol | FLEXIBLE FIT | ||||
| Refinement Target | ENERGY,CROSS-CORRELATION | ||||
| Overall B Value | |||||
| Fitting Procedure | |||||
| Details | METHOD--FLEX-EM REFINEMENT PROTOCOL--X-RAY | ||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | KODAK SO-163 FILM | ||||||||
| Electron Dose (electrons/Å**2) | 20 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | 2012-04-08 |
| Temperature (Kelvin) | 91 |
| Microscope Model | FEI TECNAI F30 |
| Minimum Defocus (nm) | 1300 |
| Maximum Defocus (nm) | 3300 |
| Minimum Tilt Angle (degrees) | -0.1 |
| Maximum Tilt Angle (degrees) | |
| Nominal CS | 2 |
| Imaging Mode | BRIGHT FIELD |
| Specimen Holder Model | |
| Nominal Magnification | 59000 |
| Calibrated Magnification | 59000 |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 300 |
| Imaging Details |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| CTF CORRECTION | CTFFIND | 3 |
| MODEL FITTING | Flex-EM | |
| PARTICLE SELECTION | EMAN | |
| RECONSTRUCTION | FPM | |
| RECONSTRUCTION | IMOD | |
| RECONSTRUCTION | PEET | |
| RECONSTRUCTION | SPIDER | |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| PHASE FLIPPING | ||||
