Solution structure of Polypyrimidine Tract Binding protein RBD1 complexed with CUCUCU RNA
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D NOESY | 1.5mM PTB RBD1 15N; 1.5mM CUCUCU-RNA; 20mM phosphate buffer; 10mM NaCl | 100% D2O | 30mM | 6.00 | ambient | 313 | |
| 2 | 2D TOCSY | 1.5mM PTB RBD1 15N; 1.5mM CUCUCU-RNA; 20mM phosphate buffer; 10mM NaCl | 100% D2O | 30mM | 6.00 | ambient | 313 | |
| 3 | 3D_13C-separated_NOESY | 1.5mM PTB RBD1 15N, 13C; 1.5mM CUCUCU-RNA; 20mM phosphate buffer; 10mM NaCl | 90% H2O/10% D2O | 30mM | 6.00 | ambient | 313 | |
| 4 | 3D_15N-separated_NOESY | 1.5mM PTB RBD1 15N; 1.5mM CUCUCU-RNA; 20mM phosphate buffer; 10mM NaCl | 90% H2O/10% D2O | 30mM | 6.00 | ambient | 313 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | DRX | 500 |
| 2 | Bruker | DRX | 600 |
| 3 | Bruker | AVANCE | 900 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| distance geometry simulated annealing | XwinNMR | |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy |
| Conformers Calculated Total Number | 40 |
| Conformers Submitted Total Number | 20 |
| Representative Model | 1 (lowest energy) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | collection | XwinNMR | 3.5 | Bruker |
| 2 | data analysis | Sparky | 3.0 | Goddard |
| 3 | structure solution | DYANA | 3.02 | Guentert |
| 4 | refinement | Amber | 7 | Case |
