Solution Structure of the HIV-1 Intron Splicing Silencer and its Interactions with the UP1 Domain of hnRNP A1
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D 1H-1H NOESY | 80-120 uM [U-2H] ISS (53-MER) | 100% D2O | 10 | 6.5 | ambient | 298 | |
| 2 | 2D 1H-1H TOCSY | 80-120 uM [U-2H] ISS (53-MER) | 100% D2O | 10 | 6.5 | ambient | 298 | |
| 3 | 2D 1H-13C HMQC | 80-120 uM [U-100% 13C] ISS (53-MER) | 100% D2O | 10 | 6.5 | ambient | 298 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | AVANCE | 900 |
| 2 | Bruker | AVANCE | 800 |
| 3 | Bruker | AVANCE | 500 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| molecular dynamics | NMRDraw | |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the least restraint violations |
| Conformers Calculated Total Number | 256 |
| Conformers Submitted Total Number | 10 |
| Representative Model | 1 (lowest energy) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | processing | NMRDraw | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
| 2 | processing | NMRPipe | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
| 3 | structure solution | X-PLOR NIH | Schwieters, Kuszewski, Tjandra and Clore | |
| 4 | collection | TopSpin | Bruker Biospin | |
| 5 | refinement | Amber | Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, and Kollman | |
