Solution structure of an RNA derived from the joint region of the TAR and PolyA stems of HIV-1 genomic RNA
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D NOESY | 100 uM A60-10%13C,15N RNA (36-MER) | 95% H2O/5% D2O | 50 mM | 6.5 | 1 atm | 283 | Bruker AVANCE 600 |
| 2 | 2D HOHAHA | 100 uM A60-10%13C,15N RNA (36-MER) | 95% H2O/5% D2O | 50 mM | 6.5 | 1 atm | 283 | Bruker AVANCE 600 |
| 5 | 2D 1H-13C HSQC | 100 uM A60-10%13C,15N RNA (36-MER) | 95% H2O/5% D2O | 50 mM | 6.5 | 1 atm | 283 | Bruker AVANCE 600 |
| 3 | 2D NOESY | 100 uM A60-10%13C,15N RNA (36-MER) | 95% H2O/5% D2O | 50 mM | 6.5 | 1 atm | 283 | Bruker AVANCE 800 |
| 4 | 2D HOHAHA | 100 uM A60-10%13C,15N RNA (36-MER) | 95% H2O/5% D2O | 50 mM | 6.5 | 1 atm | 283 | Bruker AVANCE 800 |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | AVANCE | 600 |
| 2 | Bruker | AVANCE | 800 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing | CNS | |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy |
| Conformers Calculated Total Number | 200 |
| Conformers Submitted Total Number | 11 |
| Representative Model | 1 (minimized average structure) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 2 | structure calculation | CNS | 1.3 | Brunger, Adams, Clore, Gros, Nilges and Read |
| 3 | chemical shift assignment | Sparky | Goddard | |
| 4 | peak picking | Sparky | Goddard | |
