1XV6
The solution structure of 2',5'-linked 3'-O-(2-methoxyethyl)-RNA hairpin
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D NOESY | 0.9mM hairpin, 50mM NaCl | 100% D2O | 50mM NaCl | 7.4 | ambient | 303 | |
| 2 | DQF-COSY | 0.9mM hairpin, 50mM NaCl | 100% D2O | 50mM NaCl | 7.4 | ambient | 303 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Varian | INOVA | 600 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing, energy minimization | structures were refined by NMR restrained molecular dynamics in two stages using a generalized born (GB) implicit solvation model. The resulting structures were subjected to energy minimization. 2',5' phosphodiester linkages between residues, O3* of each ribose modified by methoxyethyl. | VNMR |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | all calculated structures submitted |
| Conformers Calculated Total Number | 30 |
| Conformers Submitted Total Number | 30 |
| Representative Model | 18 (closest to the average) |
| Additional NMR Experimental Information | |
|---|---|
| Details | Structure was determined using standard 2D homo- and heteronuclear techniques. |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | collection | VNMR | 6.1B | Varian |
| 2 | processing | Felix | 2000 | Accelerys |
| 3 | refinement | Amber | 6 | Kollman et al. |
