GNYA tetranucleotide loops found in poliovirus oriL by in vivo SELEX (un)expectedly form a YNMG-like structure
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D NOESY | 1 mM oligonucleotide; | 90% H2O/10% D2O | 5 mM | 6.2 | ambient | 300 | |
| 2 | 2D NOESY | 1 mM oligonucleotide | 100% D2O | 5 mM | 6.2 | ambient | 300 | |
| 3 | 2D TOCSY | 1 mM oligonucleotide | 100% D2O | 5 mM | 6.2 | ambient | 300 | |
| 4 | DQF-COSY | 1 mM oligonucleotide | 100% D2O | 5 mM | 6.2 | ambient | 300 | |
| 5 | 13C, 1H HSQC | 1 mM oligonucleotide | 100% D2O | 5 mM | 6.2 | ambient | 300 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Varian | INOVA | 600 |
| 2 | Varian | INOVA | 800 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| torsion angle dynamics | NMRPipe | |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy |
| Conformers Calculated Total Number | 100 |
| Conformers Submitted Total Number | 18 |
| Representative Model | 1 (lowest energy) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | processing | NMRPipe | 2.1 | F. Delaglio |
| 2 | data analysis | Sparky | 3.106 | T.D. Goddard, D.G. Kneller |
| 3 | structure solution | X-PLOR | X-PLOR NIH | A.T. Brunger |
| 4 | refinement | X-PLOR | X-PLOR NIH | A.T. Brunger |
