NMR solution structure of modified DNA containing imidazole nucleosides at neutral pH
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D 1H-1H NOESY | 0.5 mM DID DNA 17-mer, 120 mM sodium perchlorate | 100% D2O | 120 mM | 7.2 | ambient | 298 | |
| 2 | 2D 1H-1H TOCSY | 0.5 mM DID DNA 17-mer, 120 mM sodium perchlorate | 100% D2O | 120 mM | 7.2 | ambient | 298 | |
| 3 | 2D 1H-13C HSQC | 0.5 mM DID DNA 17-mer, 120 mM sodium perchlorate | 100% D2O | 120 mM | 7.2 | ambient | 298 | |
| 4 | 2D 1H-1H NOESY | 0.5 mM DID DNA 17-mer, 120 mM sodium perchlorate | 90% H2O/10% D2O | 120 mM | 7.2 | ambient | 278 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | AVANCE | 700 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| torsion angle dynamics, simulated annealing | TopSpin | |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy |
| Conformers Calculated Total Number | 200 |
| Conformers Submitted Total Number | 20 |
| Representative Model | 1 (lowest energy) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | processing | TopSpin | 1.3, 2.0, 2.1 | Bruker Biospin |
| 2 | chemical shift assignment | Sparky | 3.1 | Goddard |
| 3 | data analysis | Sparky | 3.1 | Goddard |
| 4 | peak picking | Sparky | 3.1 | Goddard |
| 5 | structure solution | DYANA | 1.5 | Guntert, Braun and Wuthrich |
| 6 | refinement | X-PLOR NIH | 2.15 | Schwieters, Kuszewski, Tjandra and Clore |
