SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D 1H-1H NOESY | 0.5-2.0 mM DNA (5'-D(*TP*CP*CP*(CFL)P*(CFL)P*C)-3'), 10 mM sodium chloride | 90% H2O/10% D2O | 10 | 5.0 | 1 atm | 278 | |
| 2 | 2D 1H-1H NOESY | 0.5-2.0 mM DNA/RNA (5'-R((CFZ)P*(GFZ)P*(CFZ)P*(GFZ)P*(AF2)P*(AF2)D(P*(TAF)P*(TAF)P*(CFL)P*(GFL)P*(CFL)P*(GFL))-3'), 10 mM sodium chloride | 100% D2O | 10 | 5.0 | 1 atm | 298 | |
| 3 | 2D DQF-COSY | 0.5-2.0 mM DNA/RNA (5'-R((CFZ)P*(GFZ)P*(CFZ)P*(GFZ)P*(AF2)P*(AF2)D(P*(TAF)P*(TAF)P*(CFL)P*(GFL)P*(CFL)P*(GFL))-3'), 10 mM sodium chloride | 100% D2O | 10 | 5.0 | 1 atm | 298 | |
| 4 | 2D 1H-1H TOCSY | 0.5-2.0 mM DNA/RNA (5'-R((CFZ)P*(GFZ)P*(CFZ)P*(GFZ)P*(AF2)P*(AF2)D(P*(TAF)P*(TAF)P*(CFL)P*(GFL)P*(CFL)P*(GFL))-3'), 10 mM sodium chloride | 100% D2O | 10 | 5.0 | 1 atm | 298 | |
| 5 | 2D 1H-19F HOESY | 0.5-2.0 mM DNA/RNA (5'-R((CFZ)P*(GFZ)P*(CFZ)P*(GFZ)P*(AF2)P*(AF2)D(P*(TAF)P*(TAF)P*(CFL)P*(GFL)P*(CFL)P*(GFL))-3'), 10 mM sodium chloride | 100% D2O | 10 | 5.0 | 1 atm | 298 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | AVANCE | 600 |
| 2 | Bruker | AVANCE | 800 |
| 3 | Bruker | AVANCE | 700 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| molecular dynamics | Amber | |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy |
| Conformers Calculated Total Number | 20 |
| Conformers Submitted Total Number | 10 |
| Representative Model | 1 (closest to the average) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | geometry optimization | Amber | Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman | |
| 2 | data analysis | MOLMOL | Koradi, Billeter and Wuthrich | |
| 3 | peak picking | Sparky | Goddard | |
| 4 | refinement | Amber | Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman | |
