SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D 1H-1H NOESY | 1.3 mM ZP-DNA | 100% D2O | 100 mM | 7.5 | 1 atm | 298 | Bruker AVANCE II 600 |
| 2 | 2D DQF-COSY | 1.3 mM ZP-DNA | 100% D2O | 100 mM | 7.5 | 1 atm | 298 | Bruker AVANCE II 600 |
| 3 | 2D 1H-1H TOCSY | 1.3 mM ZP-DNA | 100% D2O | 100 mM | 7.5 | 1 atm | 298 | Bruker AVANCE II 600 |
| 4 | 2D 1H-13C HSQC | 1.3 mM ZP-DNA | 100% D2O | 100 mM | 7.5 | 1 atm | 298 | Bruker AVANCE II 600 |
| 5 | 2D 1H-1H NOESY | 1.3 mM ZP-DNA | 90% H2O/10% D2O | 100 mM | 7.5 | 1 atm | 298 | Bruker AVANCE II 600 |
| 6 | 2D 31P-1H COSY | 1.3 mM ZP-DNA | 100% D2O | 100 mM | 7.5 | 1 atm | 298 | Bruker AVANCE II 600 |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | AVANCE II | 600 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing | Amber | |
| molecular dynamics | Amber | |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | clustering of MD |
| Conformers Calculated Total Number | 5000 |
| Conformers Submitted Total Number | 10 |
| Representative Model | 1 (most represented cluster) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | chemical shift assignment | Sparky | Goddard | |
| 2 | processing | TopSpin | Bruker | |
| 4 | refinement | Amber | Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman | |
| 5 | refinement | MARDIGRAS | Brandan A. Borgias Paul D. Thomas He Liu Anil Kumar | |
| 6 | refinement | Amber | Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman | |
