Solution structure of fully modified 4'-thioDNA with the sequence of d(CGCGAATTCGCG)
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D DQF-COSY | 0.42mM 4'-thio DNA; 10mM sodium phosphate; 10mM sodium chloride; 0.01mM DSS; 100% D2O | 100% D2O | 20 | 6.5 | ambient | 298 | |
| 2 | 2D 1H-1H TOCSY | 0.42mM 4'-thio DNA; 10mM sodium phosphate; 10mM sodium chloride; 0.01mM DSS; 100% D2O | 100% D2O | 20 | 6.5 | ambient | 298 | |
| 3 | 2D 1H-1H NOESY | 0.42mM 4'-thio DNA; 10mM sodium phosphate; 10mM sodium chloride; 0.01mM DSS; 100% D2O | 100% D2O | 20 | 6.5 | ambient | 298 | |
| 4 | 2D 1H-1H NOESY | 0.42mM 4'-thio DNA; 10mM sodium phosphate; 10mM sodium chloride; 0.01mM DSS; 100% D2O | 100% D2O | 20 | 6.5 | ambient | 298 | |
| 5 | 2D 1H-13C HSQC | 0.42mM 4'-thio DNA; 10mM sodium phosphate; 10mM sodium chloride; 0.01mM DSS; 100% D2O | 100% D2O | 20 | 6.5 | ambient | 298 | |
| 6 | 2D 1H-1H NOESY | 0.42mM 4'-thio DNA; 10mM sodium phosphate; 10mM sodium chloride; 0.01mM DSS; 95% H2O, 5% D2O | 95% H2O/5% D2O | 20 | 6.5 | ambient | 278 | |
| 7 | 2D 1H-1H NOESY | 0.42mM 4'-thio DNA; 10mM sodium phosphate; 10mM sodium chloride; 0.01mM DSS; 95% H2O, 5% D2O | 95% H2O/5% D2O | 20 | 6.5 | ambient | 278 | |
| 8 | 2D 1H-13C JR-HMBC | 0.42mM 4'-thio DNA; 10mM sodium phosphate; 10mM sodium chloride; 0.01mM DSS; 95% H2O, 5% D2O | 95% H2O/5% D2O | 20 | 6.5 | ambient | 278 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | DRX | 800 |
| 2 | Bruker | DRX | 600 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing | XwinNMR | |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy |
| Conformers Calculated Total Number | 100 |
| Conformers Submitted Total Number | 1 |
| Representative Model | 1 (lowest energy) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | collection | XwinNMR | 3.5 | Bruker Biospin |
| 2 | collection | TopSpin | 1.0 | Bruker Biospin |
| 3 | processing | NMRPipe | 2.4 | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax |
| 4 | processing | NMRDraw | 2.4 | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax |
| 5 | data analysis | Sparky | 3.111 | Goddard |
| 6 | peak picking | Sparky | 3.111 | Goddard |
| 7 | structure solution | CNSSOLVE | 1.1 | Brunger, Adams, Clore, Gros, Nilges and Read |
| 8 | refinement | CNSSOLVE | 1.1 | Brunger, Adams, Clore, Gros, Nilges and Read |
