Structure of DNA sequence d-TGATCA by two-dimensional nuclear magnetic resonance spec and restrained molecular dynamics
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D NOESY | 3.68mM duplex concentration; 20mM phosphate buffer with 15mM NaCl | D2O | 20mM Phosphate buffer; 15mM NaCl | 7.0 | AMBIENT | 295 | |
| 2 | DQF-COSY | 4.57mM duplex concentration; 20mM phosphate buffer with 15mM NaCl | 90% H2O/10% D2O | 20mM Phosphate buffer; 15mM NaCl | 7.0 | AMBIENT | 295 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | AM | 500 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| Simulated annealing, molecular dynamics | The structure is based on total 95 intra residue and 26 inter residue NOESY restraints and 12 torsinal angle restraints. | Discover |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with acceptable covalent geometry |
| Conformers Calculated Total Number | 25 |
| Conformers Submitted Total Number | 10 |
| Representative Model | 1 (fewest violations) |
| Additional NMR Experimental Information | |
|---|---|
| Details | For imino protons 1D water spectra Vs temperature was also done |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | refinement | Discover | 97 | |
