Solution structure of the Duplex DNA Containing the 3-(Deoxyguanosin-N2-yl)-2-Acetoaminofluorene
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D NOESY | 0.9mM duplex DNA, 3-(deoxyguanosin-N2-yl)-2acetylamino-fluorene, 25mM phosphate buffer, 0.5mM EDTA, 50mM NaCl | 100% D2O | 50mM NaCl | 6.8 | 1 atm | 303 | |
| 2 | 2D TOCSY | 0.9mM duplex DNA, 3-(deoxyguanosin-N2-yl)-2acetylamino-fluorene, 25mM phosphate buffer, 0.5mM EDTA, 50mM NaCl | 100% D2O | 50mM NaCl | 6.8 | 1 atm | 303 | |
| 3 | P-COSY | 0.9mM duplex DNA, 3-(deoxyguanosin-N2-yl)-2acetylamino-fluorene, 25mM phosphate buffer, 0.5mM EDTA, 50mM NaCl | 100% D2O | 50mM NaCl | 6.8 | 1 atm | 303 | |
| 4 | DQF-COSY | 0.9mM duplex DNA, 3-(deoxyguanosin-N2-yl)-2acetylamino-fluorene, 25mM phosphate buffer, 0.5mM EDTA, 50mM NaCl | 100% D2O | 50mM NaCl | 6.8 | 1 atm | 303 | |
| 5 | noesyjrhs (H2O) | 0.9mM duplex DNA, 3-(deoxyguanosin-N2-yl)-2acetylamino-fluorene, 25mM phosphate buffer, 0.5mM EDTA, 50mM NaCl, 90% H2O, 10% D2O | 90% H2O/10% D2O | 50mM NaCl | 6.8 | 1 atm | 278 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Varian | INOVA | 600 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| restrained molecular dynamics | total of 582 NOE-derived inter-proton distances were restrained, 72 dihedral angle restraints, 29 distance restraints from hydrogen bonds | Felix |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the least restraint violations |
| Conformers Calculated Total Number | 20 |
| Conformers Submitted Total Number | 1 |
| Representative Model | 1 (minimized average structure) |
| Additional NMR Experimental Information | |
|---|---|
| Details | This structure was determined using standard 2D homonuclear techniques. |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | processing | Felix | ||
| 2 | refinement | X-PLOR | 3.85 | Brunger et al. |
| 3 | structure solution | X-PLOR | 3.85 | Brunger et al. |
| 4 | collection | VNMR | 5.2 | |
