Solution Structure of Duplex DNA Containing the Mutagenic Lesion: 1,N2-Etheno-2'-deoxyguanine
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D 1H-1H NOESY | 4.2mM duplex DNA, 1,N2-etheno-2 -deoxyguanosine | 100% D2O | 50mM NaCl | 6.8 | ambient atm | 300 | |
| 2 | 2D 1H-1H TOCSY | 4.2mM duplex DNA, 1,N2-etheno-2 -deoxyguanosine | 100% D2O | 50mM NaCl | 6.8 | ambient atm | 300 | |
| 3 | 2D DQF-COSY | 4.2mM duplex DNA, 1,N2-etheno-2 -deoxyguanosine | 100% D2O | 50mM NaCl | 6.8 | ambient atm | 300 | |
| 4 | 2D 1H-1H COSY | 4.2mM duplex DNA, 1,N2-etheno-2 -deoxyguanosine | 100% D2O | 50mM NaCl | 6.8 | ambient atm | 300 | |
| 5 | 2D 1H-1H NOESY H2O | 4.2mM duplex DNA, 1,N2-etheno-2 -deoxyguanosine | 90% H2O/10% D2O | 50mM NaCl | 6.8 | ambient mbar | 278 | |
| 6 | 1H-32P PHCorr | 4.2mM duplex DNA, 1,N2-etheno-2 -deoxyguanosine | 100% D2O | 50mM NaCl | 6.8 | ambient atm | 300 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Varian | INOVA | 500 |
| 2 | Varian | INOVA | 600 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| molecular dynamics | Restrained MD simulation | X-PLOR |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy |
| Conformers Calculated Total Number | 12 |
| Conformers Submitted Total Number | 9 |
| Representative Model | 1 (minimized average structure) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | structure solution | X-PLOR | 3.85 | Brunger |
| 2 | processing | Felix | Accelrys Software Inc. | |
| 3 | chemical shift assignment | Felix | Accelrys Software Inc. | |
| 4 | collection | VNMR | 5.2 | Varian |
| 5 | refinement | X-PLOR | 3.85 | Brunger |
