2K1Y
Solution Structure of Duplex DNA Containing the Mutagenic Lesion: 1,N2-Etheno-2'-deoxyguanine
SOLUTION NMR
NMR Experiment | ||||||||
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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 | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Varian | INOVA | 500 |
2 | Varian | INOVA | 600 |
NMR Refinement | ||
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Method | Details | Software |
molecular dynamics | Restrained MD simulation | X-PLOR |
NMR Ensemble Information | |
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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 | ||||
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# | 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 |