2KE8
NMR solution structure of metal-modified DNA
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 | 0.3-0.5 mM DNA (34-MER)-1, 120 mM sodium perchlorate-2, 0.9-1.5 mM SILVER ION-3 | 100% D2O | 0.12 | 7.2 | ambient | 298 | |
2 | 2D 1H-1H TOCSY | 0.3-0.5 mM DNA (34-MER)-1, 120 mM sodium perchlorate-2, 0.9-1.5 mM SILVER ION-3 | 100% D2O | 0.12 | 7.2 | ambient | 298 | |
3 | 2D 1H-13C HSQC | 0.3-0.5 mM DNA (34-MER)-1, 120 mM sodium perchlorate-2, 0.9-1.5 mM SILVER ION-3 | 100% D2O | 0.12 | 7.2 | ambient | 298 | |
4 | 2D 1H-15N HSQC | 0.3-0.5 mM DNA (34-MER)-1, 120 mM sodium perchlorate-2, 0.9-1.5 mM SILVER ION-3 | 100% D2O | 0.12 | 7.2 | ambient | 298 | |
5 | 1D 31P | 0.3-0.5 mM DNA (34-MER)-1, 120 mM sodium perchlorate-2, 0.9-1.5 mM SILVER ION-3 | 100% D2O | 0.12 | 7.2 | ambient | 298 | |
6 | 2D 1H-1H NOESY | 0.3-0.5 mM DNA (34-MER)-4, 120 mM sodium perchlorate-5, 0.9-1.5 mM SILVER ION-6 | 90% H2O/10% D2O | 0.12 | 7.2 | ambient | 278 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE | 700 |
2 | Bruker | AV-2 | 400 |
NMR Refinement | ||
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Method | Details | Software |
torsion angle dynamics | TopSpin |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 200 |
Conformers Submitted Total Number | 20 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | processing | TopSpin | 1.3, 2.0, 2.1 | Bruker Biospin |
2 | chemical shift assignment | Sparky | 3.1 | Goddard |
3 | data analysis | Sparky | 3.1 | Goddard |
4 | peak picking | Sparky | 3.1 | Goddard |
5 | structure solution | DYANA | 1.5 | Guntert, Braun and Wuthrich |
6 | structure solution | X-PLOR NIH | 2.15 | Schwieters, Kuszewski, Tjandra and Clore |
7 | refinement | X-PLOR NIH | 2.15 | Schwieters, Kuszewski, Tjandra and Clore |