2L8I
A biocompatible backbone modification? - Structure and dynamics of a triazole-linked DNA duplex
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D DQF-COSY | 3 mM DNA strand I, 3 mM DNA strand II, 99,98 % [U-100% 2H] D2O, 150 mM sodium chloride, 10 mM sodium phosphate | 100% D2O | 150 | 6.5 | ambient | 298 | |
2 | 2D 1H-1H NOESY | 3 mM DNA strand I, 3 mM DNA strand II, 99,98 % [U-100% 2H] D2O, 150 mM sodium chloride, 10 mM sodium phosphate | 100% D2O | 150 | 6.5 | ambient | 298 | |
3 | 2D 1H-1H TOCSY | 3 mM DNA strand I, 3 mM DNA strand II, 99,98 % [U-100% 2H] D2O, 150 mM sodium chloride, 10 mM sodium phosphate | 100% D2O | 150 | 6.5 | ambient | 298 | |
4 | 2D 1H-13C HMQC | 3 mM DNA strand I, 3 mM DNA strand II, 99,98 % [U-100% 2H] D2O, 150 mM sodium chloride, 10 mM sodium phosphate | 100% D2O | 150 | 6.5 | ambient | 298 | |
5 | 2D 1H-13C HMQC | 3 mM DNA strand I, 3 mM DNA strand II, 99,98 % [U-100% 2H] D2O, 20 mg/ml Pf1 phage, 150 mM sodium chloride, 10 mM sodium phosphate | 100% D2O | 150 | 6.5 | ambient | 298 | |
6 | 2D 1H-1H NOESY | 3 mM DNA strand I, 3 mM DNA strand II, 10 % [U-99% 2H] D2O, 90 % H2O, 150 mM sodium chloride, 10 mM sodium phosphate | 90% H2O/10% D2O | 150 | 6.5 | ambient | 298 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE | 600 |
NMR Refinement | ||
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Method | Details | Software |
torsion angle dynamics | 20000K | CARA |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 100 |
Conformers Submitted Total Number | 11 |
Representative Model | 1 (minimized average structure) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | chemical shift assignment | CARA | 1.84 | Keller and Wuthrich |
2 | peak picking | CARA | 1.84 | Keller and Wuthrich |
3 | collection | TopSpin | 2.1 | Bruker Biospin |
4 | processing | TopSpin | 2.1 | Bruker Biospin |
5 | refinement | X-PLOR NIH | 2.20 | Schwieters, Kuszewski, Tjandra and Clore |
6 | structure solution | X-PLOR NIH | 2.20 | Schwieters, Kuszewski, Tjandra and Clore |