6GMY
Tc-DNA/RNA duplex
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 | 0.5 mM tc-DNA/RNA, 50 mM NaCl, 10 mM NaH2PO4 | 100% D2O | NaCl 50 mM, NaH2PO4 10 mM | 7.05 | 1 atm | 298 | Bruker AVANCE II 700 |
2 | 2D 1H-1H NOESY | 0.5 mM tc-DNA/RNA, 50 mM NaCl, 10 mM NaH2PO4 | 90% H2O/10% D2O | NaCl 50 mM, NaH2PO4 10 mM | 7.05 | 1 atm | 283 | Bruker AVANCE II 700 |
3 | 2D 1H-1H TOCSY | 0.5 mM tc-DNA/RNA, 50 mM NaCl, 10 mM NaH2PO4 | 100% D2O | NaCl 50 mM, NaH2PO4 10 mM | 7.05 | 1 atm | 298 | Bruker AVANCE II 700 |
4 | 2D DQF-COSY | 0.5 mM tc-DNA/RNA, 50 mM NaCl, 10 mM NaH2PO4 | 100% D2O | NaCl 50 mM, NaH2PO4 10 mM | 7.05 | 1 atm | 298 | Bruker AVANCE II 700 |
5 | 2D 1H-13C HSQC | 0.5 mM tc-DNA/RNA, 50 mM NaCl, 10 mM NaH2PO4 | 100% D2O | NaCl 50 mM, NaH2PO4 10 mM | 7.05 | 1 atm | 298 | Bruker AVANCE II 700 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE II | 700 |
NMR Refinement | ||
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Method | Details | Software |
simulated annealing | CNS | |
simulated annealing | GROMOS |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the least restraint violations |
Conformers Calculated Total Number | 100 |
Conformers Submitted Total Number | 10 |
Representative Model | 1 (closest to the average) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | refinement | CNS | Brunger, Adams, Clore, Gros, Nilges and Read | |
2 | refinement | GROMOS | van Gunsteren and Berendsen | |
3 | chemical shift assignment | Sparky | Goddard | |
4 | processing | NMRPipe | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax |