2MVY
Structure and Stability of RNAs Containing N6-Methyl-adenosine
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 | 0.2 mM RNA, 100 mM sodium chloride, 0.1 mM EDTA, 10 mM sodium phosphate | 100% D2O | 100 | 6.4 | 1 atm | 298 | |
2 | 2D DQF-COSY | 0.2 mM RNA, 100 mM sodium chloride, 0.1 mM EDTA, 10 mM sodium phosphate | 100% D2O | 100 | 6.4 | 1 atm | 298 | |
3 | 2D 1H-13C HSQC | 0.2 mM RNA, 100 mM sodium chloride, 0.1 mM EDTA, 10 mM sodium phosphate | 100% D2O | 100 | 6.4 | 1 atm | 298 | |
4 | 2D 1H-1H COSY | 0.2 mM RNA, 100 mM sodium chloride, 0.1 mM EDTA, 10 mM sodium phosphate | 100% D2O | 100 | 6.4 | 1 atm | 298 | |
5 | 2D 1H-1H TOCSY | 0.2 mM RNA, 100 mM sodium chloride, 0.1 mM EDTA, 10 mM sodium phosphate | 100% D2O | 100 | 6.4 | 1 atm | 298 | |
6 | 2D 1H-1H NOESY | 0.2 mM RNA, 100 mM sodium chloride, 0.1 mM EDTA, 10 mM sodium phosphate | 90% H2O/10% D2O | 100 | 6.4 | 1 atm | 298 | |
7 | 2D 1H-31P COSY | 0.2 mM RNA, 100 mM sodium chloride, 0.1 mM EDTA, 10 mM sodium phosphate | 100% D2O | 100 | 6.4 | 1 atm | 298 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Varian | INOVA | 600 |
2 | Varian | INOVA | 500 |
NMR Refinement | ||
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Method | Details | Software |
simulated annealing, molecular dynamics | VNMR |
NMR Ensemble Information | |
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Conformer Selection Criteria | target function |
Conformers Calculated Total Number | 30 |
Conformers Submitted Total Number | 1 |
Representative Model | 1 (minimized average structure) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | collection | VNMR | 6.1C | Varian |
2 | processing | VNMR | 6.1C | Varian |
3 | chemical shift assignment | Sparky | 3.115 | Goddard |
4 | data analysis | Sparky | 3.115 | Goddard |
5 | structure solution | X-PLOR NIH | 2.36 | Brunger |
6 | refinement | X-PLOR NIH |