7POF
Structural effects of m6A modification of the Xist A repeat AUCG tetraloop and its recognition by YTHDC1
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
3 | 2D 1H-1H NOESY | 25 mM sodium chloride, 25 mM sodium phosphate | 95% H2O/5% D2O | 25 mM | 6.5 | 1 atm | 298 | Bruker AVANCE III 900 |
1 | 2D 1H-1H NOESY | 25 mM sodium chloride, 25 mM sodium phosphate | 100% D2O | 25 mM | 6.5 | 1 atm | 298 | Bruker AVANCE III 900 |
2 | 2D 1H-1H TOCSY | 25 mM sodium chloride, 25 mM sodium phosphate | 100% D2O | 25 mM | 6.5 | 1 atm | 298 | Bruker AVANCE III 950 |
4 | 2D HNN COSY | 25 mM sodium chloride, 25 mM sodium phosphate | 100% D2O | 25 mM | 6.5 | 1 atm | 298 | Bruker AVANCE III 950 |
5 | 3D 1H-13C NOESY HMQC | 25 mM sodium chloride, 25 mM sodium phosphate | 100% D2O | 25 mM | 6.5 | 1 atm | 298 | Bruker AVANCE III 900 |
6 | 2D 1H-13C HMQC | 25 mM sodium chloride, 25 mM sodium phosphate | 100% D2O | 25 mM | 6.5 | 1 atm | 298 | Bruker AVANCE III 900 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE III | 950 |
2 | Bruker | AVANCE III | 900 |
NMR Refinement | ||
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Method | Details | Software |
simulated annealing | X-PLOR NIH |
NMR Ensemble Information | |
---|---|
Conformer Selection Criteria | structures with the least restraint violations |
Conformers Calculated Total Number | 200 |
Conformers Submitted Total Number | 10 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
---|---|---|---|---|
# | Classification | Version | Software Name | Author |
1 | chemical shift assignment | CcpNmr Analysis | 2.4 | CCPN |
2 | structure calculation | X-PLOR NIH | Schwieters, Kuszewski, Tjandra and Clore | |
3 | refinement | X-PLOR NIH | Schwieters, Kuszewski, Tjandra and Clore | |
4 | processing | TopSpin | 3.5 pl6 | Bruker Biospin |