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Structural effects of m6A modification of the Xist A repeat AUCG tetraloop and its recognition by YTHDC1
NMR Experiment 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 Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE III 950 2 Bruker AVANCE III 900
NMR Refinement 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