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Structures of small molecules bound to RNA repeat expansions that cause Huntington's disease-like 2 and myotonic dystrophy type 1
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D NOESY 0.3 mM RNA (5'-R(*GP*AP*CP*AP*GP*CP*UP*GP*CP*UP*GP*UP*C)-3'), 5 mM potassium phosphate, 0.25 mM EDTA 100% D2O 10 mM 6.0 1 atm 298 Bruker AVANCE III HD 700 2 2D DQF-COSY 0.3 mM RNA (5'-R(*GP*AP*CP*AP*GP*CP*UP*GP*CP*UP*GP*UP*C)-3'), 5 mM potassium phosphate, 0.25 mM EDTA 100% D2O 10 mM 6.0 1 atm 298 Bruker AVANCE III HD 700 3 2D NOESY 0.3 mM RNA (5'-R(*GP*AP*CP*AP*GP*CP*UP*GP*CP*UP*GP*UP*C)-3'), 5 mM potassium phosphate, 0.25 mM EDTA 95% H2O/5% D2O 10 mM 6.0 1 atm 278 Bruker AVANCE III HD 850
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 2 Bruker AVANCE III HD 700 3 Bruker AVANCE III HD 850
NMR Refinement Method Details Software simulated annealing Amber
NMR Ensemble Information Conformer Selection Criteria structures with the least restraint violations Conformers Calculated Total Number 100 Conformers Submitted Total Number 20 Representative Model 1 (fewest violations)
Computation: NMR Software # Classification Version Software Name Author 1 collection TopSpin Bruker Biospin 2 structure calculation Amber 20 Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, and Kollman 3 data analysis NMRFAM-SPARKY 1.470 Goddard TD & Kneller DG (2008) SPARKY 3. University of California, San Francisco.