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RNA Duplex containing the internal loop 5'-UUCG/3'-GCUU
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 1 mM RNA (5'-R(*CP*GP*CP*AP*UP*UP*CP*GP*AP*CP*GP*C)-3'), 1 mM RNA (5'-R(*GP*CP*GP*UP*UP*UP*CP*GP*UP*GP*CP*G)-3') 90% H2O/10% D2O 130 Na+ mM 6.2 1 atm 293 Varian INOVA 600 2 2D 1H-1H TOCSY 1 mM RNA (5'-R(*CP*GP*CP*AP*UP*UP*CP*GP*AP*CP*GP*C)-3'), 1 mM RNA (5'-R(*GP*CP*GP*UP*UP*UP*CP*GP*UP*GP*CP*G)-3') 90% H2O/10% D2O 130 Na+ mM 6.2 1 atm 293 Varian INOVA 600
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Varian INOVA 600
NMR Refinement Method Details Software simulated annealing Amber
NMR Ensemble Information Conformer Selection Criteria structures with the lowest energy Conformers Calculated Total Number 100 Conformers Submitted Total Number 20 Representative Model 1 (closest to the average)
Computation: NMR Software # Classification Version Software Name Author 1 refinement Amber Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman 2 structure calculation Amber Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman 3 chemical shift assignment Sparky Goddard 4 processing NMRPipe Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax 6 data analysis Sparky Goddard 5 processing NMRDraw Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax