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Solution structure of stem-loop alpha of the hepatitis B virus post-transcriptional regulatory element
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-15N HSQC 1mM [U-100% 13C; U-100% 15N] RNA, 10mM potassium phosphate, 40mM potassium chloride, 0. mM EDTA 90% H2O/10% D2O 50 6.2 ambient atm 283 2 2D 1H-13C HSQC 1mM [U-100% 13C; U-100% 15N] RNA, 10mM potassium phosphate, 40mM potassium chloride, 0. mM EDTA 90% H2O/10% D2O 50 6.2 ambient atm 293 3 2D 1H-13C HSQC 1mM [U-100% 13C; U-100% 15N] RNA, 10mM potassium phosphate, 40mM potassium chloride, 0.2mM EDTA 99% D2O 50 6.2 ambient atm 293 4 2D 1H-1H NOESY 1mM [U-100% 13C; U-100% 15N] RNA, 10mM potassium phosphate, 40mM potassium chloride, 0. mM EDTA 90% H2O/10% D2O 50 6.2 ambient atm 283 5 3D 1H-13C NOESY 1mM [U-100% 13C; U-100% 15N] RNA, 10mM potassium phosphate, 40mM potassium chloride, 0.2mM EDTA 99% D2O 50 6.2 ambient atm 293 6 3D HCCH-TOCSY 1mM [U-100% 13C; U-100% 15N] RNA, 10mM potassium phosphate, 40mM potassium chloride, 0.2mM EDTA 99% D2O 50 6.2 ambient atm 293
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Varian INOVA 600 2 Varian INOVA 750
NMR Refinement Method Details Software DGSA-distance geometry simulated annealing, force field-based em structure calculation, energy minimisation CYANA
NMR Ensemble Information Conformer Selection Criteria target function Conformers Calculated Total Number 100 Conformers Submitted Total Number 15 Representative Model 1 (closest to the average)
Computation: NMR Software # Classification Version Software Name Author 1 structure solution CYANA 2.0 Guntert, Mumenthaler and Wuthrich 2 peak picking XEASY Bartels et al. 3 chemical shift assignment XEASY Bartels et al. 4 processing VNMR Varian 5 collection VNMR Varian 6 refinement OPAL Luginbuhl, Guntert, Billeter and Wuthrich 7 collection OPAL Luginbuhl, Guntert, Billeter and Wuthrich