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NMR structure of the UGUU tetraloop of Duck Epsilon apical stem loop of the Hepatitis B virus
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D NOESY 1.2 mM RNA, 10mM Na phosphate buffer, pH 6.7, 0.1 mM EDTA, 95% H2O, 5% D2O 10mM 6.7 ambient 5 2 2D NOESY 1.2 mM RNA, 10mM Na phosphate buffer, pH 6.7, 0.1 mM EDTA, 95% H2O, 5% D2O 10mM 6.7 ambient 15 3 HMQC-15N/1H 1.0 mM 13C/15N/2H-U labeled RNA, 10mM Na phosphate buffer, pH 6.7, 0.1 mM EDTA, 95% H2O, 5% D2O 10mM 6.7 ambient 5 4 DQF-COSY 1.2 mM RNA, 10mM Na phosphate buffer, pH 6.7, 0.1 mM EDTA, D2O 10mM 6.7 ambient 25 5 HMQC-13C/1H 1.0 mM 13C/15N/2H-U labeled RNA, 10mM Na phosphate buffer, pH 6.7, 0.1 mM EDTA, D2O 10mM 6.7 ambient 25 6 2D NOESY 1.2 mM RNA, 10mM Na phosphate buffer, pH 6.7, 0.1 mM EDTA, D2O 10mM 6.7 ambient 25
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Varian INOVA 500 2 Varian INOVA 800
NMR Refinement Method Details Software Torsion angle dynamics with chemical shift refinement using XPLOR 8.351 with home written refinement chemical shift refinement module X-PLOR
NMR Ensemble Information Conformer Selection Criteria structures with the lowest energy Conformers Calculated Total Number 100 Conformers Submitted Total Number 10 Representative Model 1 (lowest energy)
Additional NMR Experimental Information Details In addition TOCSY spectra and 31P 1D and 31P HMBC spectra were recorded
Computation: NMR Software # Classification Version Software Name Author 1 refinement X-PLOR 3.851* Girard, F.C., Ottink O.M., Ampt, K.A.M., Tessari, M., Wijmenga, S.S.