2OJ8 | pdb_00002oj8

NMR structure of the UGUU tetraloop of Duck Epsilon apical stem loop of the Hepatitis B virus

SOLUTION NMR

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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.