1R7Z

NMR STRUCTURE OF THE R(GGAGGACAUUCCUCACGGGUGACCGUGGUCCUCC), DOMAIN IV STEM-LOOP B OF ENTEROVIRAL IRES WITH AUUCCU BULGE

SOLUTION NMR

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NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D NOESY	1mM unlabeled RNA, 25mM NaCl, 25mM sodium phosphate buffer (pH 6.5), 90% H2O; 10% D2O	90% H2O/10% D2O	50 mM Na+ ions	6.5	ambient	278
2	2D NOESY	1mM unlabeled RNA, 25mM NaCl, 25mM sodium phosphate buffer (pH 6.5)	D2O	50 mM Na+ ions	6.5	ambient	298
3	DQF-COSY	1mM unlabeled RNA, 25mM NaCl, 25mM sodium phosphate buffer (pH 6.5)	D2O	50 mM Na+ ions	6.5	ambient	298
4	1H-13C CONSTANT TIME HSQC	1mM of RNA labeled in residues A and U with 13C, 15N, 25mM NaCl, 25mM sodium phosphate buffer (pH 6.5), 5% (weight/volume) of C12E6/n-hexanol mixture (molar ratio 0.64)	D2O	50 mM Na+ ions	6.5	ambient	298

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Varian	INOVA	600

NMR Refinement
Method	Details	Software
FULL MATRIX RELAXATION ANALYSIS OF NOE, RANDOM ERROR ANALYSIS OF NOE, SIMULATED ANNEALING USING RESTRAINED MOLECULAR DYNAMICS	STRUCTURES ARE REFINED BASED ON 614 NOE-DERIVED DISTANCES AND 26 RESIDUAL DIPOLAR COUPLINGS	VNMR

NMR Ensemble Information
Conformer Selection Criteria	LOWEST TOTAL ENERGY (A WEIGHTED SUM OF CONFORMATIONAL ENERGY AND RESTRAINT ENERGY)
Conformers Calculated Total Number	50
Conformers Submitted Total Number	20
Representative Model	1 (lowest energy)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	collection	VNMR	6.1	Varian Associates, Inc.
2	processing	NMRPipe	2.1	F.Delaglio
3	iterative matrix relaxation	MARDIGRAS	3.2	T.L.James
4	refinement	DYANA	1.5	P.Guntert
5	refinement	Amber	7	D.A.Case