2K41 | pdb_00002k41

NMR structure of uridine bulged RNA duplex

SOLUTION NMR

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NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-1H NOESY	1 mM RNA (5'-R(*GP*UP*CP*GP*UP*GP*CP*UP*G)-3'), 1 mM RNA (5'-R(*CP*AP*GP*CP*CP*GP*AP*C)-3')	100% D2O	60	6.8	ambient	298
2	2D DQF-COSY	1 mM RNA (5'-R(*GP*UP*CP*GP*UP*GP*CP*UP*G)-3'), 1 mM RNA (5'-R(*CP*AP*GP*CP*CP*GP*AP*C)-3')	100% D2O	60	6.8	ambient	298
3	2D 1H-1H TOCSY	1 mM RNA (5'-R(*GP*UP*CP*GP*UP*GP*CP*UP*G)-3'), 1 mM RNA (5'-R(*CP*AP*GP*CP*CP*GP*AP*C)-3')	100% D2O	60	6.8	ambient	298
4	2D 1H-13C HSQC	1 mM RNA (5'-R(*GP*UP*CP*GP*UP*GP*CP*UP*G)-3'), 1 mM RNA (5'-R(*CP*AP*GP*CP*CP*GP*AP*C)-3')	100% D2O	60	6.8	ambient	298
5	2D 1H-31P HSQC	1 mM RNA (5'-R(*GP*UP*CP*GP*UP*GP*CP*UP*G)-3'), 1 mM RNA (5'-R(*CP*AP*GP*CP*CP*GP*AP*C)-3')	100% D2O	60	6.8	ambient	298
6	2D 1H-1H NOESY	1 mM RNA (5'-R(*GP*UP*CP*GP*UP*GP*CP*UP*G)-3'), 1 mM RNA (5'-R(*CP*AP*GP*CP*CP*GP*AP*C)-3')	90% H2O/10% D2O	60	6.8	ambient	283

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE	600

NMR Refinement
Method	Details	Software
torsion angle dynamics		Felix

NMR Ensemble Information
Conformer Selection Criteria	structures with the lowest energy
Conformers Calculated Total Number	50
Conformers Submitted Total Number	10
Representative Model	1 (lowest energy)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	peak picking	Felix		Accelrys Software Inc.
2	chemical shift assignment	Felix		Accelrys Software Inc.
3	collection	TopSpin		Bruker Biospin
4	processing	TopSpin		Bruker Biospin
5	structure solution	X-PLOR NIH		Schwieters, Kuszewski, Tjandra and Clore
6	refinement	X-PLOR NIH		Schwieters, Kuszewski, Tjandra and Clore
7	data analysis	Curves		Lavery and Sklenar