2L1V

Solution structure of a preQ1 riboswitch (Class I) aptamer bound to preQ1

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 preQ1-RNA 36mer, 1 mM [U-13C; U-15N]-Cyt preQ1-RNA 36mer, 1 mM [U-13C; U-15N]-Ade preQ1-RNA 36mer, 1 mM [U-13C; U-15N]-Gua preQ1-RNA 36mer, 1 mM [U-13C; U-15N]-Ura preQ1-RNA 36mer, 1 mM U-H5,3',4',5',5''-2H preQ1-RNA 36mer	100% D2O	50	6.3	ambient	300
2	2D 1H-1H NOESY	1 mM preQ1-RNA 36mer, 1 mM [U-13C; U-15N] preQ1-RNA 36mer	90% H2O/10% D2O	50	6.3	ambient	300
3	2D 1H-1H TOCSY	1 mM preQ1-RNA 36mer, 1 mM [U-13C; U-15N]-Cyt preQ1-RNA 36mer, 1 mM [U-13C; U-15N]-Ade preQ1-RNA 36mer, 1 mM [U-13C; U-15N]-Gua preQ1-RNA 36mer, 1 mM [U-13C; U-15N]-Ura preQ1-RNA 36mer, 1 mM U-H5,3',4',5',5''-2H preQ1-RNA 36mer	100% D2O	50	6.3	ambient	300
4	3D HCCH-TOCSY	1 mM preQ1-RNA 36mer, 1 mM [U-13C; U-15N]-Cyt preQ1-RNA 36mer, 1 mM [U-13C; U-15N]-Ade preQ1-RNA 36mer, 1 mM [U-13C; U-15N]-Gua preQ1-RNA 36mer, 1 mM [U-13C; U-15N]-Ura preQ1-RNA 36mer, 1 mM U-H5,3',4',5',5''-2H preQ1-RNA 36mer	100% D2O	50	6.3	ambient	300
5	2D DQF-COSY	1 mM preQ1-RNA 36mer, 1 mM [U-13C; U-15N]-Cyt preQ1-RNA 36mer, 1 mM [U-13C; U-15N]-Ade preQ1-RNA 36mer, 1 mM [U-13C; U-15N]-Gua preQ1-RNA 36mer, 1 mM [U-13C; U-15N]-Ura preQ1-RNA 36mer, 1 mM U-H5,3',4',5',5''-2H preQ1-RNA 36mer	100% D2O	50	6.3	ambient	300
6	2D 1H-13C HSQC	1 mM preQ1-RNA 36mer, 1 mM [U-13C; U-15N]-Cyt preQ1-RNA 36mer, 1 mM [U-13C; U-15N]-Ade preQ1-RNA 36mer, 1 mM [U-13C; U-15N]-Gua preQ1-RNA 36mer, 1 mM [U-13C; U-15N]-Ura preQ1-RNA 36mer, 1 mM U-H5,3',4',5',5''-2H preQ1-RNA 36mer	100% D2O	50	6.3	ambient	300
7	2D 1H-15N COSY	1 mM preQ1-RNA 36mer, 1 mM [U-13C; U-15N] preQ1-RNA 36mer	90% H2O/10% D2O	50	6.3	ambient	300
8	2D 1H-13C HSQC	0.7 mM [U-13C; U-15N] preQ1-RNA 36mer	90% H2O/10% D2O, phage	50	6.3	ambient	300
9	2D 1H-15N HSQC	0.7 mM [U-13C; U-15N] preQ1-RNA 36mer	90% H2O/10% D2O, phage	50	6.3	ambient	300

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	DRX	500
2	Bruker	DRX	600
3	Bruker	AVANCE	800

NMR Refinement
Method	Details	Software
simulated annealing		XwinNMR

NMR Ensemble Information
Conformer Selection Criteria	structures with the lowest energy
Conformers Calculated Total Number	200
Conformers Submitted Total Number	20
Representative Model	1 (lowest energy)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	collection	XwinNMR		Varian
2	processing	XwinNMR		Varian
3	chemical shift assignment	Sparky		Goddard
4	data analysis	Sparky		Goddard
5	peak picking	Sparky		Goddard
6	structure solution	X-PLOR NIH		Schwieters, Kuszewski, Tjandra and Clore
7	refinement	X-PLOR NIH		Schwieters, Kuszewski, Tjandra and Clore