2N60

G-quadruplexes with (4n-1) guanines in the G-tetrad core: formation of a G-triad water complex and implication for small-molecule binding

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	0.1-1.2 mM DNA (5'-D(*TP*TP*GP*TP*GP*TP*GP*GP*GP*TP*GP*GP*GP*TP*GP*GP*GP*T)-3')-1	90% H2O/10% D2O	45	7	ambient	298
2	2D 1H-1H NOESY	0.6-1.2 mM DNA (5'-D(*TP*TP*GP*TP*GP*TP*GP*GP*GP*TP*GP*GP*GP*TP*GP*GP*GP*T)-3')-3	100% D2O	45	7	ambient	298
3	2D 1H-1H HMBC	0.1-1.2 mM DNA (5'-D(*TP*TP*GP*TP*GP*TP*GP*GP*GP*TP*GP*GP*GP*TP*GP*GP*GP*T)-3')-1	90% H2O/10% D2O	45	7	ambient	298
4	1D 15N-filtered 1H NMR	0.2-0.4 mM [U-4% 15N] DNA (5'-D(*TP*TP*GP*TP*GP*TP*GP*GP*GP*TP*GP*GP*GP*TP*GP*GP*GP*T)-3')-2	90% H2O/10% D2O	45	7	ambient	298
5	1D 1H NMR	0.2-0.4 mM [U-100% 2H] DNA (5'-D(*TP*TP*GP*TP*GP*TP*GP*GP*GP*TP*GP*GP*GP*TP*GP*GP*GP*T)-3')-4	90% H2O/10% D2O	45	7	ambient	298
6	1D 1H NMR	0.1-1.2 mM DNA (5'-D(*TP*TP*GP*TP*GP*TP*GP*GP*GP*TP*GP*GP*GP*TP*GP*GP*GP*T)-3')-1	90% H2O/10% D2O	45	7	ambient	298

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	Avance	600
2	Bruker	Avance	700

NMR Refinement
Method	Details	Software
molecular dynamics, DGSA-distance geometry simulated annealing, simulated annealing		AMBER

NMR Ensemble Information
Conformer Selection Criteria	structures with the lowest energy
Conformers Calculated Total Number	10000
Conformers Submitted Total Number	10
Representative Model	1 (lowest energy)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	refinement	AMBER		Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman
2	structure solution	AMBER		Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman
3	chemical shift assignment	SPARKY		Goddard
4	peak picking	SPARKY		Goddard
5	chemical shift calculation	SPARKY		Goddard
6	data analysis	SPARKY		Goddard
7	collection	TOPSPIN		Bruker Biospin
8	geometry optimization	X-PLOR		Schwieters, Kuszewski, Tjandra and Clore
9	refinement	X-PLOR		Schwieters, Kuszewski, Tjandra and Clore
10	data analysis	Spinworks		http://home.cc.umanitoba.ca/~wolowiec/spinworks