7MSV | pdb_00007msv

Solution Structure of Berberine Bound to a dGMP Fill-in G-Quadruplex in the PDGFR-b Promoter

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	1.5 mM BER-dGMP-Pu19m2	90% H2O/10% D2O	50 mM	7.0	760 mmHg	298	Bruker AV-800 800
2	2D 1H-1H NOESY	1.5 mM BER-dGMP-Pu19m2	90% H2O/10% D2O	50 mM	7.0	760 mmHg	288	Bruker AV-800 800
3	2D 1H-1H NOESY	1.5 mM BER-dGMP-Pu19m2	90% H2O/10% D2O	50 mM	7.0	760 mmHg	308	Bruker AV-800 800
4	2D 1H-13C HSQC	1.5 mM BER-dGMP-Pu19m2	90% H2O/10% D2O	50 mM	7.0	760 mmHg	298	Bruker AV-800 800
5	2D 1H-1H TOCSY	1.5 mM BER-dGMP-Pu19m2	90% H2O/10% D2O	50 mM	7.0	760 mmHg	298	Bruker AV-800 800
6	1D GEJRSE HMQC	9 mM [U-100% 13C; U-100% 15N] dGMP	90% H2O/10% D2O	50 mM	7.0	760 mmHg	298	Bruker AV-800 800

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AV-500	500
2	Bruker	AV-800	800

NMR Refinement
Method	Details	Software
molecular dynamics		Amber

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)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	collection	TopSpin		Bruker Biospin
2	chemical shift assignment	NMRFAM-SPARKY		Lee W, Tonelli M, Markley JL.
3	structure calculation	X-PLOR NIH		Schwieters, Kuszewski, Tjandra and Clore
4	refinement	Amber		Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, and Kollman