7ALU | pdb_00007alu

NMR structure of a DNA G-quadruplex containing two SP1 binding sites from HIV-1 promoter

SOLUTION NMR

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-1H NOESY	857 uM None HIVpro3	90% H2O/10% D2O	70 KCl; 20 KPi mM	6.9	1 atm	293	Bruker AVANCE III 800
2	2D 1H-1H NOESY	2.4 mM None HIVpro3	100% D2O	70 KCl; 20 KPi mM	6.9	1 atm	293	Bruker AVANCE III 800
3	2D 1H-13C HSQC aromatic	2.4 mM None HIVpro3	100% D2O	70 KCl; 20 KPi mM	6.9	1 atm	293	Bruker AVANCE III 700
4	2D 1H-13C HSQC aliphatic	2.4 mM None HIVpro3	100% D2O	70 KCl; 20 KPi mM	6.9	1 atm	293	Bruker AVANCE III 700
5	2D 1H-1H TOCSY	2.4 mM None HIVpro3	100% D2O	70 KCl; 20 KPi mM	6.9	1 atm	293	Bruker AVANCE III 700

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE III	400
2	Bruker	AVANCE III	700
3	Bruker	AVANCE III	800

NMR Refinement
Method	Details	Software
molecular dynamics		Amber

NMR Ensemble Information
Conformer Selection Criteria	structures with the lowest energy
Conformers Calculated Total Number	750
Conformers Submitted Total Number	10
Representative Model	1 (lowest energy)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	data analysis	TopSpin		Bruker Biospin
2	chemical shift assignment	Sparky		Goddard
3	structure calculation	ARIA		Linge, O'Donoghue and Nilges
4	refinement	Amber		Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.