9SQC | pdb_00009sqc

NMR structure of AT-rich DNA bound to the minor groove ligand JNII40

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	400 uM DNA (5'-D(*CP*AP*TP*AP*TP*AP*TP*AP*TP*G)-3'), 400 uM JNII40, 10 mM sodium phosphate, 100 mM sodium chloride	100% D2O	110 mM	6.3	1 atm	278	Bruker AVANCE NEO 600
2	2D 1H-1H TOCSY	400 uM DNA (5'-D(*CP*AP*TP*AP*TP*AP*TP*AP*TP*G)-3'), 400 uM JNII40, 10 mM sodium phosphate, 100 mM sodium chloride	100% D2O	110 mM	6.3	1 atm	278	Bruker AVANCE NEO 600
3	2D 1H-1H COSY	400 uM DNA (5'-D(*CP*AP*TP*AP*TP*AP*TP*AP*TP*G)-3'), 400 uM JNII40, 10 mM sodium phosphate, 100 mM sodium chloride	100% D2O	110 mM	6.3	1 atm	278	Bruker AVANCE NEO 600
4	2D 1H-1H NOESY	300 uM DNA (5'-D(*CP*AP*TP*AP*TP*AP*TP*AP*TP*G)-3'), 300 uM JNII40, 10 mM sodium phosphate, 100 mM sodium chloride	90% H2O/10% D2O	110 mM	6.3	1 atm	278	Bruker AVANCE NEO 600
5	2D 1H-1H TOCSY	300 uM DNA (5'-D(*CP*AP*TP*AP*TP*AP*TP*AP*TP*G)-3'), 300 uM JNII40, 10 mM sodium phosphate, 100 mM sodium chloride	90% H2O/10% D2O	110 mM	6.3	1 atm	278	Bruker AVANCE NEO 600

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

NMR Refinement
Method	Details	Software
molecular dynamics		Amber

NMR Ensemble Information
Conformer Selection Criteria	all calculated structures submitted
Conformers Calculated Total Number	10
Conformers Submitted Total Number	10
Representative Model	1 (closest to the average)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	refinement	TopSpin		Bruker Biospin
2	structure calculation	Amber		Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman
3	chemical shift assignment	Poky		Manthey, Tonelli, Clos II, Rahimi, Markley and Lee
4	peak picking	Poky		Manthey, Tonelli, Clos II, Rahimi, Markley and Lee