7VM9 | pdb_00007vm9

Solution NMR structures of DNA minidumbbell formed with two regular CTTTG pentaloops

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	1.0 mM NA- DNA (5'-D(*CP*TP*TP*TP*GP*CP*TP*TP*TP*G)-3'), 0.02 mM NA- DSS, 10 mM NA- NaPi	100% D2O	10 mM NaPi mM	7.0	1 atm	278	Bruker AVANCE 500
2	2D DQF-COSY	1.0 mM NA- DNA (5'-D(*CP*TP*TP*TP*GP*CP*TP*TP*TP*G)-3'), 0.02 mM NA- DSS, 10 mM NA- NaPi	100% D2O	10 mM NaPi mM	7.0	1 atm	278	Bruker AVANCE 500
3	2D 1H-1H TOCSY	1.0 mM NA- DNA (5'-D(*CP*TP*TP*TP*GP*CP*TP*TP*TP*G)-3'), 0.02 mM NA- DSS, 10 mM NA- NaPi	100% D2O	10 mM NaPi mM	7.0	1 atm	278	Bruker AVANCE 500

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE	500

NMR Refinement
Method	Details	Software
simulated annealing		Amber

NMR Ensemble Information
Conformer Selection Criteria	structures with the lowest energy
Conformers Calculated Total Number	1000
Conformers Submitted Total Number	10
Representative Model	1 (lowest energy)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	refinement	Amber	16	Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman
2	structure calculation	Amber	16	Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman
3	chemical shift assignment	TopSpin	3.5	Bruker Biospin