2K8Z | pdb_00002k8z

Dimeric solution structure of the DNA loop d(TCGTTGCT)

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	0.1-2.0 mM DNA (5'-D(*DTP*DCP*DGP*DTP*DTP*DGP*DCP*DT)-3'), 25 mM sodium phosphate, 100 mM sodium chloride, 10 mM magnesium chloride	90% H2O/10% D2O		7	ambient	278
2	2D 1H-1H TOCSY	0.1-2.0 mM DNA (5'-D(*DTP*DCP*DGP*DTP*DTP*DGP*DCP*DT)-3'), 25 mM sodium phosphate, 100 mM sodium chloride, 10 mM magnesium chloride	90% H2O/10% D2O		7	ambient	278
3	2D DQF-COSY	0.1-2.0 mM DNA (5'-D(*DTP*DCP*DGP*DTP*DTP*DGP*DCP*DT)-3'), 25 mM sodium phosphate, 100 mM sodium chloride, 10 mM magnesium chloride	90% H2O/10% D2O		7	ambient	278

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	DMX	600
2	Bruker	DPX	800

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 (lowest energy)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	structure solution	Amber		Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollm
2	structure solution	DYANA		Guntert, Braun and Wuthrich
3	chemical shift assignment	Sparky		Goddard
4	peak picking	Sparky		Goddard
5	data analysis	Sparky		Goddard
6	refinement	DYANA		Guntert, Braun and Wuthrich