2L8U | pdb_00002l8u

NMR Spectroscopy and Molecular Dynamics Simulation of r(CCGCUGCGG)2 Reveal a Dynamic UU Internal Loop Found in Myotonic Dystrophy Type 1 - UU pair with one hydrogen bond pair

SOLUTION NMR

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NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D DQF-COSY	1.5 mM RNA (5'-R(*CP*CP*GP*CP*UP*GP*CP*GP*G)-3')	100% D2O	0.1	7.2	ambient	313
2	2D 1H-1H NOESY	1.5 mM RNA (5'-R(*CP*CP*GP*CP*UP*GP*CP*GP*G)-3')	100% D2O	0.1	7.2	ambient	313
3	2D 1H-1H TOCSY	1.5 mM RNA (5'-R(*CP*CP*GP*CP*UP*GP*CP*GP*G)-3')	100% D2O	0.1	7.2	ambient	313

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Varian	INOVA	500

NMR Refinement
Method	Details	Software
molecular dynamics		CYANA

NMR Ensemble Information
Conformer Selection Criteria	structures with acceptable covalent geometry
Conformers Calculated Total Number	25
Conformers Submitted Total Number	1
Representative Model	1 (fewest violations)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	geometry optimization	CYANA	2.1	Guntert, Mumenthaler and Wuthrich
2	chemical shift assignment	Sparky	3.111	Goddard
3	data analysis	Sparky	3.111	Goddard
4	peak picking	Sparky	3.111	Goddard
5	refinement	Amber	11	Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, and Kollm
6	structure solution	Amber	11	Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, and Kollm