5VH8

Structure and dynamics of RNA repeat expansions that cause Huntington's Disease and myotonic dystrophy type 1

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	0.5 mM NA Adenosine, Cytidine,Guanosine, Uridine RNA (5'-R(*GP*AP*CP*CP*UP*GP*CP*UP*GP*CP*UP*GP*GP*UP*C)-3'), 5.0 mM potassium phosphate, 0.25 mM EDTA	100% D2O	0.0112 M	6	1 atm	298	Bruker Avance III HD UltraShield 700
2	2D 1H-1H NOESY	0.5 uM NA Adenosine, Cytidine,Guanosine, Uridine RNA (5'-R(*GP*AP*CP*CP*UP*GP*CP*UP*GP*CP*UP*GP*GP*UP*C)-3'), 5.0 mM potassium phosphate, 0.25 nM EDTA	90% H2O/10% D2O	0.0112 M	6	1 atm	276	Bruker Avance III HD Ascend 850

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	Avance III HD UltraShield	700
2	Bruker	Avance III HD Ascend	850

NMR Refinement
Method	Details	Software
simulated annealing		Amber

NMR Ensemble Information
Conformer Selection Criteria	structures with the lowest energy
Conformers Calculated Total Number	40
Conformers Submitted Total Number	20
Representative Model	1 (lowest energy)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	collection	TopSpin	3.5	Bruker Biospin
2	refinement	Amber	16	Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman
3	chemical shift assignment	Sparky	3.0	Goddard
4	peak picking	Sparky	3.0	Goddard
5	data analysis	Amber	16	Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman
6	processing	NMRPipe	8.9	Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
7	structure calculation	Amber	16