9KAD | pdb_00009kad

Solution NMR structure of an RNA duplex containing pure CAG repeats

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	0.4 mM RNA (5'-R(*GP*CP*AP*GP*CP*AP*GP*CP*AP*GP*CP*AP*GP*C)-3'), 0.02 mM DSS, 1 mM sodium phosphate, 5 mM magnesium chloride, 0.1 mM EDTA	99.96% D2O	10 mM	7	1 atm	288	Bruker AVANCE 700
2	2D 1H-1H COSY	0.4 mM RNA (5'-R(*GP*CP*AP*GP*CP*AP*GP*CP*AP*GP*CP*AP*GP*C)-3'), 0.02 mM DSS, 1 mM sodium phosphate, 5 mM magnesium chloride, 0.1 mM EDTA	99.96% D2O	10 mM	7	1 atm	288	Bruker AVANCE 700
3	2D 1H-1H TOCSY	0.4 mM RNA (5'-R(*GP*CP*AP*GP*CP*AP*GP*CP*AP*GP*CP*AP*GP*C)-3'), 0.02 mM DSS, 1 mM sodium phosphate, 5 mM magnesium chloride, 0.1 mM EDTA	99.96% D2O	10 mM	7	1 atm	288	Bruker AVANCE 700

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE	700

NMR Refinement
Method	Details	Software
simulated annealing		Amber

NMR Ensemble Information
Conformer Selection Criteria	structures with the least restraint violations
Conformers Calculated Total Number	200
Conformers Submitted Total Number	10
Representative Model	1 (fewest violations)

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