2KY0

The Structure of RNA Internal Loops with Tandem AG Pairs: 5'GAGC/3'CGAG

SOLUTION NMR

---

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-1H NOESY	1 mM RNA (5'-R(*GP*AP*CP*GP*AP*GP*CP*GP*UP*CP*A)-3')-1, 80 mM sodium chloride-2, 10 mM sodium phosphate-3, 0.5 mM EDTA-4	90% H2O/10% D2O	0.1	6.1	ambient	273
2	2D 1H-13C HSQC	1 mM RNA (5'-R(*GP*AP*CP*GP*AP*GP*CP*GP*UP*CP*A)-3')-1, 80 mM sodium chloride-2, 10 mM sodium phosphate-3, 0.5 mM EDTA-4	90% H2O/10% D2O	0.1	6.1	ambient	273
3	2D 1H-1H TOCSY	1 mM RNA (5'-R(*GP*AP*CP*GP*AP*GP*CP*GP*UP*CP*A)-3')-5, 80 mM sodium chloride-6, 10 mM sodium phosphate-7, 0.5 mM EDTA-8	100% D2O	0.1	6.1	ambient	288
4	2D DQF-COSY	1 mM RNA (5'-R(*GP*AP*CP*GP*AP*GP*CP*GP*UP*CP*A)-3')-5, 80 mM sodium chloride-6, 10 mM sodium phosphate-7, 0.5 mM EDTA-8	100% D2O	0.1	6.1	ambient	288
5	2D 1H-31P HETCOR	1 mM RNA (5'-R(*GP*AP*CP*GP*AP*GP*CP*GP*UP*CP*A)-3')-5, 80 mM sodium chloride-6, 10 mM sodium phosphate-7, 0.5 mM EDTA-8	100% D2O	0.1	6.1	ambient	288
6	2D 1H-1H NOESY	1 mM RNA (5'-R(*GP*AP*CP*GP*AP*GP*CP*GP*UP*CP*A)-3')-5, 80 mM sodium chloride-6, 10 mM sodium phosphate-7, 0.5 mM EDTA-8	100% D2O	0.1	6.1	ambient	288

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Varian	INOVA	600
2	Varian	INOVA	500

NMR Refinement
Method	Details	Software
simulated annealing		Sparky

NMR Ensemble Information
Conformer Selection Criteria	structures with the least restraint violations
Conformers Calculated Total Number	40
Conformers Submitted Total Number	10
Representative Model	1 (closest to the average)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	chemical shift assignment	Sparky	3.12	Goddard
2	data analysis	Sparky	3.12	Goddard
3	collection	VNMR	6.1C	Varian
4	structure solution	CNS	1.2	Brunger, Adams, Clore, Gros, Nilges and Read
5	refinement	Amber	9	Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollm