Experiment: 2K96

Solution structure of the RDC-refined P2B-P3 pseudoknot from human telomerase RNA (delta U177)

SOLUTION NMR

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D JNN-HNN COSY	1 mM [U-98% 13C; U-98% 15N] PKDU, 10 mM sodium phosphate, 200 mM potassium chloride, 50 uM EDTA, 95 % H2O, 5 % D2O	95% H2O/5% D2O		6.3	ambient	283
2	2D 1H-15N HSQC	1 mM [U-98% 13C; U-98% 15N] PKDU, 10 mM sodium phosphate, 200 mM potassium chloride, 50 uM EDTA, 95 % H2O, 5 % D2O	95% H2O/5% D2O		6.3	ambient	283
3	2D 1H-13C S3CT HSQC	1 mM [U-98% 13C; U-98% 15N] PKDU, 10 mM sodium phosphate, 200 mM potassium chloride, 50 uM EDTA, 100 % D2O	100% D2O		6.3	ambient	293
4	2D 15N CPMG NOESY	1 mM [U-98% 13C; U-98% 15N] PKDU, 10 mM sodium phosphate, 200 mM potassium chloride, 50 uM EDTA, 95 % H2O, 5 % D2O	95% H2O/5% D2O		6.3	ambient	283
5	2D 1H-1H NOESY	1 mM [U-98% 13C; U-98% 15N] PKDU, 10 mM sodium phosphate, 200 mM potassium chloride, 50 uM EDTA, 95 % H2O, 5 % D2O	95% H2O/5% D2O		6.3	ambient	283

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	DRX	500
2	Bruker	DRX	600
3	Bruker	AVANCE	800

NMR Refinement
Method	Details	Software
simulated annealing	PDB entry 2k96 is a better refined structure of entry 1ymo with additional RDCs	X-PLOR NIH

NMR Ensemble Information
Conformer Selection Criteria	structures with the lowest energy
Conformers Calculated Total Number	200
Conformers Submitted Total Number	20
Representative Model	1 (lowest energy)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	structure solution	X-PLOR NIH	2.9.8	Schwieters, Kuszewski, Tjandra and Clore
2	refinement	X-PLOR NIH	2.9.8	Schwieters, Kuszewski, Tjandra and Clore
3	data analysis	MOLMOL	2k.2	Koradi, Billeter and Wuthrich
4	processing	NMRDraw		Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
5	processing	NMRPipe		Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
6	data analysis	NMRView		Johnson, One Moon Scientific
7	chemical shift assignment	Sparky		Goddard
8	data analysis	Sparky		Goddard
9	collection	XwinNMR		Bruker Biospin
10	processing	XwinNMR		Bruker Biospin