2M8K | pdb_00002m8k

A pyrimidine motif triple helix in the Kluyveromyces lactis telomerase RNA pseudoknot is essential for function in vivo

SOLUTION NMR

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 11echo NOESY	1 mM RNA (48-MER), 10 mM TRIS, 0.5 mM Magnesium Chloride	90% H2O/10% D2O	10	6.3	ambient	283
2	2D 13C Filtered/Edited NOESY	1 mM [U-98% 13C; U-98% 15N]-Ade,Uri RNA (48-MER), 10 mM TRIS, 0.5 mM Magnesium Chloride	100% D2O	10	6.3	ambient	298
3	2D 13C Filtered/Edited NOESY	1 mM [U-98% 13C; U-98% 15N]-Cyt,Gua RNA (48-MER), 10 mM TRIS, 0.5 mM Magnesium Chloride	100% D2O	10	6.3	ambient	298
4	2D NOESY presat	1 mM RNA (48-MER), 10 mM TRIS, 0.5 mM Magnesium Chloride	100% D2O	10	6.3	ambient	298
5	2D HCCH-COSY, 3D HCCH-TOCSY	1 mM [U-98% 13C; U-98% 15N]-Ade,Uri RNA (48-MER), 10 mM TRIS, 0.5 mM Magnesium Chloride	100% D2O	10	6.3	ambient	298
6	2D HCCH COSY, 3D HCCH-TOCSY	1 mM [U-98% 13C; U-98% 15N]-Cyt,Gua RNA (48-MER), 10 mM TRIS, 0.5 mM Magnesium Chloride	100% D2O	10	6.3	ambient	298
7	2D 1H-13C HSQC	1 mM [U-98% 13C; U-98% 15N]-Ade,Uri RNA (48-MER), 10 mM TRIS, 0.5 mM Magnesium Chloride	100% D2O	10	6.3	ambient	298
8	2D 1H-13C HSQC	1 mM [U-98% 13C; U-98% 15N]-Cyt,Gua RNA (48-MER), 10 mM TRIS, 0.5 mM Magnesium Chloride	100% D2O	10	6.3	ambient	298
9	2D 1H-13C HSQC	1 mM [U-98% 13C; U-98% 15N]-Ade,Uri,Cyt,Gua RNA (48-MER), 10 mM TRIS, 0.5 mM Magnesium Chloride	90% H2O/10% D2O	10	6.3	ambient	298
10	2D HNNOESY	1 mM [U-98% 13C; U-98% 15N]-Ade,Uri RNA (48-MER), 10 mM TRIS, 0.5 mM Magnesium Chloride	90% H2O/10% D2O	10	6.3	ambient	283
11	2D HNNOESY	1 mM [U-98% 13C; U-98% 15N]-Cyt,Gua RNA (48-MER), 10 mM TRIS, 0.5 mM Magnesium Chloride	90% H2O/10% D2O	10	6.3	ambient	283
12	HNN-COSY	1 mM [U-98% 13C; U-98% 15N]-Ade,Uri RNA (48-MER), 10 mM TRIS, 0.5 mM Magnesium Chloride	90% H2O/10% D2O	10	6.3	ambient	283
13	HNN-COSY	1 mM [U-98% 13C; U-98% 15N]-Cyt,Gua RNA (48-MER), 10 mM TRIS, 0.5 mM Magnesium Chloride	90% H2O/10% D2O	10	6.3	ambient	283
14	2D 1H-15N HSQC	1 mM [U-98% 13C; U-98% 15N]-Ade,Uri RNA (48-MER), 10 mM TRIS, 0.5 mM Magnesium Chloride	90% H2O/10% D2O	10	6.3	ambient	283
15	2D 1H-15N HSQC	1 mM [U-98% 13C; U-98% 15N]-Cyt,Gua RNA (48-MER), 10 mM TRIS, 0.5 mM Magnesium Chloride	90% H2O/10% D2O	10	6.3	ambient	283
16	2D 1H-1H TOCSY	1 mM RNA (48-MER), 10 mM TRIS, 0.5 mM Magnesium Chloride	100% D2O	10	6.3	ambient	298

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

NMR Refinement
Method	Details	Software
simulated annealing		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		Schwieters, Kuszewski, Tjandra and Clore
2	refinement	X-PLOR NIH		Schwieters, Kuszewski, Tjandra and Clore
3	data analysis	MOLMOL		Koradi, Billeter and Wuthrich
4	structure solution	MOLMOL		Koradi, Billeter and Wuthrich
5	chemical shift calculation	NMRDraw		Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
6	data analysis	NMRDraw		Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
7	peak picking	NMRDraw		Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
8	chemical shift assignment	Sparky		Goddard
9	data analysis	Sparky		Goddard
10	peak picking	Sparky		Goddard
11	chemical shift assignment	XwinNMR		Bruker Biospin
12	data analysis	XwinNMR		Bruker Biospin
13	processing	XwinNMR		Bruker Biospin
14	chemical shift assignment	TopSpin		Bruker Biospin
15	data analysis	TopSpin		Bruker Biospin
16	processing	TopSpin		Bruker Biospin

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.