2MHI | pdb_00002mhi

Solution structure of the CR4/5 domain of medaka telomerase RNA

SOLUTION NMR

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NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-15N HSQC	1 mM [U-13C; U-15N] mdCR4/5, 10 mM sodium phosphate, 100 mM potassium chloride	95% H2O/5% D2O	10	6.3	ambient	283
2	2D 1H-13C HSQC	1 mM [U-13C; U-15N] mdCR4/5, 10 mM sodium phosphate, 100 mM potassium chloride	95% H2O/5% D2O	10	6.3	ambient	293
3	2D 1H-13C HSQC	1 mM [U-13C; U-15N]-Ade mdCR4/5, 10 mM sodium phosphate, 100 mM potassium chloride	100% D2O	10	6.3	ambient	293
4	2D 1H-13C HSQC	1 mM [U-13C; U-15N]-Ura mdCR4/5, 10 mM sodium phosphate, 100 mM potassium chloride	100% D2O	10	6.3	ambient	293
5	2D 1H-13C HSQC	1 mM [U-13C; U-15N]-Gua mdCR4/5, 10 mM sodium phosphate, 100 mM potassium chloride	100% D2O	10	6.3	ambient	293
6	2D 1H-13C HSQC	1 mM [U-13C; U-15N]-Cyt mdCR4/5, 10 mM sodium phosphate, 100 mM potassium chloride	100% D2O	10	6.3	ambient	293
7	2D DQF-COSY	1.2 mM mdCR4/5, 10 mM sodium phosphate, 100 mM potassium chloride	100% D2O	10	6.3	ambient	293
8	2D 1H-1H COSY	1.2 mM mdCR4/5, 10 mM sodium phosphate, 100 mM potassium chloride	100% D2O	10	6.3	ambient	293
9	2D 1H-1H NOESY	1.2 mM mdCR4/5, 10 mM sodium phosphate, 100 mM potassium chloride	95% H2O/5% D2O	10	6.3	ambient	283
10	2D 1H-1H NOESY	1.2 mM mdCR4/5, 10 mM sodium phosphate, 100 mM potassium chloride	100% D2O	10	6.3	ambient	293
11	2D 1H-1H NOESY	1.5 mM [U-2H] mdCR4/5, 10 mM sodium phosphate, 100 mM potassium chloride	95% H2O/5% D2O	10	6.3	ambient	283
12	2D 1H-1H NOESY	1.5 mM [U-2H] mdCR4/5, 10 mM sodium phosphate, 100 mM potassium chloride	100% D2O	10	6.3	ambient	293
13	2D 1H-1H TOCSY	1.2 mM mdCR4/5, 10 mM sodium phosphate, 100 mM potassium chloride	100% D2O	10	6.3	ambient	293
14	3D HCCH-TOCSY	1 mM [U-13C; U-15N]-Ade mdCR4/5, 10 mM sodium phosphate, 100 mM potassium chloride	100% D2O	10	6.3	ambient	293
15	3D HCCH-TOCSY	1 mM [U-13C; U-15N]-Ura mdCR4/5, 10 mM sodium phosphate, 100 mM potassium chloride	100% D2O	10	6.3	ambient	293
16	3D HCCH-TOCSY	1 mM [U-13C; U-15N]-Gua mdCR4/5, 10 mM sodium phosphate, 100 mM potassium chloride	100% D2O	10	6.3	ambient	293
17	3D HCCH-TOCSY	1.2 mM mdCR4/5, 10 mM sodium phosphate, 100 mM potassium chloride	100% D2O	10	6.3	ambient	293
18	2D HNN-COSY	1 mM [U-13C; U-15N] mdCR4/5, 10 mM sodium phosphate, 100 mM potassium chloride	95% H2O/5% D2O	10	6.3	ambient	283
19	2D 1H-1H filter/edited NOESY	1 mM [U-13C; U-15N]-Ade mdCR4/5, 10 mM sodium phosphate, 100 mM potassium chloride	100% D2O	10	6.3	ambient	293
20	2D 1H-1H filter/edited NOESY	1 mM [U-13C; U-15N]-Ura mdCR4/5, 10 mM sodium phosphate, 100 mM potassium chloride	100% D2O	10	6.3	ambient	293
21	2D 1H-1H filter/edited NOESY	1 mM [U-13C; U-15N]-Gua mdCR4/5, 10 mM sodium phosphate, 100 mM potassium chloride	100% D2O	10	6.3	ambient	293
22	2D 1H-1H filter/edited NOESY	1 mM [U-13C; U-15N]-Cyt mdCR4/5, 10 mM sodium phosphate, 100 mM potassium chloride	100% D2O	10	6.3	ambient	293

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

NMR Refinement
Method	Details	Software
simulated annealing		XwinNMR

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	collection	XwinNMR	3.5	Bruker Biospin
2	processing	XwinNMR	3.5	Bruker Biospin
3	data analysis	XwinNMR	3.5	Bruker Biospin
4	collection	TopSpin		Bruker Biospin
5	data analysis	TopSpin		Bruker Biospin
6	processing	TopSpin		Bruker Biospin
7	data analysis	Sparky		Goddard
8	chemical shift assignment	Sparky		Goddard
9	peak picking	Sparky		Goddard
10	data analysis	MOLMOL		Koradi, Billeter and Wuthrich
11	structure solution	X-PLOR NIH		Schwieters, Kuszewski, Tjandra and Clore
12	geometry optimization	X-PLOR NIH		Schwieters, Kuszewski, Tjandra and Clore
13	refinement	X-PLOR NIH		Schwieters, Kuszewski, Tjandra and Clore