5N5C | pdb_00005n5c

NMR solution structure of the TSL2 RNA hairpin

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	0.6 mM RNA (19-MER), 50 mM sodium phosphate, 0.1 mM EDTA	99.8% D2O	74 mM	6.4	ambient mbar	298	Bruker AVANCE 900
2	2D 1H-1H NOESY	0.6 mM RNA (19-MER), 50 mM sodium phosphate, 0.1 mM EDTA	90% H2O/10% D2O	71 mM	6.4	ambient mbar	278	Bruker AVANCE 600
3	2D 1H-1H NOESY	0.6 mM RNA (19-MER), 50 mM sodium phosphate, 0.1 mM EDTA	90% H2O/10% D2O	71 mM	6.4	ambient mbar	278	Bruker AVANCE 900
4	3D 1H-13C NOESY	0.6 mM [U-98% 13C; U-96-98% 15N]-ADE RNA (19-MER), 50 mM sodium phosphate, 0.1 mM EDTA	99.8% D2O	74 mM	6.4	ambient mbar	298	Bruker AVANCE 800
5	2D 12C-filtered 1H-1H NOESY	0.6 mM [U-98% 13C; U-96-98% 15N]-ADE RNA (19-MER), 50 mM sodium phosphate, 0.1 mM EDTA	99.8% D2O	74 mM	6.4	ambient mbar	298	Bruker AVANCE 900
6	2D 13C-editted 1H-1H NOESY	0.6 mM [U-98% 13C; U-96-98% 15N]-ADE RNA (19-MER), 50 mM sodium phosphate, 0.1 mM EDTA	99.8% D2O	74 mM	6.4	ambient mbar	298	Bruker AVANCE 900
7	2D 1H-1H TOCSY	0.6 mM RNA (19-MER), 50 mM sodium phosphate, 0.1 mM EDTA	99.8% D2O	74 mM	6.4	ambient mbar	298	Bruker AVANCE 900
8	2D 1H-1H COSY	0.6 mM RNA (19-MER), 50 mM sodium phosphate, 0.1 mM EDTA	99.8% D2O	74 mM	6.4	ambient mbar	298	Bruker AVANCE 900
9	2D 1H-13C HSQC	0.6 mM RNA (19-MER), 50 mM sodium phosphate, 0.1 mM EDTA	99.8% D2O	74 mM	6.4	ambient mbar	298	Bruker AVANCE 900
10	2D 1H-13C HSQC aromatic	0.6 mM [U-98% 13C; U-96-98% 15N]-ADE RNA (19-MER), 50 mM sodium phosphate, 0.1 mM EDTA	99.8% D2O	74 mM	6.4	ambient mbar	298	Bruker AVANCE 900
11	2D 1H-13C HSQC sugar	0.6 mM [U-98% 13C; U-96-98% 15N]-ADE RNA (19-MER), 50 mM sodium phosphate, 0.1 mM EDTA	99.8% D2O	74 mM	6.4	ambient mbar	298	Bruker AVANCE 900
12	2D 1H-15N HSQC	0.6 mM RNA (19-MER), 50 mM sodium phosphate, 0.1 mM EDTA	90% H2O/10% D2O	74 mM	6.4	ambient mbar	298	Bruker AVANCE 900
13	3D HCCH-TOCSY	0.6 mM [U-98% 13C; U-96-98% 15N]-ADE RNA (19-MER), 50 mM sodium phosphate, 0.1 mM EDTA	99.8% D2O	74 mM	6.4	ambient mbar	298	Bruker AVANCE 800

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE	600
2	Bruker	AVANCE	800
3	Bruker	AVANCE	900

NMR Refinement
Method	Details	Software
simulated annealing	cartesian angle dynamics	ARIA
molecular dynamics	refinement in water	ARIA

NMR Ensemble Information
Conformer Selection Criteria	structures with the lowest energy
Conformers Calculated Total Number	400
Conformers Submitted Total Number	40
Representative Model	1 (lowest energy)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	collection	TopSpin	3.2	Bruker Biospin
2	processing	TopSpin		Bruker Biospin
3	chemical shift assignment	Sparky	3.114	Kneller and Goddard
4	peak picking	Sparky	3.114	Kneller and Goddard
5	data analysis	Sparky	3.114	Kneller and Goddard
6	structure calculation	CNS	1.1	Brunger, Adams, Clore, Gros, Nilges and Read
7	refinement	ARIA	1.2 HJ development version	Linge, O'Donoghue and Nilges
8	refinement	ARIA	1.2 HJ development version	Linge, O'Donoghue and Nilges