6MXQ

Solution structure of a c-JUN 5' UTR stem-loop associated with specialized cap-dependent translation initiation

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	1.0 mM RNA	100% D2O	20mM Sodium Phosphate	6.1	1 atm	298	Bruker AVANCE III 800
2	2D 1H-1H NOESY	1.0 mM RNA	90% H2O/10% D2O	20mM Sodium Phosphate	6.1	1 atm	278	Bruker AVANCE III 800
3	2D 1H-1H NOESY	1.0 mM [A,G-98% D3',4',5',5"; C,U-98%: D3',4',5, 5',5"] RNA	100% D2O	20mM Sodium Phosphate	6.1	1 atm	298	Bruker AVANCE III 800
4	3D 1H-13C NOESY	1.0 mM [A,C,G,U-98% 13C, A,C,G,U-98% 15N] RNA	100% D2O	20mM Sodium Phosphate	6.1	1 atm	298	Bruker AVANCE III 800
5	2D 1H-15N HSQC	1.0 mM [A,C,G,U-98% 13C, A,C,G,U-98% 15N] RNA	90% H2O/10% D2O	20mM Sodium Phosphate	6.1	1 atm	278	Bruker AVANCE II 600
6	2D 1H-13C HSQC	1.0 mM [A,C,G,U-98% 13C, A,C,G,U-98% 15N] RNA	100% D2O	20mM Sodium Phosphate	6.1	1 atm	298	Bruker AVANCE III 800
7	2D 1H-1H TOCSY	1.0 mM RNA	100% D2O	20mM Sodium Phosphate	6.1	1 atm	298	Bruker AVANCE III 800

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE III	800
2	Bruker	AVANCE II	600

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	10
Representative Model	1 (lowest energy)

Computation: NMR Software
#	Classification	Version	Software Name	Author
3	collection	TopSpin		Bruker Biospin
4	processing	NMRPipe		Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
5	peak picking	Sparky		Goddard
6	peak picking	CcpNmr Analysis		CCPN
1	structure calculation	X-PLOR NIH		Schwieters, Kuszewski, Tjandra and Clore
2	refinement	X-PLOR NIH		Schwieters, Kuszewski, Tjandra and Clore
7	chemical shift assignment	TopSpin		Bruker Biospin