2LU0

NMR solution structure of the kappa-zeta region of S.cerevisiae group II intron ai5(gamma)

SOLUTION NMR

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NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-1H TOCSY	0.3-1.0 mM RNA (49-MER), 60 mM potassium chloride, 10 uM EDTA, 0-12 mM magnesium chloride	100% D2O	60	6.5-6.9	ambient	300
2	2D 1H-1H NOESY	0.3-1.0 mM RNA (49-MER), 60 mM potassium chloride, 10 uM EDTA, 0-12 mM magnesium chloride	100% D2O	60	6.5-6.9	ambient	300
3	2D 1H-1H NOESY	0.3-1.0 mM [3',4',5',5 ,5-D5] RNA (49-MER), 60 mM potassium chloride, 10 uM EDTA, 0-12 mM magnesium chloride	100% D2O	60	6.5-6.9	ambient	300
4	2D 1H-1H NOESY	0.3-1.0 mM RNA (49-MER), 60 mM potassium chloride, 10 uM EDTA, 0-12 mM magnesium chloride	90% H2O/10% D2O	60	6.5-6.9	ambient	275-285
5	2D 1H-15N HSQC	0.3-1.0 mM 100% 13C; 100% 15N RNA (49-MER), 60 mM potassium chloride, 10 uM EDTA, 0-12 mM magnesium chloride	90% H2O/10% D2O	60	6.5-6.9	ambient	275-285
6	2D 1H-13C HSQC	0.3-1 mM 100% 13C; 100% 15N RNA (49-MER), 60 mM potassium chloride, 10 uM EDTA, 0-12 mM magnesium chloride	100% D2O	60	6.5-6.9	ambient	300
7	3D 1H-13C NOESY aliphatic	0.3-1.0 mM RNA (49-MER), 60 mM potassium chloride, 10 uM EDTA, 0-12 mM magnesium chloride	100% D2O	60	6.5-6.9	ambient	300
8	2D JNN HNN COSY	0.3-1.0 mM 100% 13C; 100% 15N RNA (49-MER), 60 mM potassium chloride, 10 uM EDTA, 0-12 mM magnesium chloride	90% H2O/10% D2O	60	6.5-6.9	ambient	275-285
9	2D 1H-15N HSQC	0.3-1 mM 100% 13C; 100% 15N RNA (49-MER), 60 mM potassium chloride, 10 uM EDTA, 0-12 mM magnesium chloride	100% D2O	60	6.5-6.9	ambient	300

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE	700
2	Bruker	AVANCE	600
3	Bruker	AVANCE	900

NMR Refinement
Method	Details	Software
torsion angle dynamics, simulated annealing		CNS

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	refinement	CNS	1.2	Brunger, Adams, Clore, Gros, Nilges and Read
2	structure solution	CNS	1.2	Brunger, Adams, Clore, Gros, Nilges and Read
3	peak integration	Sparky		Goddard
4	chemical shift assignment	Sparky		Goddard
5	data analysis	Sparky		Goddard
6	refinement	X-PLOR NIH	2.30	Schwieters, Kuszewski, Tjandra and Clore
7	structure solution	X-PLOR NIH	2.30	Schwieters, Kuszewski, Tjandra and Clore
8	data analysis	MOLMOL		Koradi, Billeter and Wuthrich
9	processing	TopSpin		Bruker Biospin
10	collection	TopSpin		Bruker Biospin