Experiment: 2N2O

Structure of murine tumour necrosis factor alpha CDE RNA

SOLUTION NMR

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-15N HSQC	0.30 mM [U-100% 13C; U-100% 15N] RNA, 20 mM sodium phosphate	100% D2O	20	6.5	ambient	300
2	2D 1H-13C HSQC	0.30 mM [U-100% 13C; U-100% 15N] RNA, 20 mM sodium phosphate	100% D2O	20	6.5	ambient	300
3	immino-1H-1H NOESY	0.30 mM [U-100% 13C; U-100% 15N] RNA, 20 mM sodium phosphate	90% H2O/10% D2O	20	6.5	ambient	300
4	3D-HCCH-COSY-TOCSY	0.30 mM [U-100% 13C; U-100% 15N] RNA, 20 mM sodium phosphate	100% D2O	20	6.5	ambient	300
5	3D HsCNb/HbCNb	0.30 mM [U-100% 13C; U-100% 15N] RNA, 20 mM sodium phosphate	100% D2O	20	6.5	ambient	300
6	2D HNN-COSY	0.30 mM [U-100% 13C; U-100% 15N] RNA, 20 mM sodium phosphate	100% D2O	20	6.5	ambient	300
7	3D 13C-edited NOESY	0.30 mM [U-100% 13C; U-100% 15N] RNA, 20 mM sodium phosphate	100% D2O	20	6.5	ambient	300
8	2D COSY	0.30 mM [U-100% 13C; U-100% 15N] RNA, 20 mM sodium phosphate	100% D2O	20	6.5	ambient	300
9	1H-31P HET-COR(P,H-COSY-H,C-HMQC)	0.30 mM [U-100% 13C; U-100% 15N] RNA, 20 mM sodium phosphate	100% D2O	20	6.5	ambient	300
10	T1-13C-EDIT relaxation	0.30 mM [U-100% 13C; U-100% 15N] RNA, 20 mM sodium phosphate	100% D2O	20	6.5	ambient	300
11	T1rho-13C-EDIT relaxation	0.30 mM [U-100% 13C; U-100% 15N] RNA, 20 mM sodium phosphate	100% D2O	20	6.5	ambient	300
12	13C-base edited IPAP	0.30 mM [U-100% 13C; U-100% 15N] RNA, 20 mM sodium phosphate, 30 mg/mL Pf1 phage	100% D2O	20	6.5	ambient	300
13	13C-sugar edited IPAP	0.30 mM [U-100% 13C; U-100% 15N] RNA, 20 mM sodium phosphate, 30 mg/mL Pf1 phage	100% D2O	20	6.5	ambient	300

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE	700
2	Bruker	AVANCE	600
3	Bruker	AVANCE	800

NMR Refinement
Method	Details	Software
DGSA-distance geometry simulated annealing		CNS

NMR Ensemble Information
Conformer Selection Criteria	structures with the lowest energy
Conformers Calculated Total Number	100
Conformers Submitted Total Number	10
Representative Model	1 (lowest energy)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	structure solution	CNS	1.1	Brunger, Adams, Clore, Gros, Nilges and Read
2	refinement	CNS	1.1	Brunger, Adams, Clore, Gros, Nilges and Read
3	collection	TopSpin		Bruker Biospin
4	chemical shift assignment	CCPN_Analysis	2.3	CCPN
5	structure solution	ARIA	1.2	Linge, O'Donoghue and Nilges