2M58

Structure of 2'-5' AG1 lariat forming ribozyme in its inactive state

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	400 uM [U-100% 13C; U-100% 15N] ADENOSINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
2	2D 1H-13C HSQC ribose	400 uM [U-100% 13C; U-100% 15N] ADENOSINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
3	2D 1H-13C HSQC base	400 uM [U-100% 13C; U-100% 15N] ADENOSINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
4	2D HNN-COSY	400 uM [U-100% 13C; U-100% 15N] ADENOSINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
5	2D imino NOESY	400 uM [U-100% 13C; U-100% 15N] ADENOSINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
6	3D HsCNb/HbCNb	400 uM [U-100% 13C; U-100% 15N] ADENOSINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
7	3D HCCH-COSY-TOCSY	400 uM [U-100% 13C; U-100% 15N] ADENOSINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
8	3D 13C-edited/ 12C-filtered NOESY	400 uM [U-100% 13C; U-100% 15N] ADENOSINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
9	3D 13C-edited/ 13C-filtered NOESY	400 uM [U-100% 13C; U-100% 15N] ADENOSINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
10	2D 1H-15N HSQC	300 uM [U-100% 13C; U-100% 15N] GUANOSINE-5'-MONOPHOSPHATE, 300 uM [U-100% 13C; U-100% 15N] GUANOSINE-5'-TRIPHOSPHATE	100% D2O	0.020	6.6	ambient	298
11	2D 1H-13C HSQC ribose	300 uM [U-100% 13C; U-100% 15N] GUANOSINE-5'-MONOPHOSPHATE, 300 uM [U-100% 13C; U-100% 15N] GUANOSINE-5'-TRIPHOSPHATE	100% D2O	0.020	6.6	ambient	298
12	2D 1H-13C HSQC base	300 uM [U-100% 13C; U-100% 15N] GUANOSINE-5'-MONOPHOSPHATE, 300 uM [U-100% 13C; U-100% 15N] GUANOSINE-5'-TRIPHOSPHATE	100% D2O	0.020	6.6	ambient	298
13	2D HNN-COSY	300 uM [U-100% 13C; U-100% 15N] GUANOSINE-5'-MONOPHOSPHATE, 300 uM [U-100% 13C; U-100% 15N] GUANOSINE-5'-TRIPHOSPHATE	100% D2O	0.020	6.6	ambient	298
14	2D imino NOESY	300 uM [U-100% 13C; U-100% 15N] GUANOSINE-5'-MONOPHOSPHATE, 300 uM [U-100% 13C; U-100% 15N] GUANOSINE-5'-TRIPHOSPHATE	100% D2O	0.020	6.6	ambient	298
15	3D HsCNb/HbCNb	300 uM [U-100% 13C; U-100% 15N] GUANOSINE-5'-MONOPHOSPHATE, 300 uM [U-100% 13C; U-100% 15N] GUANOSINE-5'-TRIPHOSPHATE	100% D2O	0.020	6.6	ambient	298
16	3D HCCH-COSY-TOCSY	300 uM [U-100% 13C; U-100% 15N] GUANOSINE-5'-MONOPHOSPHATE, 300 uM [U-100% 13C; U-100% 15N] GUANOSINE-5'-TRIPHOSPHATE	100% D2O	0.020	6.6	ambient	298
17	3D 13C-edited/ 12C-filtered NOESY	300 uM [U-100% 13C; U-100% 15N] GUANOSINE-5'-MONOPHOSPHATE, 300 uM [U-100% 13C; U-100% 15N] GUANOSINE-5'-TRIPHOSPHATE	100% D2O	0.020	6.6	ambient	298
18	3D 13C-edited/ 13C-filtered NOESY	300 uM [U-100% 13C; U-100% 15N] GUANOSINE-5'-MONOPHOSPHATE, 300 uM [U-100% 13C; U-100% 15N] GUANOSINE-5'-TRIPHOSPHATE	100% D2O	0.020	6.6	ambient	298
19	2D 1H-15N HSQC	300 uM [U-100% 13C; U-100% 15N] URIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
20	2D 1H-13C HSQC ribose	300 uM [U-100% 13C; U-100% 15N] URIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
21	2D 1H-13C HSQC base	300 uM [U-100% 13C; U-100% 15N] URIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
22	2D HNN-COSY	300 uM [U-100% 13C; U-100% 15N] URIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
23	2D imino NOESY	300 uM [U-100% 13C; U-100% 15N] URIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
24	3D HsCNb/HbCNb	300 uM [U-100% 13C; U-100% 15N] URIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
25	3D HCCH-COSY-TOCSY	300 uM [U-100% 13C; U-100% 15N] URIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
26	3D 13C-edited/ 12C-filtered NOESY	300 uM [U-100% 13C; U-100% 15N] URIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
27	3D 13C-edited/ 13C-filtered NOESY	300 uM [U-100% 13C; U-100% 15N] URIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
28	2D 1H-15N HSQC	500 uM [U-100% 13C; U-100% 15N] CYTIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
29	2D 1H-13C HSQC ribose	500 uM [U-100% 13C; U-100% 15N] CYTIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
30	2D 1H-13C HSQC base	500 uM [U-100% 13C; U-100% 15N] CYTIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
31	2D HNN-COSY	500 uM [U-100% 13C; U-100% 15N] CYTIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
32	2D imino NOESY	500 uM [U-100% 13C; U-100% 15N] CYTIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
33	3D HsCNb/HbCNb	500 uM [U-100% 13C; U-100% 15N] CYTIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
34	3D HCCH-COSY-TOCSY	500 uM [U-100% 13C; U-100% 15N] CYTIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
35	3D 13C-edited/ 12C-filtered NOESY	500 uM [U-100% 13C; U-100% 15N] CYTIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
36	3D 13C-edited/ 13C-filtered NOESY	500 uM [U-100% 13C; U-100% 15N] CYTIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
37	2D 1H-15N HSQC	500 uM [U-100% 13C; U-100% 15N] ADENOSINE-5'-MONOPHOSPHATE, 500 uM [U-100% 13C; U-100% 15N] URIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
38	2D 1H-13C HSQC ribose	500 uM [U-100% 13C; U-100% 15N] ADENOSINE-5'-MONOPHOSPHATE, 500 uM [U-100% 13C; U-100% 15N] URIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
39	2D 1H-13C HSQC base	500 uM [U-100% 13C; U-100% 15N] ADENOSINE-5'-MONOPHOSPHATE, 500 uM [U-100% 13C; U-100% 15N] URIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
40	2D HNN-COSY	500 uM [U-100% 13C; U-100% 15N] ADENOSINE-5'-MONOPHOSPHATE, 500 uM [U-100% 13C; U-100% 15N] URIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
41	2D imino NOESY	500 uM [U-100% 13C; U-100% 15N] ADENOSINE-5'-MONOPHOSPHATE, 500 uM [U-100% 13C; U-100% 15N] URIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
42	3D HsCNb/HbCNb	500 uM [U-100% 13C; U-100% 15N] ADENOSINE-5'-MONOPHOSPHATE, 500 uM [U-100% 13C; U-100% 15N] URIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
43	3D HCCH-COSY-TOCSY	500 uM [U-100% 13C; U-100% 15N] ADENOSINE-5'-MONOPHOSPHATE, 500 uM [U-100% 13C; U-100% 15N] URIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
44	3D 13C-edited/ 12C-filtered NOESY	500 uM [U-100% 13C; U-100% 15N] ADENOSINE-5'-MONOPHOSPHATE, 500 uM [U-100% 13C; U-100% 15N] URIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
45	3D 13C-edited/ 13C-filtered NOESY	500 uM [U-100% 13C; U-100% 15N] ADENOSINE-5'-MONOPHOSPHATE, 500 uM [U-100% 13C; U-100% 15N] URIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
46	3D HsCNb/HbCNb	500 uM [U-100% 13C; U-100% 15N] ADENOSINE-5'-MONOPHOSPHATE, 500 uM [U-100% 13C; U-100% 15N] URIDINE-5'-MONOPHOSPHATE, 500 uM [U-100% 13C; U-100% 15N] GUANOSINE-5'-MONOPHOSPHATE, 500 uM [U-100% 13C; U-100% 15N] CYTIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
47	2D HNN-COSY	500 uM [U-100% 13C; U-100% 15N] ADENOSINE-5'-MONOPHOSPHATE, 500 uM [U-100% 13C; U-100% 15N] URIDINE-5'-MONOPHOSPHATE, 500 uM [U-100% 13C; U-100% 15N] GUANOSINE-5'-MONOPHOSPHATE, 500 uM [U-100% 13C; U-100% 15N] CYTIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298
48	2D imino NOESY	500 uM ADENOSINE-5'-MONOPHOSPHATE, 500 uM URIDINE-5'-MONOPHOSPHATE, 500 uM GUANOSINE-5'-MONOPHOSPHATE, 500 uM CYTIDINE-5'-MONOPHOSPHATE	100% D2O	0.020	6.6	ambient	298

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

NMR Refinement
Method	Details	Software
simulated annealing	water refined	Felix

NMR Ensemble Information
Conformer Selection Criteria	structures with the least restraint violations
Conformers Calculated Total Number	200
Conformers Submitted Total Number	10
Representative Model	1 (lowest energy)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	chemical shift assignment	Felix		Accelrys Software Inc.
2	structure solution	ARIA		Linge, O'Donoghue and Nilges
3	refinement	ARIA		Linge, O'Donoghue and Nilges