6HAG | pdb_00006hag

The structure of the SAM/SAH-binding riboswitch.

SOLUTION NMR

---

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
39	2D 1H-15N HSQC	710 uM [U-13C; U-15N] env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	283	Bruker AVANCE 600
55	2D 1H-15N HSQC	800 uM [U-13C; U-15N]-Ura env9b, 1.6 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	283	Bruker AVANCE 700
54	2D 1H-15N HSQC	800 uM [U-13C; U-15N]-Cyt, [U-13C; U-15N]-Ade env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	283	Bruker AVANCE 800
53	2D 1H-15N HSQC	850 uM [U-13C; U-15N]-Gua env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	50% H2O/50% D2O	50 mM	6.2	1 atm	283	Bruker AVANCE 800
52	2D 1H-15N HSQC NH2 only	910 uM [U-15N] env9b, 2.5 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 600
51	2D 1H-13C HSQC aliphatic	710 uM [U-13C; U-15N] env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 600
50	2D 1H-13C HSQC aliphatic	800 uM [U-13C; U-15N]-Cyt, [U-13C; U-15N]-Ade env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 600
49	2D 1H-13C HSQC aliphatic	800 uM [U-13C; U-15N]-Ura env9b, 1.6 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 600
48	2D 1H-13C HSQC aliphatic	850 uM [U-13C; U-15N]-Gua env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	50% H2O/50% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 600
47	2D 1H-13C HSQC aromatic	710 uM [U-13C; U-15N] env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 600
46	2D 1H-13C HSQC aromatic	800 uM [U-13C; U-15N]-Cyt, [U-13C; U-15N]-Ade env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 800
45	2D 1H-13C HSQC aromatic	800 uM [U-13C; U-15N]-Ura env9b, 1.6 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 800
44	2D 1H-13C HSQC aromatic	850 uM [U-13C; U-15N]-Gua env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	50% H2O/50% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 800
43	2D 1H-1H NOESY	1.2 mM env9b, 4 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	271	Bruker AVANCE 700
42	3D 1H-13C NOESY aromatic	800 uM [U-13C; U-15N]-Cyt, [U-13C; U-15N]-Ade env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 950
41	3D 1H-13C NOESY aromatic	800 uM [U-13C; U-15N]-Ura env9b, 1.6 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 950
40	3D 1H-13C NOESY aromatic	850 uM [U-13C; U-15N]-Gua env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	50% H2O/50% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 950
57	3D 1H-13C NOESY aliphatic3D 1H-13C NOESY aliphatic	800 uM [U-13C; U-15N]-Cyt, [U-13C; U-15N]-Ade env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	100% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 950
56	3D 1H-13C NOESY aliphatic	800 uM [U-13C; U-15N]-Ura env9b, 1.6 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	100% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 950
58	3D 1H-13C NOESY aliphatic	850 uM [U-13C; U-15N]-Gua env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	100% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 950
59	2D 1H-1H NOESY	1.2 mM env9b, 4 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	271	Bruker AVANCE 700
60	3D HCCH-TOCSY	800 uM [U-13C; U-15N]-Cyt, [U-13C; U-15N]-Ade env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	100% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 800
61	3D HCCH-COSY	800 uM [U-13C; U-15N]-Cyt, [U-13C; U-15N]-Ade env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	100% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 800
62	3D HCCH-TOCSY	800 uM [U-13C; U-15N]-Ura env9b, 1.6 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	100% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 800
63	3D HCCH-COSY	800 uM [U-13C; U-15N]-Ura env9b, 1.6 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	100% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 800
64	3D HCCH-TOCSY	850 uM [U-13C; U-15N]-Gua env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	100% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 800
65	3D HCCH-COSY	850 uM [U-13C; U-15N]-Gua env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	100% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 800
66	1D 1H-HS11ECHO	1.2 mM env9b, 4 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	283	Bruker AVANCE 700
67	2D 1H-15N HNN-COSY	710 uM [U-13C; U-15N] env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	283	Bruker AVANCE 800
68	2D 1H-13C HNCO	850 uM [U-13C; U-15N]-Gua env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	50% H2O/50% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 800
69	2D 1H-13C HNCO	800 uM [U-13C; U-15N]-Ura env9b, 1.6 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 800
70	2D 1H-13C H5C5(C4N)H	800 uM [U-13C; U-15N]-Cyt, [U-13C; U-15N]-Ade env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 800
71	2D 1H-15N HCN aromatic	800 uM [U-13C; U-15N]-Ura env9b, 1.6 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 800
72	2D 1H-15N HCN aliphatic	800 uM [U-13C; U-15N]-Ura env9b, 1.6 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	100% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 800
73	2D 1H-15N 2bond-HSQC	910 uM [U-15N] env9b, 2.5 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 800
74	TROSY relayed HCCH-COSY	800 uM [U-13C; U-15N]-Cyt, [U-13C; U-15N]-Ade env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	100% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 900
75	2D 1H-13C long-rangeH8(C8)C5(N1)H1	850 uM [U-13C; U-15N]-Gua env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	50% H2O/50% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 900
76	2D 1H-13C H5C5(C4N)H	800 uM [U-13C; U-15N]-Ura env9b, 1.6 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 800
77	2D 1H-15N HCN aromatic	800 uM [U-13C; U-15N]-Cyt, [U-13C; U-15N]-Ade env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 800
78	2D 1H-15N HCN aliphatic	800 uM [U-13C; U-15N]-Cyt, [U-13C; U-15N]-Ade env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	100% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 800
79	2D 1H-15N HCN aromatic	850 uM [U-13C; U-15N]-Gua env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	50% H2O/50% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 800
80	2D 1H-15N HCN aliphatic	850 uM [U-13C; U-15N]-Gua env9b, 2 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	100% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 800
81	2D 1H-15N HNN-COSY	480 uM [U-13C; U-15N]-Ura env9b, 750 uM [U-13C; U-15N] S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	100% D2O	50 mM	6.2	1 atm	283	Bruker AVANCE 950
82	2D 1H-15N HSQC	910 uM [U-15N] env9b, 2.5 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	271	Bruker AVANCE 700
83	2D lr-1H,15N-HSQC	910 uM [U-15N] env9b, 2.5 mM S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 800
84	2D 1H-13C HSQC aliphatic	700 uM env9b, 0.5 mM [U-13C; U-15N] S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 950
85	2D 1H-13C HSQC aromatic	700 uM env9b, 0.5 mM [U-13C; U-15N] S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 950
86	3D HCCH-COSY	700 uM env9b, 0.5 mM [U-13C; U-15N] S-Adenosylhomocysteine, 25 mM potassium phosphate, 50 mM potassium chloride, 2 mM magnesium acetate	90% H2O/10% D2O	50 mM	6.2	1 atm	298	Bruker AVANCE 950

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE	950
2	Bruker	AVANCE	900
3	Bruker	AVANCE	800
4	Bruker	AVANCE	700
5	Bruker	AVANCE	600

NMR Refinement
Method	Details	Software
torsion angle dynamics		CYANA

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

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	refinement	CYANA	3.97	Guntert, Mumenthaler and Wuthrich
2	structure calculation	CYANA	3.97	Guntert, Mumenthaler and Wuthrich
3	data analysis	TopSpin		Bruker Biospin
4	chemical shift assignment	CARA		Keller and Wuthrich
5	peak picking	CARA		Keller and Wuthrich