Table 2.

Binding affinities of analogs measured for the class II riboswitch.

	Analog	Kd (nM)	Fold Loss	ΔΔGbind (kcal/mol)
	c-di-GMP	2.2 ± 0.2a,b	-	-
Base	c-di-IMP	4.1 ± 0.4	1.9	0.4
	c-c7-GMP	33.0 ± 2.6	15.0	1.6
	c-di-c7GMP	3500 ± 630	1600	4.4
	c-GMP-AMP	271.1 ± 47.1	120	2.8
	c-di-AMP	≥ 30,000	≥ 13,000	≥ 5.6
	c-N1mG-GMP	160 ± 14	72	2.5
Ribose	c-di-dGMP	11 ± 1.2	5.0	0.9
	c-di-2’F-GMP	5.8 ± 1.0	2.6	0.6
	c-di-2’OMe-GMP	4.3 ± 0.7b	2.0	0.4
Phosphate	c-(RpRp)-di-Gps	3.6 ± 0.6	1.6	0.3
	c-(RpSp)-di-Gps	4.0 ± 0.8	1.8	0.4

^aMeasured by direct binding.

^bValues previously reported⁴³.