Table 2.

The equilibrium association constants (K_s values) of each TFO in four different sequence contexts^a

TFO 3′-GGAAGG NZN' GAGGAGGGA
Duplex DNA 5′-GAGGGAAGG NXN' GAGGAGGGAAGC
3′-CTCCCTTCC MYM' CTCCTCCCTTCG-FAM
		K s (106 M−1) for XY
3′ NZN 5′	Z (-ΨdC)	AT	TA	GC	CG
3′ AZA 5′	3MeAPb	<0.01	<0.01	0.2 ± 0.1	20.8 ± 0.9
	DHAID	<0.01	<0.01	0.1 ± 0.1	2.1 ± 0.3
	THNTD	<0.01	<0.01	0.2 ± 0.1	22.8 ± 0.8
	AID	<0.01	<0.01	<0.01	<0.01
	4MeAP	< 0.01	<0.01	<0.01	6.1 ± 0.3
	4OMeAP	<0.01	<0.01	4.9 ± 0.3	24.6 ± 0.3
3′ AZG 5′	3MeAPb	<0.01	0.2 ± 0.1	1.8 ± 0.6	19.4 ± 1.8
	DHAID	<0.01	0.2 ± 0.1	2.1 ± 0.4	2.8 ± 0.4
	THNTD	<0.01	<0.01	1.0 ± 0.1	5.9 ± 0.1
	AID	0.3 ± 0.1	3.6 ± 1.1	1.1 ± 0.7	17.0 ± 2.5
	4MeAP	<0.01	0.7 ± 0.1	2.1 ± 0.4	3.0 ± 0.1
	4OMeAP	<0.01	<0.01	7.9 ± 1.2	22.5 ± 1.7
3′ GZA 5′	3MeAPb	<0.01	<0.01	1.8 ± 0.5	32.6 ± 0.5
	DHAID	<0.01	<0.01	0.3 ± 0.1	13.4 ± 0.9
	THNTD	<0.01	<0.01	0.1 ± 0.1	13.7 ± 0.6
	AID	<0.01	0.3 ± 0.1	3.0 ± 0.3	<0.01
	4MeAP	<0.01	1.5 ± 0.1	3.0 ±0.6	28.5 ± 0.3
	4OMeAP	<0.01	1.0 ± 0.2	7.8 ± 0.4	34.7 ± 1.1
3′ GZG 5′	3MeAPb	0.8 ± 0.1	2.6 ± 0.5	5.3 ± 0.4	16.6 ± 0.5
	DHAID	0.7 ± 0.1	3.2 ± 0.2	4.9 ± 0.1	10.6 ± 1.0
	THNTD	0.9 ± 0.2	3.5 ± 0.4	6.6 ± 0.3	19.1 ± 0.6
	AID	1.1 ± 0.6	5.7 ± 0.1	3.6 ± 0.6	8.5 ± 0.5
	4MeAP	1.2 ± 0.2	6.1 ± 0.6	6.1 ± 0.7	8.7 ± 1.0
	4OMeAP	1.0 ± 0.3	4.5 ± 1.5	6.9 ± 0.9	18.9 ± 0.5

^aConditions: FAM-labeled duplex DNA (24 bp; 100 nM) was incubated with increasing concentrations of TFO (18 mer; 0–1000 nM) in the buffer containing 20 mM Tris–HCl and 20 mM MgCl₂ at pH 7.5 and 37°C. Electrophoresis was performed with 10% non-denatured polyacrylamide gel at 4°C. K_s (10⁶ M⁻¹) = [Triplex]/([TFO][Duplex]).

^bData from (25).