Table 1.
Thermodynamic parameters of quadruplex formation with UNA (X)a
| Name | Sequenceb | −ΔH° (kcal/mol) | −ΔS° (eu) | ΔG°37 (kcal/mol) | TMc (°C) | ΔΔG°37 (kcal/mol) | ΔTMc (°C) |
|---|---|---|---|---|---|---|---|
| TBA | GGTTGGTGTGGTTGG | 36.6 ± 0.4 | 116.1 ± 1.3 | –0.61 ± 0.02 | 42.2 | 0 | 0 |
| G1 | GGTTGGTGTGGTTGG | 30.9 ± 1.8 | 102.1 ± 5.7 | +0.74 ± 0.01 | 29.8 | 1.35 | −12.4 |
| G2 | GGTTGGTGTGGTTGG | n.d. | n.d. | n.d. | <20.0 | n.d. | n.d. |
| U3 | GGUTGGTGTGGTTGG | 39.4 ± 0.4 | 124.4 ± 1.1 | –0.84 ± 0.02 | 43.8 | −0.23 | 1.6 |
| U4 | GGTUGGTGTGGTTGG | 29.0 ± 2.2 | 94.2 ± 7.0 | +0.23 ± 0.02 | 34.6 | 0.84 | −7.6 |
| G5 | GGTTGGTGTGGTTGG | 41.6 ± 1.3 | 141.1 ± 4.3 | +2.15 ± 0.06 | 21.8 | 2.76 | −20.4 |
| G6 | GGTTGGTGTGGTTGG | n.d. | n.d. | n.d. | <20.0 | n.d. | n.d. |
| U7 | GGTTGGUGTGGTTGG | 38.6 ± 1.1 | 121.0 ± 3.8 | –1.11 ± 0.04 | 46.2 | −0.50 | 4.0 |
| G8 | GGTTGGTGTGGTTGG | 31.1 ± 0.9 | 101.4 ± 3.0 | +0.35 ± 0.03 | 33.6 | 0.96 | −8.6 |
| U9 | GGTTGGTGUGGTTGG | 32.7 ± 2.4 | 106.9 ± 7.7 | +0.47 ± 0.04 | 32.6 | 1.08 | −9.6 |
| G10 | GGTTGGTGTGGTTGG | n.d. | n.d. | n.d. | <20.0 | n.d. | n.d. |
| G11 | GGTTGGTGTGGTTGG | n.d. | n.d. | n.d. | <20.0 | n.d. | n.d. |
| U12 | GGTTGGTGTGGUTGG | 35.9 ± 0.62 | 113.4 ± 2.0 | −0.76 ± 0.01 | 43.7 | −0.15 | 1.5 |
| U13 | GGTTGGTGTGGTUGG | 31.6 ± 2.5 | 104.4 ± 8.2 | +0.80 ± 0.06 | 29.4 | 1.41 | −12.8 |
| G14 | GGTTGGTGTGGTTGG | n.d. | n.d. | n.d. | <20.0 | n.d. | n.d. |
| G15 | GGTTGGTGTGGTTGG | 39.3 ± 1.8 | 133.1 ± 5.8 | +2.05 ± 0.05 | 21.6 | 2.66 | −20.6 |
1 kcal = 4.184 kJ.
abuffer: 100 mM KCl, 10 mM sodium cacodylate, pH 7.0.
b5′-biotinylated oligonucleotides.
ccalculated for 10−4 M oligomer concentration.
n.d., not determined.