Table 1.
Dissociation constants (Kd) and Tm values for all tested nucleic acids with ligand 3a
| Nucleic acids | Specific target | Tm (°C)b | Kd(1) | Kd(2) | Kd(3) | Selectivityc |
|---|---|---|---|---|---|---|
| (CCUG)6 | C–U pairsd | 61 | 5.2 ± 0.6 | 478 ± 85 | – | 1.4 |
| A | C–U pairs | 53 | 3.6 ± 0.8 | 258 ± 37 | – | 1.0 |
| B | C–C and U–U | 54 | 0.13 ± 0.04 | 10 ± 5 | 202 ± 14 | 0.04 |
| C | Single C–U pair | 62 | 85 ± 30 | 231 ± 55 | – | 24.0 |
| D | U–U | 63 | 25 ± 13 | 271 ± 83 | – | 6.9 |
| E | C–C | 62 | 0.77 ± 0.28 | 162 ± 8 | – | 0.2 |
| F | A–A | 62 | 118 ± 8 | 2270 ± 360 | – | 33.0 |
| G | G–G | 67 | 103 ± 26 | 7690 ± 280 | – | 29.0 |
| H | T–T | 51 | 1.4 ± 1.5 | 102 ± 25 | – | 0.4 |
| I | – | – | 334 ± 11 | – | – | 93.0 |
| tRNA | – | – | 2400 ± 2100 | – | – | 670.0 |
| hsDNA | – | – | 36 ± 7e | – | – | 10.0 |
aKd values are reported in µM. bConcentrations of duplexes are 10 µM; additional 1% (v/v) DMSO has negligible effect on the stability of the duplexes (ΔTm < 2°C). cSelectivity is the ratio of Kd(1) of the particular nucleic acid to that of RNA A. dm-fold predicts two 2 × 2 nt internal loops. eLigand 3 bound to about every 10 bp.