Table 1 Thermodynamic parameters of duplex formation with s6G.
Duplexes (5′-3′)b | Average of curve fits | TM−1 vs log CT plots | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|
−ΔH° (kcal/mol) | −ΔS° (eu) | −ΔG°37 (kcal/mol) | TMc (°C) | −ΔH° (kcal/mol) | −ΔS° (eu) | −ΔG°37 (kcal/mol) | TMc(°C) | ΔΔG°37 (kcal/mol)d | ||
C1 | CAGUCAGU GUCAGUCA | 71.0 ± 3.5 | 196.6 ± 11.0 | 10.04 ± 0.14 | 53.1 | 77.6 ± 4.0 | 217.1 ± 12.4 | 10.26 ± 0.15 | 52.7 | — |
C2 | UCAGUCAG AGUCAGUC | 73.5 ± 5.0 | 204.5 ± 15.6 | 10.07 ± 0.22 | 52.7 | 71.2 ± 3.9 | 197.4 ± 12.3 | 9.96 ± 0.15 | 52.7 | — |
M1 | GCAGUCAGU GUCAGUCA | 74.3 ± 1.0 | 204.5 ± 3.0 | 10.89 ± 0.11 | 56.3 | 63.6 ± 1.6 | 171.6 ± 5.0 | 10.41 ± 0.07 | 57.1 | 0 |
M2 | GCAGUCAGU GUCAGUCA | 75.3 ± 11.5 | 207.5 ± 35.3 | 10.95 ± 0.57 | 56.3 | 74.4 ± 3.7 | 204.7 ± 11.4 | 10.96 ± 0.18 | 56.6 | −0.55 |
M3 | UCAGUCAGG AGUCAGUC | 72.0 ± 6.8 | 196.8 ± 20.9 | 10.99 ± 0.30 | 57.5 | 72.9 ± 3.8 | 199.5 ± 11.7 | 10.98 ± 0.19 | 57.2 | 0 |
M4 | UCAGUCAGG AGUCAGUC | 87.5 ± 19.7 | 244.6 ± 60.4 | 11.61 ± 0.98 | 56.1 | 87.7 ± 11.6 | 245.1 ± 35.4 | 11.70 ± 0.66 | 56.4 | −0.72 |
M5 | GCAGUCAGU CGUCAGUCA | 83.3 ± 7.8 | 225.1 ± 23.0 | 13.48 ± 0.66 | 65.2 | 74.2 ± 2.5 | 198.2 ± 7.4 | 12.74 ± 0.19 | 65.3 | 0 |
M6 | GCAGUCAGU CGUCAGUCA | 78.4 ± 1.0 | 213.6 ± 3.2 | 12.18 ± 0.09 | 61.1 | 69.6 ± 2.5 | 186.9 ± 7.6 | 11.67 ± 0.15 | 61.7 | 1.07 |
M7 | UCAGUCAGG AGUCAGUCC | 76.8 ± 6.9 | 206.4 ± 20.8 | 12.79 ± 0.44 | 64.5 | 73.3 ± 2.4 | 195.8 ± 19.3 | 12.53 ± 0.47 | 64.7 | 0 |
M8 | UCAGUCAGG AGUCAGUCC | 77.6 ± 2.7 | 211.3 ± 8.1 | 12.03 ± 0.23 | 60.7 | 67.8 ± 1.6 | 181.6 ± 5.0 | 11.44 ± 0.10 | 61.2 | 1.09 |
M9 | UCAGGCAGU AGUCCGUCA | 80.2 ± 2.0 | 213.0 ± 5.9 | 13.93 ± 0.17 | 68.6 | 77.6 ± 0.7 | 206.0 ± 2.1 | 13.74 ± 0.06 | 68.7 | 0 |
M10 | UCAGGCAGU AGUCCGUCA | 68.4 ± 2.1 | 184.5 ± 6.8 | 11.17 ± 0.09 | 59.6 | 66.9 ± 2.8 | 180.1 ± 8.6 | 11.10 ± 0.16 | 59.7 | 2.64 |
M11 | UCACGGAGU AGUGCCUCA | 78.9 ± 8.7 | 210.4 ± 25.8 | 13.69 ± 0.75 | 67.9 | 75.7 ± 2.9 | 201.0 ± 8.6 | 13.37 ± 0.23 | 67.8 | 0 |
M12 | UCACGGAGU AGUGCCUCA | 70.0 ± 8.8 | 189.7 ± 27.0 | 11.19 ± 0.44 | 59.1 | 63.9 ± 3.8 | 170.9 ± 11.7 | 10.89 ± 0.22 | 59.7 | 2.48 |
M13 | UCAAGUAGU AGUUCAUCA | 75.6 ± 6.3 | 210.5 ± 19.7 | 10.34 ± 0.18 | 53.5 | 73.8 ± 3.6 | 204.8 ± 11.2 | 10.28 ± 0.15 | 53.6 | 0 |
M14 | UCAAGUAGU AGUUCAUCA | 69.4 ± 2.0 | 195.8 ± 6.4 | 8.67 ± 0.07 | 46.9 | 62.4 ± 2.7 | 173.8 ± 8.4 | 8.53 ± 0.06 | 47.2 | 1.75 |
M15 | UCAUGAAGU AGUACUUCA | 76.0 ± 9.6 | 212.6 ± 30.1 | 10.12 ± 0.27 | 52.3 | 78.6 ± 1.3 | 220.6 ± 4.0 | 10.19 ± 0.05 | 52.1 | 0 |
M16 | UCAUGAAGU AGUACUUCA | 61.0 ± 3.8 | 172.3 ± 12.0 | 7.59 ± 0.11 | 42.5 | 62.2 ± 2.0 | 176.2 ± 6.3 | 7.61 ± 0.02 | 42.5 | 2.58 |
M17 | UCAGGCAGU AGUCGGUCA | 77.3 ± 1.9 | 217.4 ± 5.8 | 9.92 ± 0.11 | 51.2 | 85.0 ± 2.5 | 240.9 ± 7.7 | 10.30 ± 0.12 | 51.4 | 0 |
M18 | UCAGGCAGU AGUCGGUCA | 62.3 ± 2.5 | 175.7 ± 7.9 | 7.76 ± 0.10 | 43.2 | 62.1 ± 2.6 | 175.1 ± 8.4 | 7.74 ± 0.04 | 43.2 | 2.56 |
M19 | UCAGGCAGU AGUCUGUCA | 83.5 ± 3.4 | 230.6 ± 10.4 | 12.03 ± 0.17 | 58.9 | 74.2 ± 1.4 | 202.0 ± 4.4 | 11.53 ± 0.08 | 59.4 | 0 |
M20 | UCAGGCAGU AGUCUGUCA | 73.1 ± 2.4 | 204.9 ± 7.6 | 9.55 ± 0.07 | 50.4 | 73.8 ± 1.4 | 207.2 ± 4.5 | 9.56 ± 0.04 | 50.3 | 1.97 |
M21 | UCAGGCAGU AGUCAGUCA | 68.7 ± 8.3 | 194.2 ± 26.5 | 8.49 ± 0.15 | 46.1 | 69.3 ± 3.7 | 196.3 ± 11.8 | 8.45 ± 0.08 | 45.9 | 0 |
M22 | UCAGGCAGU AGUCAGUCA | 57.8 ± 2.1 | 164.8 ± 6.8 | 6.66 ± 0.06 | 37.7 | 58.5 ± 2.3 | 167.4 ± 7.4 | 6.63 ± 0.03 | 37.5 | 1.82 |
