Table 1.
Binding energies of random RNA pairs of length 25 to 2 URR RNAs of length 5. (Different base compositions in the short RNA sequences from pure AU to pure GC were studied. The free energies for cooperative interaction (ΔGcoop) are calculated for the conformations of lowest free binding energies (ΔGbind) as indicated in figure 2 and given with the standard deviation.)
| sequence (%AU) | sample (no. of URR) | sample size: sequence pairs | heterocooperativity | self-cooperativity | ||||
|---|---|---|---|---|---|---|---|---|
| stable (%) | −ΔGcoop (kcal mol−1) | −ΔGbind (kcal mol−1) | stable (%) | −ΔGcoop (kcal mol−1) | −ΔGbind (kcal mol−1) | |||
| 100 | 11 | 1 000 000 | 0.1±0.1 | 3.13±2.26 | 0.32±0.22 | 0.2±0.3 | 4.00±2.77 | 0.32±0.21 |
| 90 | 56 | 824 301 | 1.0±1.2 | 3.02±2.21 | 0.58±0.55 | 0.9±1.1 | 3.71±2.65 | 0.72±0.68 |
| 80 | 223 | 364 473 | 8.8±9.2 | 2.90±2.15 | 0.87±0.76 | 7.5±8.5 | 3.53±2.57 | 0.92±0.78 |
| 70 | 557 | 163 760 | 18.4±12.7 | 2.85±2.12 | 1.14±0.98 | 14.2±10.1 | 3.35±2.46 | 1.17±0.99 |
| 60 | 1021 | 62 027 | 31.6±14.3 | 2.80±2.10 | 1.45±1.17 | 23.9±11.7 | 3.24±2.39 | 1.47±1.18 |
| 50 | 1265 | 28 598 | 42.7±13.3 | 2.78±2.08 | 1.74±1.35 | 32.2±11.8 | 3.20±2.35 | 1.74±1.32 |
| 40 | 1007 | 16 860 | 53.8±11.0 | 2.75±2.07 | 2.09±1.50 | 41.6±10.9 | 3.17±2.33 | 2.03±1.45 |
| 30 | 574 | 14 305 | 60.9±9.6 | 2.75±2.07 | 2.43±1.66 | 48.4±10.2 | 3.21±2.34 | 2.33±1.59 |
| 20 | 238 | 13 105 | 65.7±8.6 | 2.75±2.06 | 2.69±1.76 | 54.0±9.6 | 3.27±2.37 | 2.55±1.67 |
| 10 | 35 | 12 054 | 70.9±7.0 | 2.76±2.07 | 3.07±1.91 | 58.9±9.1 | 3.31±2.39 | 2.85±1.80 |
| 0 | 8 | 11 860 | 73.3±8.4 | 2.85±2.11 | 3.51±2.07 | 66.0±4.1 | 3.67±2.63 | 3.29±1.98 |