Table 1.
Quantification of unfolding transitions from RPSOutr and related mutants
| Construct | Wild-type | mS1L | mACd14 | |||||
|---|---|---|---|---|---|---|---|---|
| Transition | Rip 1 of 2R | Rip 2 of 2R | Rip of HR | Rip of BR | Rip of BR[2] | Rip 1 of 2R | Rip 1 of 2R | Rip 2 of 2R |
| Structural change | Mixed | H1 to SS | H1 to SS | PK to SS | PK to SS | H2 to SS | PK to H1 | H1 to SS |
| Number of nucleotides releaseda | Mixed | 27–29 nt | 27–29 nt | 67 nt | 67 nt | 26–30 nt | 24–26 nt | 27-29 nt |
| N (rips) | 810 | 826 | 649 | 258 | 232 | 220 | 273 | 273 |
| Unfolding force (pN) | 11.0 ± 1.7 | 14.3 ± 0.8 | 14.3 ± 0.7 | 18.0 ± 2.3 | 15.1 ± 1.4 | 9.0 ± 0.6 | 13.1 ± 1.2 | 14.3 ± 1.0 |
| Extension change (nm) | 10.0 ± 2.2 | 9.9 ± 1.4 | 9.8 ± 1.2 | 24.9 ± 1.4 | 23.9 ± 1.2 | 8.3 ± 0.9 | 7.1 ± 1.2 | 9.5 ± 1.0 |
| Number of nucleotide change, calibratedb | N/Ad | 28.3 ± 3.4 | 28.1 ± 2.8 | 66.8 ± 2.7 | 66.6 ± 2.4 | 27.8 ± 2.3 | 23.0 ± 2.6 | 27.4 ± 2.3 |
| ΔG (KJ/mol)c | N/Ad | 38.3 ± 2.2 | 40.6 ± 1.3 | 124.0 ± 5.2 | 110.5 ± 3.4 | 19.8 ± 1.3 | 22.7 ± 1.0 | 41.0 ± 2.9 |
A complete list can be found in Supplementary Table S1. Data are presented as mean ± SD.
Abbreviations: nt, nucleotide; H1, Hairpin 1; H2, Hairpin 2; SS, single strand; PK, pseudoknot.
aExpected numbers of nucleotides released from the designated structural change. A range is given for those involving Hairpin 1 or 2 because the weak G:U or A:U closing base pairs in the hairpins may or may not pair under force.
bCalibrated by the worm-like chain model for the designated structural change.
cFree energy change for the designated structural change. The RNA tethering energy has been subtracted. See Supplementary Table S1 for more details.
dNot applicable; including a variety of structural transitions.