Table 1.
FRET efficiency of target capture complex and strand transfer complex
| Target DNA | ETCC ± σTCC | ESTC ± σSTC |
|---|---|---|
| GC | – | 0.54 ± 0.06 |
| G/T | – | 0.32 ± 0.08 |
| Nick (5’-P) | 0.15 ± 0.08 | 0.27 ± 0.04, 0.10 ± 0.04 |
| 1nt Gap (5’-P) | 0.16 ± 0.05 | 0.16 ± 0.05 |
| 2nt Gap (5’-P) | 0.18 ± 0.10 | 0.21 ± 0.05 |
| Nick (5’-OH) | 0.17 ± 0.07 | 0.17 ± 0.05 |
| 1nt Gap (5’-OH) | 0.19 ± 0.05 | 0.18 ± 0.05 |
| 2nt Gap (5’-OH) | 0.23 ± 0.11 | 0.24 ± 0.05 |
| Cy3-PFV-ddA | ||
| 1nt Gap (5’-OH) | 0.15 ± 0.05 | - |
| Blocked-end Target DNA | ||
| 1nt Gap (5’-OH) | 0.18 ± 0.05 | 0.19 ± 0.05 |
| R-Cy5 Target DNA | ||
| 1nt Gap (5’-OH) | 0.21 ± 0.10 | 0.29 ± 0.06 |
Wild type Cy3-PFV or Cy3-PFV-ddA intasome interaction with Target DNA substrates labeled with Cy5 and Alexa488 (see: Supplementary Table 1). FRET values were calculated as described (Methods) by fitting Target Capture Complex (TCC) and Strand Transfer Complex (STC) FRET distributions with a single or two [Nick (5’P) ESTC] Gaussian distributions. E and σ indicate the mean and standard deviation, respectively.