Table 1.
List of mapped DNA cleavage sites
| Cleaved sequencesa | Substrate | ||||||||||||
| -6 | -5 | -4 | -3 | -2 | -1 | 1 | 2 | 3 | 4 | 5 | 6 | ||
| Sequences cleaved by both EcTOP and MtTOP | |||||||||||||
| Sequences preferred equally | |||||||||||||
| G | G | C | A | T | T | T | C | G | G | T | G | MdnaK | |
| C | T | C | G | C | A | A | G | C | C | G | T | MdnaK | |
| T | T | C | C | A | A | C | G | G | A | T | C | MdnaK | |
| T | T | C | C | T | T | G | A | C | C | A | C | MdnaK | |
| T | G | C | C | A | T | A | T | T | T | C | G | PBAD | |
| T | T | C | A | A | G | C | T | T | G | T | C | PBAD | |
| C | T | C | G | T | C | T | T | C | C | A | T | Mtop | |
| T | T | C | C | A | T | C | G | C | C | G | C | Mtop | |
| G | A | C | C | G | A | A | A | T | G | C | T | Mtop | |
| MtTOP preferred sequencesb | |||||||||||||
| T | T | C | C | A | G | T | C | G | G | T | G | MdnaK | |
| G | A | C | C | G | C | A | C | T | C | G | C | MdnaK | |
| C | A | C | G | T | T | G | T | G | C | T | C | MdnaK | |
| T | T | C | A | C | C | T | C | G | C | C | C | MdnaK | |
| A | T | C | G | T | C | A | T | C | A | C | C | PBAD | |
| T | T | C | A | A | C | T | G | A | C | C | T | PBAD | |
| EcTOP preferred sequencesb | |||||||||||||
| A | G | C | C | C | T | T | C | C | A | G | T | MdnaK | |
| C | G | C | A | C | T | C | G | C | A | A | G | MdnaK | |
| A | T | C | A | C | G | T | T | G | T | G | C | MdnaK | |
| T | T | C | C | T | T | G | C | C | G | C | C | MdnaK | |
| G | T | C | A | T | C | A | C | C | G | G | A | PBAD | |
| Sequences cleaved by MtTOP alone | |||||||||||||
| G | T | C | G | T | C | G | C | C | G | C | C | MdnaK | |
| T | T | C | A | G | T | T | T | T | G | C | A | PBAD | |
| G | A | C | A | G | T | G | C | A | C | C | C | PBAD | |
| Sequences cleaved by EcTOP alone | |||||||||||||
| A | A | C | C | T | C | A | T | C | G | G | G | MdnaK | |
| C | G | C | C | G | A | G | G | T | G | G | T | MdnaK | |
| C | G | C | C | A | C | T | T | C | A | C | C | PBAD | |
a Sequences are numbered from -6 to 6 (5' to 3'). Topoisomerase I mediated cleavage occurs between -1 and 1.
b Among sequences cleaved by both EcTOP and MtTOP, sequences showing at least one-fold higher cleavage intensity towards EcTOP or MtTOP than the other enzyme are grouped as EcTOP or MtTOP preferred sequences respectively