Table 2.
Previously characterized and potential new TAS components detected with the second approach
| Query family | Source | Adjacent gene family | Adjacent gene function; reasons if discarded. | Number of occurrences observed |
| AbrB/MazE | [3] | PIN | Nuclease | 312 |
| MazF | RNA interferase | 97 | ||
| Fic/Doc | AMPylation enzyme | 48 | ||
| RelE | RNA interferase | 27 | ||
| ArsR | Table 1 | COG3832 | Aha1 domain | 280 |
| COG0394* | Arsenate reductase arsC; Part of a larger conserved gene associations | 98 | ||
| COG2217* | Cation transport ATPase; Part of a larger conserved gene associations | 83 | ||
| COG0798* | Arsenite efflux pump ACR3; Part of a larger conserved gene associations | 74 | ||
| COG2391* | YeeE/YedE family, DUF395; Part of a larger conserved gene associations | 64 | ||
| COG1055* | Arsenical pump membrane protein; Part of a larger conserved gene associations | 53 | ||
| RHH | [3] | RelE | RNA interferase | 376 |
| PIN | Nuclease | 335 | ||
| GNAT | Acetyltransferase | 139 | ||
| MazF | RNA interferase | 62 | ||
| COG3505* | TraG/TraD/VirD4 family; Part of a larger conserved gene associations | 58 | ||
| COG2929 | DUF497 | 55 | ||
| ParA* | ParA, plasmid partitioning ATPase; Part of a larger conserved gene associations | 54 | ||
| HicA | RNA interferase | 26 | ||
| RHH | DNA-binding domain | 23 | ||
| COG0716* | Flavodoxin; Part of a larger conserved gene associations | 22 | ||
| COG4962* | Type II/IV secretion system protein; Part of a larger conserved gene associations | 21 | ||
| Fic_Doc | [3] | AbrB | DNA-binding domain | 55 |
| xre | DNA-binding domain | 22 | ||
| yhfG | Unknown | 11 | ||
| MazF | [3] | AbrB | DNA-binding domain | 107 |
| RHH | DNA-binding domain | 81 | ||
| MazF/ccd | RNA interferase | 43 | ||
| XF1863 | Unknown | 29 | ||
| RelE | [3] | xre | Transcriptional regulator | 730 |
| RHH | DNA-binding domain | 510 | ||
| PHD | DNA-binding domain | 337 | ||
| COG2856 | Zn peptidase (fused to HTH) | 15 | ||
| COG1753 | Predicted DNA-binding domain; RHH fold | 10 | ||
|
PIN RNA nuclease |
[3] | RHH | DNA-binding domain | 366 |
| AbrB | DNA-binding domain | 348 | ||
| PHD | DNA-binding domain | 285 | ||
| COG2442 | Protein of unknown function DUF433 | 97 | ||
| COG2886 | Uncharacterized protein family (UPF0175) | 46 | ||
| COG2856 | Zn peptidase (fused to HTH) | 42 | ||
| MazF/ccd | COG5302 | 41 | ||
| COG1211* | 4-diphosphocytidyl-2-methyl-D-erithritol synthase; Part of a larger conserved gene associations | 39 | ||
| MerR | Transcriptional regulator | 33 | ||
| COG1066* | Sms; Part of a large conserved gene associations | 26 | ||
| COG1092* | SAM-dependent methyltransferase; Part of a larger conserved gene associations | 26 | ||
| COG2880 | Predicted DNA-binding protein; AbrB superfamily | 24 | ||
| pfam00155* | Aminotransferase; Part of a larger conserved gene associations | 24 | ||
| COG5257* | Translation initiation factor 2; Part of a larger conserved gene associations | 20 | ||
| COG1753 | Predicted DNA-binding domain; RHH fold | 20 | ||
| PHD | [3] | PIN | Nuclease | 276 |
| SMa0917 | PemK/MazFI | 15 | ||
| MNT | Table 1 | HEPN | Unknown | 445 |
| HEPN | Table 1 | MNT | Predicted nucleotidyltransferase | 482 |
| Xre | [3] | RelE | RNA interferase | 614 |
| HipA | EF-Tu kinase | 244 | ||
| COG2856 | Zincin protease | 194 | ||
| xre | A variety of proteins containing xre-like HTH, many fused with various domain, not a distinct set | 97 | ||
| PIN | Nuclease | 67 | ||
| DUF397 | Unknown | 64 | ||
| COG0800* | 2-keto-3-deoxy-6-phosphogluconate aldolase; Part of a larger conserved gene associations | 46 | ||
| COG3842* | PotA is ABC-type transporter; Part of a larger conserved gene associations | 40 | ||
| PA2784-like* | A membrane protein, likely an exporter | 36 | ||
| YoaS-like* | A membrane protein, likely permease | 32 | ||
| antirepressor | BRO family; KilA – letal to host cells | 30 | ||
| GNAT | Acetyltransferase | 30 | ||
| COG3063* | Tfp pilus assembly protein PilF; Part of a large conserved gene associations | 27 | ||
| PA4076-like* | A membrane protein, likely an exporter | 27 | ||
| COG4974* | Site-specific recombinase XerD; Apparent phage components with another function | 25 | ||
| COG0483* | Archaeal fructose-1,6-bisphosphatase; Part of a larger conserved gene associations | 21 | ||
| xre COG5642 subfamily | COG5654 | Predicted transcriptional regulator | 118 | |
| HipA | [3] | xre | Transcriptional regulator | 333 |
| COG3550 | HipA C-terminal | 51 | ||
| COG2856 | [60] | xre | Transcriptional regulator | 145 |
| PIN | Nuclease | 60 | ||
| RelE | RNA interferase | 22 | ||
| COG2880 | [13] | PIN | Nuclease | 25 |
| COG3832 | Table 1 | ArsR | Transcriptional regulator | 259 |
| COG4636 | [13] | COG4636 | Predicted endonuclease | 114 |
| COG4679 (RelE family) | [13] | COG5606 | Predicted RNA interferase | 43 |
New TAS discussed in this work are shown in bold type; other associations marked by asterisk in column 3 were disregarded for reasons indicated in column 4.