Table 1.
List of PSSM profiles selected in TAcddb to verify the presence of a conserved TA-related domain
| PSSMid | CD accession name | Relation/involvement in TA world | Reference |
| 28977 | cd00093-HTH_XRE | XRE-like domain present in HigA and VapB antitoxins | [20], this study |
| 31586 | COG1396-HipB | Involved in production of persister cells (antitoxin) | [20] |
| 31676 | COG1487-VapC | Quality control of gene expression | [57] |
| 31786 | COG1598 | HicB of HicAB system (function undetermined) | [58] |
| 31910 | COG1724 | HicA of HicAB system (function undetermined) | [58] |
| 32033 | COG1848 | PIN domain, present in VapC toxins | [20,59,60] |
| 32185 | COG2002-AbrB | Domain present in of MazE and VapB antitoxins | [20] |
| 32209 | COG2026-RelE | Toxin of cytotoxic translational repressor system | [14,28,29] |
| 32344 | COG2161-StbD | Antitoxin of the RelBE family | [61] |
| 32487 | COG2336-MazE | Growth regulator (antitoxin) | [45] |
| 32488 | COG2337-MazF | Growth inhibitor (toxin) | [45] |
| 32907 | COG3093-VapI | Named from VapI region; corresponds to VapB antitoxins (Plasmid maintenance) | [62], this study |
| 33351 | COG3549-HigB | Toxin of plasmid maintenance system | [23] |
| 33352 | COG3550-HipA | Involved in production of persister cells (toxin) | [20] |
| 33408 | COG3609 | CopG/Arc/MetJ DNA-binding domain, present in RelB, ParD, VapBCand CcdA antitoxins | [20], this study |
| 33452 | COG3654-Doc | Toxin of probable translational inhibitor system | [25,63] |
| 33466 | COG3668-ParE | Toxin of plasmid stabilization system | [22,64] |
| 33870 | COG4113 | PIN domain, present in VapC toxins | [20,59,60] |
| 33875 | COG4118-Phd | Antitoxin to translational inhibitor Doc | [65] |
| 33951 | COG4226-HicB | HicB of HicAB system (predicted) | [58] |
| 34119 | COG4423 | Predicted antitoxin of PIN domain toxins (VapC) | [57,60] |
| 34135 | COG4456-VagC | Antitoxin of plasmid maintenance system | [66] |
| 34307 | COG4691-StbC | Plasmid stability proteins (HigBA family) | [67,68], this study |
| 34891 | COG5302-CcdA | Antitoxin of plasmid stabilization system | [27,69] |
| 35058 | COG5499 | Predicted transcription regulators with HTH domain | [20], this study |
| 41431 | pfam01381-Hth_3 | Present in antitoxins of HigBA and VapBC families | [20], this study |
| 41452 | pfam01402-Hth_4 | Present in CopG repressors (RelBE, ParDE, VapBC, and CcdAB families) | [20], this study |
| 41869 | pfam01845-CcdB | Toxin of plasmid stabilization system | [69] |
| 41874 | pfam01850-PIN | DNA binding PIN domain, present in VapC toxins | [59,60] |
| 42429 | pfam02452-PemK | Toxin of the MazEF family | [70] |
| 43931 | pfam04014-AbrB | Domain present in MazE and VapB antitoxins | [20], this study |
| 44135 | pfam04221-RelB | Antitoxin to translational repressor RelE | [14] |
| 44915 | pfam05012-Doc | Toxin of probable translational inhibitor system | [63] |
| 44918 | pfam05015-Plasmid_killer | Toxins of the HigBA family | [23], this study |
| 44919 | pfam05016-Plasmid_stabil | Toxins of the RelE family | [14], this study |
| 45431 | pfam05534-HicB | Member of the HicAB system | [58] |
| 47246 | pfam07362-CcdA | Antitoxin of plasmid stabilization system | [27,69] |
| 47831 | smart00530-Xre | XRE-like HTH domain present in HigA and VapB | [20], this study |
References to 'this study' correspond to domains found in this study upon sequence analysis of described TA candidates. AbrB, AidB regulator; HTH, helix-turn-helix; PIN, homologues of the pilin biogenesis protein pilT amino-terminal domain; XRE, xenobiotic response element.