Detailed information of TA system
Overview
TA module
| Type | II | Classification (family/domain) | ccdAB/CcdA(antitoxin) |
| Location | 172170..172695 | Replicon | plasmid unnamed1 |
| Accession | NZ_CP026804 | ||
| Organism | Shigella flexneri strain 89-141 | ||
Toxin (Protein)
| Gene name | ccdB | Uniprot ID | Q326Z8 |
| Locus tag | C1P88_RS24235 | Protein ID | WP_001159860.1 |
| Coordinates | 172170..172475 (-) | Length | 102 a.a. |
Antitoxin (Protein)
| Gene name | ccdA | Uniprot ID | Q7BEK0 |
| Locus tag | C1P88_RS24240 | Protein ID | WP_000813626.1 |
| Coordinates | 172477..172695 (-) | Length | 73 a.a. |
Genomic Context
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| C1P88_RS25140 | 168198..168464 | - | 267 | Protein_195 | IS66 family insertion sequence element accessory protein TnpB | - |
| C1P88_RS24210 | 168821..169411 | - | 591 | WP_000705601.1 | type III secretion system effector protein kinase OspG | - |
| C1P88_RS25730 | 169494..169663 | - | 170 | Protein_197 | type II toxin-antitoxin system toxin YacB | - |
| C1P88_RS24220 | 169663..169932 | - | 270 | WP_000079956.1 | type II toxin-antitoxin system antitoxin YacA | - |
| C1P88_RS24225 | 170140..171777 | - | 1638 | WP_000936806.1 | T3SS effector E3 ubiquitin-protein ligase IpaH9.8 | - |
| C1P88_RS24235 | 172170..172475 | - | 306 | WP_001159860.1 | type II toxin-antitoxin system toxin CcdB | Toxin |
| C1P88_RS24240 | 172477..172695 | - | 219 | WP_000813626.1 | type II toxin-antitoxin system antitoxin CcdA | Antitoxin |
| C1P88_RS24245 | 173231..174322 | - | 1092 | Protein_202 | IS66 family transposase | - |
| C1P88_RS24250 | 174330..174901 | + | 572 | Protein_203 | plasmid segregation protein ParM | - |
| C1P88_RS25735 | 174904..175086 | + | 183 | WP_234426364.1 | plasmid partitioning/stability family protein | - |
| C1P88_RS25145 | 175362..175499 | + | 138 | WP_000766699.1 | hypothetical protein | - |
| C1P88_RS24260 | 175631..175906 | - | 276 | WP_000421262.1 | type II toxin-antitoxin system RelE/ParE family toxin | - |
| C1P88_RS24265 | 175906..176190 | - | 285 | WP_001178088.1 | ribbon-helix-helix domain-containing protein | - |
| C1P88_RS24275 | 176642..176893 | + | 252 | WP_001381727.1 | transporter | - |
| C1P88_RS24280 | 176943..177152 | + | 210 | Protein_209 | peptidoglycan-binding protein | - |
| C1P88_RS24285 | 177252..177437 | - | 186 | Protein_210 | ATP-binding protein | - |
Associated MGEs
| MGE detail |
Similar MGEs |
Relative position |
MGE Type | Cargo ARG | Virulence gene | Coordinates | Length (bp) |
|---|---|---|---|---|---|---|---|
| - | inside | Non-Mobilizable plasmid | - | spa24 / spa33 / spa32 / spa13 / spa47 / spa15 / mxiA / mxiA / mxiA / mxiA / mxiC / mxiC / mxiD / mxiD / mxiE / mxiM / mxiL / mxiN / mxiK / mxiJ / mxiI / mxiH / mxiG / ipgF / ipgE / ipgD / icsB / ipgA / ipgB1 / ipgC / ipaB / ipaC / ipaD / ipaA / ipaJ / ospC3 / ospC1 / ospD3/senA / ipaH4.5 / ipaH1.4 / ospE2 / ospE2 / ipaH2.5 / ipgB2 / ospD1 / ospF / ospD2 / ospC2 / ospC4 / ospC3 / ospB / icsP/sopA / nleE / ospC2 / ipaH7.8 / ospG / ipaH9.8 / ospI / papC / icsA/virG / icsA/virG / virA / spa40 / spa29 / spa9 / spa24 / spa33 / spa32 / spa13 / spa47 / spa15 / mxiA / mxiC / mxiD / mxiE / mxiM / mxiL / mxiN / mxiK / mxiJ / mxiI / mxiH / mxiG / mxiG / ipgF / ipgE / ipgD / ipgD / ipgD / ipgD / icsB / icsB / ipgA | 1..245004 | 245004 | |
| - | inside | IScluster/Tn | - | ospG / ipaH9.8 / ospI | 165602..190631 | 25029 |
Relative position:
(1) inside: TA loci is completely located inside the MGE;
(2) overlap: TA loci is partially overlapped with the MGE;
(3) flank: The TA loci is located in the 5 kb flanking regions of MGE.
Sequences
Toxin
Download Length: 102 a.a. Molecular weight: 11736.59 Da Isoelectric Point: 6.4674
>T96075 WP_001159860.1 NZ_CP026804:c172475-172170 [Shigella flexneri]
MQFKVYAYKRESRYRLFVDVQSDIIDTPGRRMVIPLASARLLSDKVSRELYPVVHVGDESWRMMTTDMASVPIFVIGEEV
ADLSHRENDIKNAINLMFWGI
MQFKVYAYKRESRYRLFVDVQSDIIDTPGRRMVIPLASARLLSDKVSRELYPVVHVGDESWRMMTTDMASVPIFVIGEEV
ADLSHRENDIKNAINLMFWGI
Download Length: 306 bp
>T96075 NZ_CP026804:c172475-172170 [Shigella flexneri]
ATGCAGTTTAAGGTTTACGCCTATAAAAGAGAGAGTCGTTATCGTCTGTTTGTGGATGTACAGAGTGACATTATTGACAC
GCCCGGACGACGGATGGTGATCCCCCTGGCCAGTGCCCGCCTGCTGTCAGATAAAGTCTCCCGTGAGCTTTACCCAGTGG
TGCATGTCGGGGATGAAAGCTGGCGCATGATGACCACTGATATGGCCAGTGTGCCGATCTTCGTTATCGGGGAAGAAGTG
GCTGATCTCAGCCACCGCGAAAATGACATCAAAAACGCCATTAACCTGATGTTCTGGGGAATATAA
ATGCAGTTTAAGGTTTACGCCTATAAAAGAGAGAGTCGTTATCGTCTGTTTGTGGATGTACAGAGTGACATTATTGACAC
GCCCGGACGACGGATGGTGATCCCCCTGGCCAGTGCCCGCCTGCTGTCAGATAAAGTCTCCCGTGAGCTTTACCCAGTGG
TGCATGTCGGGGATGAAAGCTGGCGCATGATGACCACTGATATGGCCAGTGTGCCGATCTTCGTTATCGGGGAAGAAGTG
GCTGATCTCAGCCACCGCGAAAATGACATCAAAAACGCCATTAACCTGATGTTCTGGGGAATATAA
Antitoxin
Download Length: 73 a.a. Molecular weight: 8333.36 Da Isoelectric Point: 6.2838
>AT96075 WP_000813626.1 NZ_CP026804:c172695-172477 [Shigella flexneri]
MKQRITVTIDSDSYQLLKSANVNISGLVNTAMQKEARRLRAERWQAENQQGMAEIARFIEMNGSFADENRDW
MKQRITVTIDSDSYQLLKSANVNISGLVNTAMQKEARRLRAERWQAENQQGMAEIARFIEMNGSFADENRDW
Download Length: 219 bp
>AT96075 NZ_CP026804:c172695-172477 [Shigella flexneri]
ATGAAGCAGCGTATTACTGTCACTATAGACAGTGACAGCTATCAGTTACTTAAATCCGCAAACGTGAATATCTCAGGCCT
GGTAAATACGGCCATGCAAAAAGAGGCCCGCCGTCTGCGTGCGGAACGCTGGCAGGCTGAAAATCAGCAGGGGATGGCTG
AGATCGCCCGTTTTATTGAAATGAACGGCTCTTTTGCCGATGAGAACAGGGACTGGTGA
ATGAAGCAGCGTATTACTGTCACTATAGACAGTGACAGCTATCAGTTACTTAAATCCGCAAACGTGAATATCTCAGGCCT
GGTAAATACGGCCATGCAAAAAGAGGCCCGCCGTCTGCGTGCGGAACGCTGGCAGGCTGAAAATCAGCAGGGGATGGCTG
AGATCGCCCGTTTTATTGAAATGAACGGCTCTTTTGCCGATGAGAACAGGGACTGGTGA
Similar Proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|
Structures
Toxin
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A4P7TTN3 |
Antitoxin
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | Q7BEK0 |