Detailed information of TA system
Overview
TA module
| Type | II | Classification (family/domain) | ccdAB/CcdA(antitoxin) |
| Location | 75460..75985 | Replicon | plasmid pSD1_197 |
| Accession | NC_007607 | ||
| Organism | Shigella dysenteriae Sd197 | ||
Toxin (Protein)
| Gene name | ccdB | Uniprot ID | Q326Z8 |
| Locus tag | SDY_RS23580 | Protein ID | WP_001159860.1 |
| Coordinates | 75680..75985 (+) | Length | 102 a.a. |
Antitoxin (Protein)
| Gene name | ccdA | Uniprot ID | Q7BEK0 |
| Locus tag | SDY_RS23575 | Protein ID | WP_000813626.1 |
| Coordinates | 75460..75678 (+) | Length | 73 a.a. |
Genomic Context
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| SDY_RS23540 | 71197..71481 | + | 285 | WP_001178088.1 | ribbon-helix-helix domain-containing protein | - |
| SDY_RS23545 | 71481..71756 | + | 276 | WP_000421263.1 | type II toxin-antitoxin system RelE/ParE family toxin | - |
| SDY_RS24530 | 71888..72025 | - | 138 | WP_000766699.1 | hypothetical protein | - |
| SDY_RS23555 | 72117..72482 | - | 366 | WP_000361391.1 | plasmid partitioning/stability family protein | - |
| SDY_RS23560 | 72485..73053 | - | 569 | Protein_87 | plasmid segregation protein ParM | - |
| SDY_RS23565 | 73061..74151 | + | 1091 | Protein_88 | IS66 family transposase | - |
| SDY_RS23570 | 74527..75220 | - | 694 | Protein_89 | IS1 family transposase | - |
| SDY_RS23575 | 75460..75678 | + | 219 | WP_000813626.1 | type II toxin-antitoxin system antitoxin CcdA | Antitoxin |
| SDY_RS23580 | 75680..75985 | + | 306 | WP_001159860.1 | type II toxin-antitoxin system toxin CcdB | Toxin |
| SDY_RS23585 | 76021..76116 | + | 96 | Protein_92 | transposase domain-containing protein | - |
| SDY_RS23590 | 76244..76938 | + | 695 | WP_164925049.1 | IS1 family transposase | - |
| SDY_RS23595 | 77152..78789 | + | 1638 | WP_000936809.1 | T3SS effector E3 ubiquitin-protein ligase IpaH9.8 | - |
| SDY_RS23600 | 78997..79266 | + | 270 | WP_000079957.1 | hypothetical protein | - |
| SDY_RS24680 | 79263..79489 | + | 227 | Protein_96 | type II toxin-antitoxin system RelE/ParE family toxin | - |
| SDY_RS23605 | 79518..80108 | + | 591 | WP_000705601.1 | type III secretion system effector protein kinase OspG | - |
| SDY_RS24295 | 80447..80731 | + | 285 | Protein_98 | IS66 family insertion sequence element accessory protein TnpB | - |
Associated MGEs
| MGE detail |
Similar MGEs |
Relative position |
MGE Type | Cargo ARG | Virulence gene | Coordinates | Length (bp) |
|---|---|---|---|---|---|---|---|
| - | inside | Non-Mobilizable plasmid | - | ospB / ospC2 / ospD2 / ospF / ospD1 / ipgB2 / ipaH4.5 / ipaH7.8 / ipaH1.4 / ospE2 / ospC1 / ospD3/senA / ospC2 / ospI / ipaH9.8 / ospG / ospC3 / ipaJ / ipaA / ipaD / ipaC / ipaB / ipgC / ipgB1 / ipgA / icsB / ipgD / ipgE / ipgF / mxiG / mxiH / mxiI / mxiJ / mxiK / mxiN / mxiL / mxiM / mxiE / mxiD / mxiC / mxiA / spa15 / spa47 / spa13 / spa32 / spa33 / spa24 / spa9 / spa29 / spa40 / virA / icsA/virG / nleE / icsP/sopA | 1..182726 | 182726 | |
| - | inside | IScluster/Tn | - | ipaH1.4 / ospE2 / ospC1 / ospD3/senA / ospC2 / ospI / ipaH9.8 / ospG | 37326..82140 | 44814 |
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
>T21333 WP_001159860.1 NC_007607:75680-75985 [Shigella dysenteriae Sd197]
MQFKVYAYKRESRYRLFVDVQSDIIDTPGRRMVIPLASARLLSDKVSRELYPVVHVGDESWRMMTTDMASVPIFVIGEEV
ADLSHRENDIKNAINLMFWGI
MQFKVYAYKRESRYRLFVDVQSDIIDTPGRRMVIPLASARLLSDKVSRELYPVVHVGDESWRMMTTDMASVPIFVIGEEV
ADLSHRENDIKNAINLMFWGI
Download Length: 306 bp
>T21333 NC_007607:75680-75985 [Shigella dysenteriae Sd197]
ATGCAGTTTAAGGTTTACGCCTATAAAAGAGAGAGTCGTTATCGTCTGTTTGTGGATGTACAGAGTGACATTATTGACAC
GCCCGGACGACGGATGGTGATCCCCCTGGCCAGTGCCCGCCTGCTGTCAGATAAAGTCTCCCGTGAGCTTTACCCGGTGG
TGCATGTCGGGGATGAAAGCTGGCGCATGATGACCACTGATATGGCCAGTGTGCCGATCTTCGTTATCGGGGAAGAAGTG
GCTGATCTCAGCCACCGCGAAAATGACATCAAAAACGCCATTAACCTGATGTTCTGGGGAATATAA
ATGCAGTTTAAGGTTTACGCCTATAAAAGAGAGAGTCGTTATCGTCTGTTTGTGGATGTACAGAGTGACATTATTGACAC
GCCCGGACGACGGATGGTGATCCCCCTGGCCAGTGCCCGCCTGCTGTCAGATAAAGTCTCCCGTGAGCTTTACCCGGTGG
TGCATGTCGGGGATGAAAGCTGGCGCATGATGACCACTGATATGGCCAGTGTGCCGATCTTCGTTATCGGGGAAGAAGTG
GCTGATCTCAGCCACCGCGAAAATGACATCAAAAACGCCATTAACCTGATGTTCTGGGGAATATAA
Antitoxin
Download Length: 73 a.a. Molecular weight: 8333.36 Da Isoelectric Point: 6.2838
>AT21333 WP_000813626.1 NC_007607:75460-75678 [Shigella dysenteriae Sd197]
MKQRITVTIDSDSYQLLKSANVNISGLVNTAMQKEARRLRAERWQAENQQGMAEIARFIEMNGSFADENRDW
MKQRITVTIDSDSYQLLKSANVNISGLVNTAMQKEARRLRAERWQAENQQGMAEIARFIEMNGSFADENRDW
Download Length: 219 bp
>AT21333 NC_007607:75460-75678 [Shigella dysenteriae Sd197]
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 |