Detailed information of TA system
Overview
TA module
| Type | II | Classification (family/domain) | ccdAB/CcdA(antitoxin) |
| Location | 150596..151121 | Replicon | plasmid unnamed3 |
| Accession | NZ_CP026771 | ||
| Organism | Shigella flexneri Y strain 93-3063 | ||
Toxin (Protein)
| Gene name | ccdB | Uniprot ID | Q326Z8 |
| Locus tag | C1P87_RS25315 | Protein ID | WP_001159860.1 |
| Coordinates | 150596..150901 (-) | Length | 102 a.a. |
Antitoxin (Protein)
| Gene name | ccdA | Uniprot ID | Q7BEK0 |
| Locus tag | C1P87_RS25320 | Protein ID | WP_000813626.1 |
| Coordinates | 150903..151121 (-) | Length | 73 a.a. |
Genomic Context
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| C1P87_RS26430 | 146624..146890 | - | 267 | Protein_170 | IS66 family insertion sequence element accessory protein TnpB | - |
| C1P87_RS25290 | 147247..147837 | - | 591 | WP_000705601.1 | type III secretion system effector protein kinase OspG | - |
| C1P87_RS27175 | 147920..148089 | - | 170 | Protein_172 | type II toxin-antitoxin system toxin YacB | - |
| C1P87_RS25300 | 148089..148358 | - | 270 | Protein_173 | type II toxin-antitoxin system antitoxin YacA | - |
| C1P87_RS25305 | 148566..150203 | - | 1638 | WP_134798326.1 | T3SS effector E3 ubiquitin-protein ligase IpaH9.8 | - |
| C1P87_RS25310 | 150465..150566 | - | 102 | WP_250952192.1 | transposase domain-containing protein | - |
| C1P87_RS25315 | 150596..150901 | - | 306 | WP_001159860.1 | type II toxin-antitoxin system toxin CcdB | Toxin |
| C1P87_RS25320 | 150903..151121 | - | 219 | WP_000813626.1 | type II toxin-antitoxin system antitoxin CcdA | Antitoxin |
| C1P87_RS25325 | 151657..152610 | - | 954 | Protein_178 | IS66 family transposase | - |
| C1P87_RS25330 | 152666..153363 | + | 698 | WP_223368647.1 | IS1 family transposase | - |
| C1P87_RS25340 | 153589..153864 | - | 276 | WP_000421262.1 | type II toxin-antitoxin system RelE/ParE family toxin | - |
| C1P87_RS25345 | 153864..154148 | - | 285 | WP_024260696.1 | ribbon-helix-helix domain-containing protein | - |
| C1P87_RS25355 | 154600..154851 | + | 252 | WP_001381727.1 | transporter | - |
| C1P87_RS25360 | 154901..155110 | + | 210 | Protein_183 | peptidoglycan-binding protein | - |
| C1P87_RS25365 | 155204..155395 | - | 192 | Protein_184 | ATP-binding protein | - |
Associated MGEs
| MGE detail |
Similar MGEs |
Relative position |
MGE Type | Cargo ARG | Virulence gene | Coordinates | Length (bp) |
|---|---|---|---|---|---|---|---|
| - | inside | Non-Mobilizable plasmid | - | icsB / ipgA / ipgB1 / ipgC / ipaB / ipaC / ipaD / ipaA / ipaJ / ospC3 / ipaH2.5 / ospC2 / ipaH7.8 / ipaH4.5 / ospD3/senA / ospC1 / ospE2 / ipgB2 / ospD1 / ospF / ospD2 / ospC2 / ospC4 / ospB / icsP/sopA / nleE / ospE1 / ipaH1.4 / ospG / ipaH9.8 / ospI / papC / icsA/virG / virA / spa40 / spa29 / spa9 / spa24 / spa33 / spa32 / spa13 / spa47 / spa15 / mxiA / mxiC / mxiD / mxiE / mxiM / mxiL / mxiN / mxiK / mxiJ / mxiI / mxiH / mxiG / ipgF / ipgE / ipgD | 1..220759 | 220759 | |
| - | inside | IScluster/Tn | - | ospG / ipaH9.8 / ospI | 144026..182193 | 38167 |
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
>T95779 WP_001159860.1 NZ_CP026771:c150901-150596 [Shigella flexneri Y]
MQFKVYAYKRESRYRLFVDVQSDIIDTPGRRMVIPLASARLLSDKVSRELYPVVHVGDESWRMMTTDMASVPIFVIGEEV
ADLSHRENDIKNAINLMFWGI
MQFKVYAYKRESRYRLFVDVQSDIIDTPGRRMVIPLASARLLSDKVSRELYPVVHVGDESWRMMTTDMASVPIFVIGEEV
ADLSHRENDIKNAINLMFWGI
Download Length: 306 bp
>T95779 NZ_CP026771:c150901-150596 [Shigella flexneri Y]
ATGCAGTTTAAGGTTTACGCCTATAAAAGAGAGAGTCGTTATCGTCTGTTTGTGGATGTACAGAGTGACATTATTGACAC
GCCCGGACGACGGATGGTGATCCCCCTGGCCAGTGCCCGCCTGCTGTCAGATAAAGTCTCCCGTGAGCTTTACCCGGTGG
TGCATGTCGGGGATGAAAGCTGGCGCATGATGACCACTGATATGGCCAGTGTGCCGATCTTCGTTATCGGGGAAGAAGTG
GCTGATCTCAGCCACCGCGAAAATGACATCAAAAACGCCATTAACCTGATGTTCTGGGGAATATAA
ATGCAGTTTAAGGTTTACGCCTATAAAAGAGAGAGTCGTTATCGTCTGTTTGTGGATGTACAGAGTGACATTATTGACAC
GCCCGGACGACGGATGGTGATCCCCCTGGCCAGTGCCCGCCTGCTGTCAGATAAAGTCTCCCGTGAGCTTTACCCGGTGG
TGCATGTCGGGGATGAAAGCTGGCGCATGATGACCACTGATATGGCCAGTGTGCCGATCTTCGTTATCGGGGAAGAAGTG
GCTGATCTCAGCCACCGCGAAAATGACATCAAAAACGCCATTAACCTGATGTTCTGGGGAATATAA
Antitoxin
Download Length: 73 a.a. Molecular weight: 8333.36 Da Isoelectric Point: 6.2838
>AT95779 WP_000813626.1 NZ_CP026771:c151121-150903 [Shigella flexneri Y]
MKQRITVTIDSDSYQLLKSANVNISGLVNTAMQKEARRLRAERWQAENQQGMAEIARFIEMNGSFADENRDW
MKQRITVTIDSDSYQLLKSANVNISGLVNTAMQKEARRLRAERWQAENQQGMAEIARFIEMNGSFADENRDW
Download Length: 219 bp
>AT95779 NZ_CP026771:c151121-150903 [Shigella flexneri Y]
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 |