Detailed information of TA system
Overview
TA module
| Type | II | Classification (family/domain) | ccdAB/CcdA(antitoxin) |
| Location | 179856..180381 | Replicon | plasmid pINV-Y394 |
| Accession | NZ_CP030773 | ||
| Organism | Shigella flexneri 1c strain Y394 | ||
Toxin (Protein)
| Gene name | ccdB | Uniprot ID | Q326Z8 |
| Locus tag | B7485_RS24590 | Protein ID | WP_001159860.1 |
| Coordinates | 180076..180381 (+) | Length | 102 a.a. |
Antitoxin (Protein)
| Gene name | ccdA | Uniprot ID | Q7BEK0 |
| Locus tag | B7485_RS24585 | Protein ID | WP_000813626.1 |
| Coordinates | 179856..180074 (+) | Length | 73 a.a. |
Genomic Context
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| B7485_RS24540 (B7485_26575) | 175583..175768 | + | 186 | Protein_209 | ATP-binding protein | - |
| B7485_RS25890 (B7485_26580) | 175868..176073 | - | 206 | Protein_210 | peptidoglycan-binding protein | - |
| B7485_RS24550 (B7485_26585) | 176126..176377 | - | 252 | WP_001381727.1 | transporter | - |
| B7485_RS24560 (B7485_26595) | 176829..177113 | + | 285 | WP_024260696.1 | ribbon-helix-helix domain-containing protein | - |
| B7485_RS24565 (B7485_26600) | 177113..177388 | + | 276 | WP_000421262.1 | type II toxin-antitoxin system RelE/ParE family toxin | - |
| B7485_RS24580 (B7485_26615) | 178367..179320 | + | 954 | Protein_215 | IS66 family transposase | - |
| B7485_RS24585 (B7485_26620) | 179856..180074 | + | 219 | WP_000813626.1 | type II toxin-antitoxin system antitoxin CcdA | Antitoxin |
| B7485_RS24590 (B7485_26625) | 180076..180381 | + | 306 | WP_001159860.1 | type II toxin-antitoxin system toxin CcdB | Toxin |
| B7485_RS24595 (B7485_26630) | 180405..180512 | + | 108 | WP_023592908.1 | transposase domain-containing protein | - |
| B7485_RS24600 (B7485_26635) | 180774..182411 | + | 1638 | WP_000936806.1 | T3SS effector E3 ubiquitin-protein ligase IpaH9.8 | - |
| B7485_RS24605 (B7485_26640) | 182619..182888 | + | 270 | Protein_220 | type II toxin-antitoxin system antitoxin YacA | - |
| B7485_RS25895 | 182888..183057 | + | 170 | Protein_221 | type II toxin-antitoxin system toxin YacB | - |
| B7485_RS24615 (B7485_26650) | 183140..183730 | + | 591 | WP_000705601.1 | type III secretion system effector protein kinase OspG | - |
| B7485_RS25340 (B7485_26655) | 184087..184353 | + | 267 | Protein_223 | 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 | - | icsP/sopA / ospB / ospC4 / ospC4 / ospC2 / ospD2 / ospF / ospD1 / ipgB2 / ospE2 / ospC1 / ospD3/senA / ipaH4.5 / ipaH7.8 / ospC2 / ipaH2.5 / 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 / papC / ospI / ipaH9.8 / ospG / ipaH1.4 / ospE1 / nleE | 1..221293 | 221293 | |
| - | inside | IScluster/Tn | - | ospI / ipaH9.8 / ospG | 165231..187205 | 21974 |
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
>T107933 WP_001159860.1 NZ_CP030773:180076-180381 [Shigella flexneri 1c]
MQFKVYAYKRESRYRLFVDVQSDIIDTPGRRMVIPLASARLLSDKVSRELYPVVHVGDESWRMMTTDMASVPIFVIGEEV
ADLSHRENDIKNAINLMFWGI
MQFKVYAYKRESRYRLFVDVQSDIIDTPGRRMVIPLASARLLSDKVSRELYPVVHVGDESWRMMTTDMASVPIFVIGEEV
ADLSHRENDIKNAINLMFWGI
Download Length: 306 bp
>T107933 NZ_CP030773:180076-180381 [Shigella flexneri 1c]
ATGCAGTTTAAGGTTTACGCCTATAAAAGAGAGAGTCGTTATCGTCTGTTTGTGGATGTACAGAGTGACATTATTGACAC
GCCCGGACGACGGATGGTGATCCCCCTGGCCAGTGCCCGCCTGCTGTCAGATAAAGTCTCCCGTGAGCTTTACCCGGTGG
TGCATGTCGGGGATGAAAGCTGGCGCATGATGACCACTGATATGGCCAGTGTGCCGATCTTCGTTATCGGGGAAGAAGTG
GCTGATCTCAGCCACCGCGAAAATGACATCAAAAACGCCATTAACCTGATGTTCTGGGGAATATAA
ATGCAGTTTAAGGTTTACGCCTATAAAAGAGAGAGTCGTTATCGTCTGTTTGTGGATGTACAGAGTGACATTATTGACAC
GCCCGGACGACGGATGGTGATCCCCCTGGCCAGTGCCCGCCTGCTGTCAGATAAAGTCTCCCGTGAGCTTTACCCGGTGG
TGCATGTCGGGGATGAAAGCTGGCGCATGATGACCACTGATATGGCCAGTGTGCCGATCTTCGTTATCGGGGAAGAAGTG
GCTGATCTCAGCCACCGCGAAAATGACATCAAAAACGCCATTAACCTGATGTTCTGGGGAATATAA
Antitoxin
Download Length: 73 a.a. Molecular weight: 8333.36 Da Isoelectric Point: 6.2838
>AT107933 WP_000813626.1 NZ_CP030773:179856-180074 [Shigella flexneri 1c]
MKQRITVTIDSDSYQLLKSANVNISGLVNTAMQKEARRLRAERWQAENQQGMAEIARFIEMNGSFADENRDW
MKQRITVTIDSDSYQLLKSANVNISGLVNTAMQKEARRLRAERWQAENQQGMAEIARFIEMNGSFADENRDW
Download Length: 219 bp
>AT107933 NZ_CP030773:179856-180074 [Shigella flexneri 1c]
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 |