Detailed information of TA system
Overview
TA module
| Type | II | Classification (family/domain) | ccdAB/CcdA(antitoxin) |
| Location | 166872..167397 | Replicon | plasmid p2013C-3749-2 |
| Accession | NZ_CP034933 | ||
| Organism | Shigella flexneri strain 2013C-3749 | ||
Toxin (Protein)
| Gene name | ccdB | Uniprot ID | Q326Z8 |
| Locus tag | EPD86_RS24940 | Protein ID | WP_001159860.1 |
| Coordinates | 166872..167177 (-) | Length | 102 a.a. |
Antitoxin (Protein)
| Gene name | ccdA | Uniprot ID | Q7BEK0 |
| Locus tag | EPD86_RS24945 | Protein ID | WP_000813626.1 |
| Coordinates | 167179..167397 (-) | Length | 73 a.a. |
Genomic Context
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| EPD86_RS25515 | 162900..163166 | - | 267 | Protein_189 | IS66 family insertion sequence element accessory protein TnpB | - |
| EPD86_RS24920 | 163523..164113 | - | 591 | WP_000705601.1 | type III secretion system effector protein kinase OspG | - |
| EPD86_RS26080 | 164196..164365 | - | 170 | Protein_191 | type II toxin-antitoxin system toxin YacB | - |
| EPD86_RS24925 | 164365..164634 | - | 270 | Protein_192 | type II toxin-antitoxin system antitoxin YacA | - |
| EPD86_RS24930 | 164842..166479 | - | 1638 | WP_000936806.1 | T3SS effector E3 ubiquitin-protein ligase IpaH9.8 | - |
| EPD86_RS24940 | 166872..167177 | - | 306 | WP_001159860.1 | type II toxin-antitoxin system toxin CcdB | Toxin |
| EPD86_RS24945 | 167179..167397 | - | 219 | WP_000813626.1 | type II toxin-antitoxin system antitoxin CcdA | Antitoxin |
| EPD86_RS24950 | 167933..168886 | - | 954 | Protein_196 | IS66 family transposase | - |
| EPD86_RS24955 | 168942..169639 | + | 698 | WP_227804301.1 | IS1 family transposase | - |
| EPD86_RS24965 | 169865..170140 | - | 276 | WP_000421262.1 | type II toxin-antitoxin system RelE/ParE family toxin | - |
| EPD86_RS24970 | 170140..170424 | - | 285 | WP_011114774.1 | ribbon-helix-helix domain-containing protein | - |
| EPD86_RS24975 | 170876..171127 | + | 252 | WP_015683204.1 | transporter | - |
| EPD86_RS24980 | 171177..171386 | + | 210 | Protein_201 | peptidoglycan-binding protein | - |
| EPD86_RS24985 | 171486..171671 | - | 186 | Protein_202 | ATP-binding protein | - |
Associated MGEs
| MGE detail |
Similar MGEs |
Relative position |
MGE Type | Cargo ARG | Virulence gene | Coordinates | Length (bp) |
|---|---|---|---|---|---|---|---|
| - | inside | Non-Mobilizable plasmid | - | 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 / ipaH7.8 / ospC2 / ipaH2.5 / 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 | 1..223405 | 223405 | |
| - | inside | IScluster/Tn | - | ospG / ipaH9.8 / ospI | 160049..182173 | 22124 |
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
>T116964 WP_001159860.1 NZ_CP034933:c167177-166872 [Shigella flexneri]
MQFKVYAYKRESRYRLFVDVQSDIIDTPGRRMVIPLASARLLSDKVSRELYPVVHVGDESWRMMTTDMASVPIFVIGEEV
ADLSHRENDIKNAINLMFWGI
MQFKVYAYKRESRYRLFVDVQSDIIDTPGRRMVIPLASARLLSDKVSRELYPVVHVGDESWRMMTTDMASVPIFVIGEEV
ADLSHRENDIKNAINLMFWGI
Download Length: 306 bp
>T116964 NZ_CP034933:c167177-166872 [Shigella flexneri]
ATGCAGTTTAAGGTTTACGCCTATAAAAGAGAGAGTCGTTATCGTCTGTTTGTGGATGTACAGAGTGACATTATTGACAC
GCCCGGACGACGGATGGTGATCCCCCTGGCCAGTGCCCGCCTGCTGTCAGATAAAGTCTCCCGTGAGCTTTACCCGGTGG
TGCATGTCGGGGATGAAAGCTGGCGCATGATGACCACTGATATGGCCAGTGTGCCGATCTTCGTTATCGGGGAAGAAGTG
GCTGATCTCAGCCACCGCGAAAATGACATCAAAAACGCCATTAACCTGATGTTCTGGGGAATATAA
ATGCAGTTTAAGGTTTACGCCTATAAAAGAGAGAGTCGTTATCGTCTGTTTGTGGATGTACAGAGTGACATTATTGACAC
GCCCGGACGACGGATGGTGATCCCCCTGGCCAGTGCCCGCCTGCTGTCAGATAAAGTCTCCCGTGAGCTTTACCCGGTGG
TGCATGTCGGGGATGAAAGCTGGCGCATGATGACCACTGATATGGCCAGTGTGCCGATCTTCGTTATCGGGGAAGAAGTG
GCTGATCTCAGCCACCGCGAAAATGACATCAAAAACGCCATTAACCTGATGTTCTGGGGAATATAA
Antitoxin
Download Length: 73 a.a. Molecular weight: 8333.36 Da Isoelectric Point: 6.2838
>AT116964 WP_000813626.1 NZ_CP034933:c167397-167179 [Shigella flexneri]
MKQRITVTIDSDSYQLLKSANVNISGLVNTAMQKEARRLRAERWQAENQQGMAEIARFIEMNGSFADENRDW
MKQRITVTIDSDSYQLLKSANVNISGLVNTAMQKEARRLRAERWQAENQQGMAEIARFIEMNGSFADENRDW
Download Length: 219 bp
>AT116964 NZ_CP034933:c167397-167179 [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 |