Detailed information of TA system
Overview
TA module
| Type | II | Classification (family/domain) | ccdAB/CcdA(antitoxin) |
| Location | 193144..193669 | Replicon | plasmid pS3160_1 |
| Accession | NZ_CP094988 | ||
| Organism | Shigella flexneri strain 3160_NCHU22 | ||
Toxin (Protein)
| Gene name | ccdB | Uniprot ID | Q326Z8 |
| Locus tag | MT485_RS24455 | Protein ID | WP_001159860.1 |
| Coordinates | 193364..193669 (+) | Length | 102 a.a. |
Antitoxin (Protein)
| Gene name | ccdA | Uniprot ID | Q7BEK0 |
| Locus tag | MT485_RS24450 | Protein ID | WP_000813626.1 |
| Coordinates | 193144..193362 (+) | Length | 73 a.a. |
Genomic Context
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| MT485_RS24415 (MT485_24415) | 188870..189055 | + | 186 | Protein_225 | ATP-binding protein | - |
| MT485_RS24420 (MT485_24420) | 189155..189364 | - | 210 | Protein_226 | peptidoglycan-binding protein | - |
| MT485_RS24425 (MT485_24425) | 189414..189665 | - | 252 | WP_001381727.1 | transporter | - |
| MT485_RS24430 (MT485_24430) | 190117..190401 | + | 285 | WP_011114774.1 | ribbon-helix-helix domain-containing protein | - |
| MT485_RS24435 (MT485_24435) | 190401..190676 | + | 276 | WP_000421262.1 | type II toxin-antitoxin system RelE/ParE family toxin | - |
| MT485_RS24445 (MT485_24445) | 191655..192608 | + | 954 | Protein_231 | IS66 family transposase | - |
| MT485_RS24450 (MT485_24450) | 193144..193362 | + | 219 | WP_000813626.1 | type II toxin-antitoxin system antitoxin CcdA | Antitoxin |
| MT485_RS24455 (MT485_24455) | 193364..193669 | + | 306 | WP_001159860.1 | type II toxin-antitoxin system toxin CcdB | Toxin |
| MT485_RS24460 (MT485_24460) | 194062..195699 | + | 1638 | WP_000936806.1 | T3SS effector E3 ubiquitin-protein ligase IpaH9.8 | - |
| MT485_RS24465 (MT485_24465) | 195907..196176 | + | 270 | Protein_235 | type II toxin-antitoxin system antitoxin YacA | - |
| MT485_RS24470 (MT485_24470) | 196176..196345 | + | 170 | Protein_236 | type II toxin-antitoxin system toxin YacB | - |
| MT485_RS24475 (MT485_24475) | 196428..197018 | + | 591 | WP_000705601.1 | type III secretion system effector protein kinase OspG | - |
| MT485_RS24480 (MT485_24480) | 197375..197641 | + | 267 | Protein_238 | 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 | - | ipaH1.4 / ospE1 / nleE / icsP/sopA / ospB / ospC4 / ospC2 / ospD2 / ospF / ospD1 / ipgB2 / ospE1 / ipaH2.5 / ospC2 / ipaH7.8 / ipaH4.5 / ospD3/senA / ospC1 / 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 | 1..222049 | 222049 | |
| - | inside | IScluster/Tn | - | ospI / ipaH9.8 / ospG | 178388..200492 | 22104 |
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
>T240881 WP_001159860.1 NZ_CP094988:193364-193669 [Shigella flexneri]
MQFKVYAYKRESRYRLFVDVQSDIIDTPGRRMVIPLASARLLSDKVSRELYPVVHVGDESWRMMTTDMASVPIFVIGEEV
ADLSHRENDIKNAINLMFWGI
MQFKVYAYKRESRYRLFVDVQSDIIDTPGRRMVIPLASARLLSDKVSRELYPVVHVGDESWRMMTTDMASVPIFVIGEEV
ADLSHRENDIKNAINLMFWGI
Download Length: 306 bp
>T240881 NZ_LT838200:3542795-3543013 [Escherichia coli]
ATGTCCGAAAAACCTTTAACGAAAACCGATTATTTAATGCGTTTACGTCGTTGCCAGACAATTGACACGCTGGAGCGTGT
TATCGAGAAAAATAAATACGAATTATCAGATAATGAACTGGCGGTATTTTACTCAGCCGCAGATCACCGCCTCGCCGAAT
TGACCATGAATAAACTGTACGACAAGATCCCTTCCTCAGTATGGAAATTTATTCGCTAA
ATGTCCGAAAAACCTTTAACGAAAACCGATTATTTAATGCGTTTACGTCGTTGCCAGACAATTGACACGCTGGAGCGTGT
TATCGAGAAAAATAAATACGAATTATCAGATAATGAACTGGCGGTATTTTACTCAGCCGCAGATCACCGCCTCGCCGAAT
TGACCATGAATAAACTGTACGACAAGATCCCTTCCTCAGTATGGAAATTTATTCGCTAA
Antitoxin
Download Length: 73 a.a. Molecular weight: 8333.36 Da Isoelectric Point: 6.2838
>AT240881 WP_000813626.1 NZ_CP094988:193144-193362 [Shigella flexneri]
MKQRITVTIDSDSYQLLKSANVNISGLVNTAMQKEARRLRAERWQAENQQGMAEIARFIEMNGSFADENRDW
MKQRITVTIDSDSYQLLKSANVNISGLVNTAMQKEARRLRAERWQAENQQGMAEIARFIEMNGSFADENRDW
Download Length: 219 bp
>AT240881 NZ_LT838200:3542395-3542769 [Escherichia coli]
ATGGATGAATACTCACCCAAAAGACATGATATCGCACAGCTTAAGTTTCTCTGTGAAACCCTGTATCATGACTGCCTTGC
AAACCTTGAAGAAAGCAATCATGGCTGGGTAAACGACCCAACCTCGGCGATCAACCTCCAGTTGAATGAACTGATTGAGC
ATATTGCGACCTTCGCACTTAATTACAAAATTAAGTATAATGAAGACAATAAGCTCATTGAGCAGATCGACGAATATCTG
GATGACACCTTTATGTTGTTCAGTAGTTATGGTATTAATATGCAGGATCTTCAGAAATGGCGGAAGTCAGGTAATCGACT
ATTCCGTTGTTTTGTCAATGCGACGAAAGAGAATCCTGCGAGTTTATCTTGTTAG
ATGGATGAATACTCACCCAAAAGACATGATATCGCACAGCTTAAGTTTCTCTGTGAAACCCTGTATCATGACTGCCTTGC
AAACCTTGAAGAAAGCAATCATGGCTGGGTAAACGACCCAACCTCGGCGATCAACCTCCAGTTGAATGAACTGATTGAGC
ATATTGCGACCTTCGCACTTAATTACAAAATTAAGTATAATGAAGACAATAAGCTCATTGAGCAGATCGACGAATATCTG
GATGACACCTTTATGTTGTTCAGTAGTTATGGTATTAATATGCAGGATCTTCAGAAATGGCGGAAGTCAGGTAATCGACT
ATTCCGTTGTTTTGTCAATGCGACGAAAGAGAATCCTGCGAGTTTATCTTGTTAG
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 |