Detailed information of TA system
Overview
TA module
| Type | II | Classification (family/domain) | rnlAB/- |
| Location | 2765918..2767355 | Replicon | chromosome |
| Accession | NC_000913 | ||
| Organism | Escherichia coli str. K-12 substr. MG1655 | ||
Toxin (Protein)
| Gene name | rnlA | Uniprot ID | P52129 |
| Locus tag | b2630 | Protein ID | NP_417119.1 |
| Coordinates | 2765918..2766991 (+) | Length | 358 a.a. |
Antitoxin (Protein)
| Gene name | rnlB | Uniprot ID | P52130 |
| Locus tag | b2631 | Protein ID | NP_417120.2 |
| Coordinates | 2766984..2767355 (+) | Length | 124 a.a. |
Genomic Context
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| b2627 | 2761351..2763540 | - | 2190 | NP_417116.1 | putative helicase YfjK | - |
| b2628 | 2763537..2765153 | - | 1617 | NP_417117.1 | anti-bacteriophage protein | - |
| b2629 | 2765513..2765776 | - | 264 | NP_417118.1 | protein YfjM | - |
| b2630 | 2765918..2766991 | + | 1074 | NP_417119.1 | RNase LS, toxin of the RnlAB toxin-antitoxin system | Toxin |
| b2631 | 2766984..2767355 | + | 372 | NP_417120.2 | antitoxin RnlB | Antitoxin |
| b2632 | 2767710..2768573 | + | 864 | YP_026173.1 | putative GTP-binding protein YfjP | - |
| b2633 | 2768665..2769486 | + | 822 | NP_417122.1 | DUF932 domain-containing protein YfjQ | - |
| b2634 | 2769703..2770404 | + | 702 | NP_417123.1 | putative DNA-binding transcriptional regulator YfjR | - |
| b2635 | 2770445..2770681 | + | 237 | YP_026174.2 | uncharacterized protein YpjK | - |
| b2636 | 2770681..2771124 | + | 444 | NP_417124.4 | inner membrane lipoprotein YfjS | - |
| b2637 | 2771148..2771615 | + | 468 | NP_417125.1 | uncharacterized protein YfjT | - |
| b2638 | 2771840..2772154 | - | 315 | YP_009518807.1 | putative arsenate reductase-like protein YfjU | - |
Associated MGEs
| MGE detail |
Similar MGEs |
Relative position |
MGE Type | Cargo ARG | Virulence gene | Coordinates | Length (bp) |
|---|
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: 358 a.a. Molecular weight: 40061.13 Da Isoelectric Point: 6.8293
>T6077 NP_417119.1 NC_000913:2765918-2766991 [Escherichia coli str. K-12 substr. MG1655]
MTIRSYKNLNLVRANIETESRQFIENKNYSIQSIGPMPGSRAGLRVVFTRPGVNLATVDIFYNGDGSTTIQYLTGANRSL
GQELADHLFETINPAEFEQVNMVLQGFVETSVLPVLELSADESHIEFREHSRNAHTVVWKIISTSYQDELTVSLHITTGK
LQIQGRPLSCYRVFTFNLAALLDLQGLEKVLIRQEDGKANIVQQEVARTYLQTVMADAYPHLHVTAEKLLVSGLCVKLAA
PDLPDYCMLLYPELRTIEGVLKSKMSGLGMPVQQPAGFGTYFDKPAAHYILKPQFAATLRPEQINIISTAYTFFNVERHS
LFHMETVVDASRMISDMARLMGKATRAWGIIKDLYIV
MTIRSYKNLNLVRANIETESRQFIENKNYSIQSIGPMPGSRAGLRVVFTRPGVNLATVDIFYNGDGSTTIQYLTGANRSL
GQELADHLFETINPAEFEQVNMVLQGFVETSVLPVLELSADESHIEFREHSRNAHTVVWKIISTSYQDELTVSLHITTGK
LQIQGRPLSCYRVFTFNLAALLDLQGLEKVLIRQEDGKANIVQQEVARTYLQTVMADAYPHLHVTAEKLLVSGLCVKLAA
PDLPDYCMLLYPELRTIEGVLKSKMSGLGMPVQQPAGFGTYFDKPAAHYILKPQFAATLRPEQINIISTAYTFFNVERHS
LFHMETVVDASRMISDMARLMGKATRAWGIIKDLYIV
Download Length: 1074 bp
>T6077 NC_000913:2765918-2766991 [Escherichia coli str. K-12 substr. MG1655]
ATGACAATCAGGAGTTACAAAAACTTAAATCTGGTCAGGGCAAATATCGAGACTGAATCCAGACAATTCATTGAAAATAA
AAACTATTCAATCCAATCAATTGGTCCTATGCCAGGGTCAAGGGCTGGGCTTCGGGTCGTATTTACCAGACCAGGGGTTA
ACTTGGCAACTGTGGACATTTTTTATAACGGGGACGGTTCGACTACAATTCAATATCTCACTGGAGCCAATCGTTCTCTG
GGCCAAGAGTTAGCGGATCATCTTTTTGAAACCATCAATCCTGCTGAATTTGAGCAGGTAAATATGGTACTGCAAGGATT
TGTAGAGACAAGCGTTCTACCTGTACTTGAGCTATCAGCAGATGAATCGCATATAGAGTTCAGAGAACACTCTCGTAACG
CTCATACCGTAGTGTGGAAAATTATTTCCACCAGCTATCAGGACGAATTGACTGTGAGCCTGCATATCACAACAGGTAAG
CTCCAGATTCAGGGCCGACCGCTGTCATGTTACAGAGTTTTCACGTTTAACTTGGCAGCCCTGCTTGATTTACAGGGTTT
GGAGAAAGTGCTAATCCGCCAGGAGGATGGTAAAGCTAATATTGTTCAACAGGAGGTTGCCCGCACTTACTTGCAGACTG
TAATGGCCGATGCTTACCCGCATCTCCACGTGACTGCCGAAAAATTGCTCGTTTCAGGGCTATGTGTTAAACTCGCCGCC
CCTGATTTGCCTGACTACTGTATGTTACTTTATCCTGAACTACGCACCATTGAAGGTGTCTTAAAAAGTAAGATGAGTGG
GTTAGGCATGCCAGTACAGCAGCCGGCAGGTTTTGGAACTTACTTTGATAAACCTGCTGCTCATTACATTCTGAAACCGC
AATTTGCAGCTACTCTTAGACCGGAACAGATTAACATCATCAGCACAGCCTATACTTTTTTTAATGTGGAACGTCATTCT
CTGTTCCACATGGAAACTGTGGTCGATGCCAGCCGTATGATTTCTGATATGGCCCGGTTGATGGGTAAAGCCACTAGAGC
GTGGGGAATAATCAAGGACTTATATATTGTTTGA
ATGACAATCAGGAGTTACAAAAACTTAAATCTGGTCAGGGCAAATATCGAGACTGAATCCAGACAATTCATTGAAAATAA
AAACTATTCAATCCAATCAATTGGTCCTATGCCAGGGTCAAGGGCTGGGCTTCGGGTCGTATTTACCAGACCAGGGGTTA
ACTTGGCAACTGTGGACATTTTTTATAACGGGGACGGTTCGACTACAATTCAATATCTCACTGGAGCCAATCGTTCTCTG
GGCCAAGAGTTAGCGGATCATCTTTTTGAAACCATCAATCCTGCTGAATTTGAGCAGGTAAATATGGTACTGCAAGGATT
TGTAGAGACAAGCGTTCTACCTGTACTTGAGCTATCAGCAGATGAATCGCATATAGAGTTCAGAGAACACTCTCGTAACG
CTCATACCGTAGTGTGGAAAATTATTTCCACCAGCTATCAGGACGAATTGACTGTGAGCCTGCATATCACAACAGGTAAG
CTCCAGATTCAGGGCCGACCGCTGTCATGTTACAGAGTTTTCACGTTTAACTTGGCAGCCCTGCTTGATTTACAGGGTTT
GGAGAAAGTGCTAATCCGCCAGGAGGATGGTAAAGCTAATATTGTTCAACAGGAGGTTGCCCGCACTTACTTGCAGACTG
TAATGGCCGATGCTTACCCGCATCTCCACGTGACTGCCGAAAAATTGCTCGTTTCAGGGCTATGTGTTAAACTCGCCGCC
CCTGATTTGCCTGACTACTGTATGTTACTTTATCCTGAACTACGCACCATTGAAGGTGTCTTAAAAAGTAAGATGAGTGG
GTTAGGCATGCCAGTACAGCAGCCGGCAGGTTTTGGAACTTACTTTGATAAACCTGCTGCTCATTACATTCTGAAACCGC
AATTTGCAGCTACTCTTAGACCGGAACAGATTAACATCATCAGCACAGCCTATACTTTTTTTAATGTGGAACGTCATTCT
CTGTTCCACATGGAAACTGTGGTCGATGCCAGCCGTATGATTTCTGATATGGCCCGGTTGATGGGTAAAGCCACTAGAGC
GTGGGGAATAATCAAGGACTTATATATTGTTTGA
Antitoxin
Download Length: 124 a.a. Molecular weight: 13664.69 Da Isoelectric Point: 4.2391
>AT6077 NP_417120.2 NC_000913:2766984-2767355 [Escherichia coli str. K-12 substr. MG1655]
MFEITGINVSGALKAVVMATGFENPLSSVNEIETKLSALLGSETTGEILFDLLCANGPEWNRFVTLEMKYGRIMLDTAKI
IDEQDVPTHILSKLTFTLRNHPEYLEASVLSPDDVRQVLSMDF
MFEITGINVSGALKAVVMATGFENPLSSVNEIETKLSALLGSETTGEILFDLLCANGPEWNRFVTLEMKYGRIMLDTAKI
IDEQDVPTHILSKLTFTLRNHPEYLEASVLSPDDVRQVLSMDF
Download Length: 372 bp
>AT6077 NC_000913:2766984-2767355 [Escherichia coli str. K-12 substr. MG1655]
TTGTTTGAAATCACCGGAATTAACGTCTCAGGGGCTCTAAAAGCTGTCGTTATGGCGACCGGCTTCGAGAACCCTTTGTC
CTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCTTGT
GCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGCTGGATACGGCCAAAATT
ATTGATGAGCAGGACGTTCCGACACATATCCTGAGCAAACTGACTTTTACTTTACGTAATCATCCTGAGTACCTAGAAGC
CTCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGA
TTGTTTGAAATCACCGGAATTAACGTCTCAGGGGCTCTAAAAGCTGTCGTTATGGCGACCGGCTTCGAGAACCCTTTGTC
CTCAGTTAATGAAATTGAGACGAAACTTTCTGCCCTACTGGGTAGTGAGACCACTGGTGAAATCCTTTTTGACCTCTTGT
GCGCTAACGGTCCAGAGTGGAACCGCTTCGTTACGCTGGAAATGAAATATGGCCGGATCATGCTGGATACGGCCAAAATT
ATTGATGAGCAGGACGTTCCGACACATATCCTGAGCAAACTGACTTTTACTTTACGTAATCATCCTGAGTACCTAGAAGC
CTCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGA
Similar Proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| T6075 | Escherichia coli DH1 |
100 |
100 |
1 |
| T6076 | Escherichia coli BW2952 |
100 |
100 |
1 |
| T10023 | Escherichia coli BW25113 |
100 |
100 |
1 |
| T10022 | Escherichia coli str. K-12 substr. W3110 strain K-12 substr. ZK126 |
100 |
100 |
1 |
Multiple sequence alignment
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| AT6075 | Escherichia coli DH1 |
100 |
100 |
1 |
| AT6076 | Escherichia coli BW2952 |
100 |
100 |
1 |
| AT10023 | Escherichia coli BW25113 |
100 |
100 |
1 |
| AT10022 | Escherichia coli str. K-12 substr. W3110 strain K-12 substr. ZK126 |
100 |
100 |
1 |
Multiple sequence alignment
References
(1) Gabriela Garcia-Rodriguez et al. (2021) Alternative dimerization is required for activity and inhibition of the HEPN ribonuclease RnlA. Nucleic Acids Research 49(12):7164-7178. [PubMed:34139012]
(2) Mitsunori Koga et al. (2011) Escherichia coli rnlA and rnlB compose a novel toxin-antitoxin system. Genetics 187(1):123-30. [PubMed:20980243]
(3) Francesca L Short et al. (2012) A promiscuous antitoxin of bacteriophage T4 ensures successful viral replication. Molecular Microbiology 83(4):665-8. [PubMed:22283468]
(4) Yuichi Otsuka et al. (2012) Dmd of bacteriophage T4 functions as an antitoxin against Escherichia coli LsoA and RnlA toxins. Molecular Microbiology 83(4):669-81. [PubMed:22403819]
(5) Nava Hosseini et al. (2019) Modulation of Toxin-Antitoxin System Rnl AB Type II in Phage-Resistant Gammaproteobacteria Surviving Photodynamic Treatment. Journal of Lasers in Medical Sciences 10(1):21-28. [PubMed:31360364]
(6) Yong Wei et al. (2016) Structural characterizations of phage antitoxin Dmd and its interactions with bacterial toxin RnlA. Biochemical And Biophysical Research Communications 472(4):592-7. [PubMed:26972252]
(7) Gabriela Garcia-Rodriguez et al. (2020) The Escherichia coli RnlA-RnlB toxin-antitoxin complex: production, characterization and crystallization. Acta Crystallographica. Section F, Structural Biology Communications 76(Pt 1):31-39. [PubMed:31929184]
(8) Miyuki Tsukuda et al. (2015) Counterselection method based on conditional silencing of antitoxin genes in Escherichia coli. Journal of Bioscience And Bioengineering 120(5):591-5. [PubMed:25912447]
(9) Yong Wei et al. (2013) Structure-function studies of Escherichia coli RnlA reveal a novel toxin structure involved in bacteriophage resistance. Molecular Microbiology 90(5):956-65. [PubMed:24112600]
(10) Kenta Naka et al. (2017) RnlB Antitoxin of the Escherichia coli RnlA-RnlB Toxin-Antitoxin Module Requires RNase HI for Inhibition of RnlA Toxin Activity. Toxins 9(1):29. [PubMed:28085056]
(11) Kenta Naka et al. (2014) RNase HI stimulates the activity of RnlA toxin in Escherichia coli. Molecular Microbiology 91(3):596-605. [PubMed:24308852]