Detailed information of TA system
Overview
TA module
| Type | II | Classification (family/domain) | ParE-CopA/- |
| Location | 1507546..1508110 | Replicon | chromosome |
| Accession | NC_004347 | ||
| Organism | Shewanella oneidensis MR-1 | ||
Toxin (Protein)
| Gene name | parE | Uniprot ID | Q8EGZ3 |
| Locus tag | SO_1444 | Protein ID | WP_011071641.1 |
| Coordinates | 1507549..1507842 (-) | Length | 98 a.a. |
Antitoxin (Protein)
| Gene name | copA | Uniprot ID | Q8EGZ2 |
| Locus tag | SO_1445 | Protein ID | WP_011071642.1 |
| Coordinates | 1507805..1508113 (-) | Length | 103 a.a. |
Genomic Context
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| SO_RS06690 (SO_1441) | 1503494..1504570 | + | 1077 | WP_011071637.1 | hypothetical protein | - |
| SO_RS06695 (SO_4821) | 1504689..1504901 | + | 213 | WP_011071638.1 | AlpA family phage regulatory protein | - |
| SO_RS06700 (SO_1442) | 1504940..1506409 | + | 1470 | WP_011071639.1 | DUF3987 domain-containing protein | - |
| SO_RS06705 (SO_1443) | 1506725..1507402 | + | 678 | WP_011071640.1 | inovirus Gp2 family protein | - |
| SO_RS06710 (SO_1444) | 1507549..1507842 | - | 294 | WP_011071641.1 | type II toxin-antitoxin system RelE/ParE family toxin | Toxin |
| - | 1507805..1508113 | - | 309 | - | - | Antitoxin |
| SO_RS06720 (SO_1447) | 1508400..1509122 | - | 723 | WP_011071643.1 | lecithin retinol acyltransferase family protein | - |
| SO_RS06725 (SO_1448) | 1509202..1509768 | - | 567 | WP_011071644.1 | site-specific integrase | - |
| SO_RS06730 (SO_1450) | 1509877..1510284 | - | 408 | WP_011071645.1 | DUF2787 domain-containing protein | - |
| SO_RS06735 (SO_1451) | 1510471..1510884 | - | 414 | WP_011071646.1 | DUF2787 domain-containing protein | - |
| SO_RS06740 | 1510883..1511080 | + | 198 | WP_164925654.1 | hypothetical protein | - |
| SO_RS06745 (SO_1453) | 1511070..1511444 | - | 375 | WP_011071647.1 | type IV toxin-antitoxin system YeeU family antitoxin | - |
| SO_RS06750 (SO_1454) | 1511587..1511949 | - | 363 | WP_011071648.1 | hypothetical protein | - |
| SO_RS06755 (SO_1455) | 1511990..1512463 | - | 474 | WP_011071649.1 | DNA repair protein RadC | - |
Associated MGEs
| MGE detail |
Similar MGEs |
Relative position |
MGE Type | Cargo ARG | Virulence gene | Coordinates | Length (bp) |
|---|---|---|---|---|---|---|---|
| - | flank | IS/Tn | - | - | 1512539..1513237 | 698 |
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: 98 a.a. Molecular weight: 11125.65 Da Isoelectric Point: 5.8404
>T659 WP_011071641.1 NC_004347:c1507842-1507549 [Shewanella oneidensis MR-1]
MPQIVFTATALRDLERLREFLRSKNPPAAQRAASAIINTIRKLESYPDIGRPIDDNDFSFRELLIDFGDTGYLAMYQYDG
GERLTVLCIRHQKEAGY
MPQIVFTATALRDLERLREFLRSKNPPAAQRAASAIINTIRKLESYPDIGRPIDDNDFSFRELLIDFGDTGYLAMYQYDG
GERLTVLCIRHQKEAGY
Download Length: 294 bp
>T659 NC_004347:c1507842-1507549 [Shewanella oneidensis MR-1]
ATGCCACAAATAGTCTTCACTGCCACTGCATTACGTGATTTAGAACGCTTACGTGAGTTTCTTCGCAGTAAAAATCCCCC
TGCCGCACAACGGGCTGCCAGCGCCATAATCAATACCATTAGAAAACTGGAAAGCTATCCAGACATTGGTCGGCCTATCG
ATGACAATGACTTTAGCTTTAGGGAACTGCTCATCGACTTTGGTGACACGGGCTATCTGGCAATGTACCAGTATGATGGC
GGCGAACGATTGACCGTGTTGTGTATCCGCCACCAAAAAGAAGCCGGATATTGA
ATGCCACAAATAGTCTTCACTGCCACTGCATTACGTGATTTAGAACGCTTACGTGAGTTTCTTCGCAGTAAAAATCCCCC
TGCCGCACAACGGGCTGCCAGCGCCATAATCAATACCATTAGAAAACTGGAAAGCTATCCAGACATTGGTCGGCCTATCG
ATGACAATGACTTTAGCTTTAGGGAACTGCTCATCGACTTTGGTGACACGGGCTATCTGGCAATGTACCAGTATGATGGC
GGCGAACGATTGACCGTGTTGTGTATCCGCCACCAAAAAGAAGCCGGATATTGA
Antitoxin
Download Length: 103 a.a. Molecular weight: 11820.22 Da Isoelectric Point: 6.1342
>AT659 WP_011071642.1 NC_004347:c1508113-1507805 [Shewanella oneidensis MR-1]
MSTIKPVSVKLDADIKARVEHLAETRKRSSHWMMREAIREYVEREEKREALQQEALRAWEEHQTSGLHVTGDEVVSWLES
WGSENEQAALHATNSLHCHCIT
MSTIKPVSVKLDADIKARVEHLAETRKRSSHWMMREAIREYVEREEKREALQQEALRAWEEHQTSGLHVTGDEVVSWLES
WGSENEQAALHATNSLHCHCIT
Download Length: 309 bp
>AT659 NC_004347:c1508113-1507805 [Shewanella oneidensis MR-1]
ATGAGCACAATCAAACCCGTGTCGGTTAAATTAGATGCCGATATTAAAGCCAGAGTCGAGCATTTAGCGGAAACCCGTAA
ACGTTCATCACACTGGATGATGCGTGAAGCGATCCGTGAATATGTTGAGAGAGAAGAGAAACGCGAAGCTTTGCAGCAAG
AAGCGTTACGCGCATGGGAAGAACACCAGACATCAGGCTTGCATGTCACCGGTGACGAAGTGGTGAGTTGGCTGGAGTCC
TGGGGAAGTGAAAATGAACAGGCAGCCCTACATGCCACAAATAGTCTTCACTGCCACTGCATTACGTGA
ATGAGCACAATCAAACCCGTGTCGGTTAAATTAGATGCCGATATTAAAGCCAGAGTCGAGCATTTAGCGGAAACCCGTAA
ACGTTCATCACACTGGATGATGCGTGAAGCGATCCGTGAATATGTTGAGAGAGAAGAGAAACGCGAAGCTTTGCAGCAAG
AAGCGTTACGCGCATGGGAAGAACACCAGACATCAGGCTTGCATGTCACCGGTGACGAAGTGGTGAGTTGGCTGGAGTCC
TGGGGAAGTGAAAATGAACAGGCAGCCCTACATGCCACAAATAGTCTTCACTGCCACTGCATTACGTGA
Similar Proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| T309 | Pseudomonas putida KT2440 |
46.939 |
100 |
0.474 |
| T10142 | Pseudomonas savastanoi |
45.918 |
100 |
0.464 |
| T6134 | Paracoccus aminophilus |
34.066 |
93.814 |
0.32 |
Multiple sequence alignment
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| AT309 | Pseudomonas putida KT2440 |
56.25 |
88.889 |
0.5 |
| AT10142 | Pseudomonas savastanoi |
53.659 |
91.111 |
0.489 |
Multiple sequence alignment
References
(1) Juan Zhou et al. (2021) Insights into the Neutralization and DNA Binding of Toxin-Antitoxin System ParESO-CopASO by Structure-Function Studies. Microorganisms 9(12):2506. [PubMed:34946107]
(2) Rongjuan Zhao et al. (2019) Structure and allosteric coupling of type Ⅱ antitoxin CopASO. Biochemical And Biophysical Research Communications 514(4):1122-1127. [PubMed:31101334]
(3) Jianyun Yao et al. (2018) Type II toxin/antitoxin system ParESO /CopASO stabilizes prophage CP4So in Shewanella oneidensis. Environmental Microbiology 20(3):1224-1239. [PubMed:29411516]