Detailed information of TA system
Overview
TA module
| Type | II | Classification (family/domain) | relB-parE/RHH(antitoxin) |
| Location | 2846687..2847240 | Replicon | chromosome |
| Accession | NC_002947 | ||
| Organism | Pseudomonas putida KT2440 | ||
Toxin (Protein)
| Gene name | parE | Uniprot ID | Q88JZ3 |
| Locus tag | PP_2500 | Protein ID | 26989223 |
| Coordinates | 2846950..2847243 (+) | Length | 98 a.a. |
Antitoxin (Protein)
| Gene name | relB | Uniprot ID | - |
| Locus tag | PP_2499 | Protein ID | 300722888 |
| Coordinates | 2846690..2846962 (+) | Length | 91 a.a. |
Genomic Context
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| PP_RS13020 (PP_2493) | 2842262..2842621 | - | 360 | Protein_2533 | DNA repair protein RadC | - |
| PP_RS13025 (PP_2494) | 2842593..2843543 | - | 951 | WP_031299400.1 | hypothetical protein | - |
| PP_RS13030 (PP_2495) | 2843636..2844640 | - | 1005 | WP_010953429.1 | YqaJ viral recombinase family protein | - |
| PP_RS13035 (PP_2496) | 2844720..2845688 | - | 969 | WP_031299399.1 | DUF932 domain-containing protein | - |
| PP_RS13040 (PP_2497) | 2845786..2846058 | - | 273 | WP_031299398.1 | hypothetical protein | - |
| PP_RS13045 (PP_2498) | 2846320..2846565 | + | 246 | WP_010953432.1 | type II toxin-antitoxin system Phd/YefM family antitoxin | - |
| PP_RS13050 (PP_2499) | 2846690..2846962 | + | 273 | WP_010953433.1 | CopG family ribbon-helix-helix protein | Antitoxin |
| PP_RS13055 (PP_2500) | 2846950..2847243 | + | 294 | WP_010953434.1 | type II toxin-antitoxin system RelE/ParE family toxin | Toxin |
| PP_RS13060 (PP_2501) | 2847237..2848646 | - | 1410 | WP_010953435.1 | site-specific integrase | - |
| PP_RS13065 (PP_2502) | 2849169..2850095 | - | 927 | WP_010953436.1 | LysR family transcriptional regulator | - |
| PP_RS13070 (PP_2503) | 2850209..2850940 | + | 732 | WP_010953437.1 | SDR family oxidoreductase | - |
| PP_RS13075 (PP_2504) | 2851010..2851219 | + | 210 | WP_010953438.1 | 4-oxalocrotonate tautomerase family protein | - |
| PP_RS28390 (PP_5530) | 2851216..2851428 | + | 213 | WP_061405625.1 | hypothetical protein | - |
| PP_RS13085 (PP_5531) | 2851571..2852089 | + | 519 | WP_049587643.1 | DUF1993 domain-containing protein | - |
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: 98 a.a. Molecular weight: 11155.61 Da Isoelectric Point: 5.9081
>T309 26989223 NC_002947:2846950-2847243 [Pseudomonas putida KT2440]
VPRLIVTEGAAKGLERCRRFLSDKDPQVARRAAQAIERQFARLEESPEVGRPFPDLPELRELIIEFGDSGYVALYRYERA
DDTAYVLAFRHQKEAGY
VPRLIVTEGAAKGLERCRRFLSDKDPQVARRAAQAIERQFARLEESPEVGRPFPDLPELRELIIEFGDSGYVALYRYERA
DDTAYVLAFRHQKEAGY
Download Length: 294 bp
>T309 NC_002947:2846950-2847243 [Pseudomonas putida KT2440]
GTGCCACGACTGATCGTCACTGAAGGCGCGGCGAAGGGCCTGGAGCGTTGCCGGCGATTTCTCTCCGATAAAGATCCGCA
GGTCGCACGCCGTGCTGCACAGGCAATCGAGCGCCAATTCGCTCGATTGGAGGAAAGTCCGGAAGTAGGGCGTCCTTTTC
CAGATCTGCCAGAGCTGCGTGAGCTCATCATCGAGTTTGGTGACTCAGGTTACGTCGCGCTGTACCGCTATGAGCGCGCA
GATGACACCGCCTATGTCTTGGCCTTTCGCCATCAAAAAGAAGCTGGCTACTGA
GTGCCACGACTGATCGTCACTGAAGGCGCGGCGAAGGGCCTGGAGCGTTGCCGGCGATTTCTCTCCGATAAAGATCCGCA
GGTCGCACGCCGTGCTGCACAGGCAATCGAGCGCCAATTCGCTCGATTGGAGGAAAGTCCGGAAGTAGGGCGTCCTTTTC
CAGATCTGCCAGAGCTGCGTGAGCTCATCATCGAGTTTGGTGACTCAGGTTACGTCGCGCTGTACCGCTATGAGCGCGCA
GATGACACCGCCTATGTCTTGGCCTTTCGCCATCAAAAAGAAGCTGGCTACTGA
Antitoxin
Download Length: 91 a.a. Molecular weight: 10373.53 Da Isoelectric Point: 5.5744
>AT309 300722888 NC_002947:2846690-2846962 [Pseudomonas putida KT2440]
MATSIKIDDDLKGRIQHLACLRQRSSHWIMREAITQYVEREEARESFKQEALASWAAYQETGQHLTGQEARTWLGSWGTD
AEAELPKCHD
MATSIKIDDDLKGRIQHLACLRQRSSHWIMREAITQYVEREEARESFKQEALASWAAYQETGQHLTGQEARTWLGSWGTD
AEAELPKCHD
Download Length: 273 bp
>AT309 NC_002947:2846690-2846962 [Pseudomonas putida KT2440]
ATGGCCACTTCCATCAAAATTGACGACGATCTGAAAGGTCGCATTCAGCATTTGGCTTGTTTGCGCCAGCGCTCATCTCA
CTGGATCATGCGTGAGGCGATCACCCAGTACGTCGAGCGTGAGGAGGCCCGTGAGAGCTTCAAACAAGAAGCGCTGGCAT
CTTGGGCTGCATACCAGGAAACCGGCCAGCACTTGACCGGCCAGGAGGCTCGCACCTGGCTTGGTAGTTGGGGTACAGAT
GCTGAGGCAGAGTTACCCAAGTGCCACGACTGA
ATGGCCACTTCCATCAAAATTGACGACGATCTGAAAGGTCGCATTCAGCATTTGGCTTGTTTGCGCCAGCGCTCATCTCA
CTGGATCATGCGTGAGGCGATCACCCAGTACGTCGAGCGTGAGGAGGCCCGTGAGAGCTTCAAACAAGAAGCGCTGGCAT
CTTGGGCTGCATACCAGGAAACCGGCCAGCACTTGACCGGCCAGGAGGCTCGCACCTGGCTTGGTAGTTGGGGTACAGAT
GCTGAGGCAGAGTTACCCAAGTGCCACGACTGA
Similar Proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| T10142 | Pseudomonas savastanoi |
72.165 |
100 |
0.722 |
| T659 | Shewanella oneidensis MR-1 |
46.939 |
100 |
0.474 |
Multiple sequence alignment
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| AT10142 | Pseudomonas savastanoi |
77.528 |
98.889 |
0.767 |
| AT659 | Shewanella oneidensis MR-1 |
56.25 |
88.889 |
0.5 |
Multiple sequence alignment
References
(1) Sirli Rosendahl et al. (2020) Chromosomal toxin-antitoxin systems in Pseudomonas putida are rather selfish than beneficial. Scientific Reports 10(1):9230. [PubMed:32513960]