Detailed information of TA system
Overview
TA module
| Type | II | Classification (family/domain) | relBE/- |
| Location | 3979..4532 | Replicon | plasmid pPsv48C |
| Accession | NC_019292 | ||
| Organism | Pseudomonas savastanoi | ||
Toxin (Protein)
| Gene name | relE | Uniprot ID | - |
| Locus tag | PSPSV_RS00035 | Protein ID | WP_002556167.1 |
| Coordinates | 3979..4272 (-) | Length | 98 a.a. |
Antitoxin (Protein)
| Gene name | relB | Uniprot ID | - |
| Locus tag | PSPSV_RS00040 | Protein ID | WP_002556168.1 |
| Coordinates | 4260..4532 (-) | Length | 91 a.a. |
Genomic Context
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| PSPSV_RS00005 (PSPSV_C0001) | 1..1314 | + | 1314 | WP_015060860.1 | replication initiation protein | - |
| PSPSV_RS00010 (PSPSV_C0002) | 1540..1833 | + | 294 | WP_002556165.1 | HU family DNA-binding protein | - |
| PSPSV_RS00015 (PSPSV_C0003) | 1920..2105 | + | 186 | WP_122267529.1 | stability determinant | - |
| PSPSV_RS00020 (PSPSV_C0004) | 2105..2398 | + | 294 | WP_003348565.1 | type II toxin-antitoxin system RelE/ParE family toxin | - |
| PSPSV_RS00025 (PSPSV_C0005) | 2508..3392 | - | 885 | Protein_4 | IS3-like element IS51 family transposase | - |
| PSPSV_RS00030 (PSPSV_C0006) | 3440..3973 | - | 534 | WP_057425675.1 | hypothetical protein | - |
| PSPSV_RS00035 (PSPSV_C0007) | 3979..4272 | - | 294 | WP_002556167.1 | type II toxin-antitoxin system RelE/ParE family toxin | Toxin |
| PSPSV_RS00040 (PSPSV_C0008) | 4260..4532 | - | 273 | WP_002556168.1 | CopG family ribbon-helix-helix protein | Antitoxin |
| PSPSV_RS00045 (PSPSV_C0010) | 4800..4922 | - | 123 | Protein_8 | stability/partitioning determinant | - |
| PSPSV_RS00050 | 5155..5529 | - | 375 | Protein_9 | integrase core domain-containing protein | - |
| PSPSV_RS00055 (PSPSV_C0013) | 5579..6801 | + | 1223 | WP_168550525.1 | IS3-like element IS51 family transposase | - |
| PSPSV_RS00060 | 6840..7866 | - | 1027 | Protein_11 | transposase | - |
| PSPSV_RS00065 (PSPSV_C0015) | 8055..9041 | - | 987 | WP_244295729.1 | hypothetical protein | - |
| PSPSV_RS00070 (PSPSV_C0016) | 9087..9340 | - | 254 | Protein_13 | integrase core domain-containing protein | - |
Associated MGEs
| MGE detail |
Similar MGEs |
Relative position |
MGE Type | Cargo ARG | Virulence gene | Coordinates | Length (bp) |
|---|---|---|---|---|---|---|---|
| - | inside | Mobilizable plasmid | - | - | 1..42104 | 42104 | |
| - | inside | IScluster/Tn | - | - | 2508..20294 | 17786 |
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: 10763.30 Da Isoelectric Point: 5.1546
>T10142 WP_002556167.1 NC_019292:c4272-3979 [Pseudomonas savastanoi pv. savastanoi]
VPQVIVTEGAAQGFERCRRFLAAKDPEAAKRAGQAIERQLLLLETAPDIGRPFPEMPELREVVIAFGDSGYVALYRQEAA
ADTVYILAFRHQKEAGY
VPQVIVTEGAAQGFERCRRFLAAKDPEAAKRAGQAIERQLLLLETAPDIGRPFPEMPELREVVIAFGDSGYVALYRQEAA
ADTVYILAFRHQKEAGY
Download Length: 294 bp
>T10142 NC_019292:c4272-3979 [Pseudomonas savastanoi pv. savastanoi]
GTGCCACAAGTAATCGTCACAGAAGGCGCGGCGCAAGGATTTGAGCGATGCCGGCGGTTCTTAGCTGCAAAGGACCCAGA
AGCTGCGAAGCGGGCTGGCCAGGCCATTGAACGGCAATTATTGCTACTGGAAACAGCCCCCGACATTGGCCGACCATTCC
CTGAAATGCCGGAGCTACGCGAGGTGGTGATCGCCTTCGGGGATTCTGGCTATGTGGCTCTGTACCGCCAGGAAGCGGCC
GCCGATACGGTCTATATCCTGGCATTTCGGCACCAGAAAGAGGCAGGCTACTGA
GTGCCACAAGTAATCGTCACAGAAGGCGCGGCGCAAGGATTTGAGCGATGCCGGCGGTTCTTAGCTGCAAAGGACCCAGA
AGCTGCGAAGCGGGCTGGCCAGGCCATTGAACGGCAATTATTGCTACTGGAAACAGCCCCCGACATTGGCCGACCATTCC
CTGAAATGCCGGAGCTACGCGAGGTGGTGATCGCCTTCGGGGATTCTGGCTATGTGGCTCTGTACCGCCAGGAAGCGGCC
GCCGATACGGTCTATATCCTGGCATTTCGGCACCAGAAAGAGGCAGGCTACTGA
Antitoxin
Download Length: 91 a.a. Molecular weight: 10576.85 Da Isoelectric Point: 6.7196
>AT10142 WP_002556168.1 NC_019292:c4532-4260 [Pseudomonas savastanoi pv. savastanoi]
MATSLKIDDTLKGRVQYLASQRRRSPHWIMLEAIQQYVEREEARESFKQEALASWAAYQETGRHLTGQEVRTWLNTWGTE
DEKAVPECHK
MATSLKIDDTLKGRVQYLASQRRRSPHWIMLEAIQQYVEREEARESFKQEALASWAAYQETGRHLTGQEVRTWLNTWGTE
DEKAVPECHK
Download Length: 273 bp
>AT10142 NC_019292:c4532-4260 [Pseudomonas savastanoi pv. savastanoi]
ATGGCCACATCGCTCAAGATCGACGATACGCTCAAAGGCCGCGTCCAATACCTTGCTAGTCAGCGCCGCCGTTCACCGCA
CTGGATCATGCTTGAAGCCATCCAACAATACGTCGAACGGGAGGAGGCCCGTGAAAGCTTCAAGCAGGAAGCCTTAGCTT
CCTGGGCTGCTTATCAGGAAACCGGTCGGCACCTGACCGGCCAGGAAGTGCGCACCTGGTTAAACACTTGGGGCACCGAA
GACGAAAAGGCGGTGCCTGAGTGCCACAAGTAA
ATGGCCACATCGCTCAAGATCGACGATACGCTCAAAGGCCGCGTCCAATACCTTGCTAGTCAGCGCCGCCGTTCACCGCA
CTGGATCATGCTTGAAGCCATCCAACAATACGTCGAACGGGAGGAGGCCCGTGAAAGCTTCAAGCAGGAAGCCTTAGCTT
CCTGGGCTGCTTATCAGGAAACCGGTCGGCACCTGACCGGCCAGGAAGTGCGCACCTGGTTAAACACTTGGGGCACCGAA
GACGAAAAGGCGGTGCCTGAGTGCCACAAGTAA
Similar Proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| T309 | Pseudomonas putida KT2440 |
72.165 |
100 |
0.722 |
| T659 | Shewanella oneidensis MR-1 |
45.918 |
100 |
0.464 |
| T226 | Caulobacter crescentus CB15 |
36.264 |
97.849 |
0.355 |
Multiple sequence alignment
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| AT309 | Pseudomonas putida KT2440 |
77.528 |
98.889 |
0.767 |
| AT659 | Shewanella oneidensis MR-1 |
53.659 |
91.111 |
0.489 |
Multiple sequence alignment
Structures
Toxin
| Source | ID | Structure |
|---|
Antitoxin
| Source | ID | Structure |
|---|
References
(1) Leire Bardaji et al. (2019) The toxic guardians - multiple toxin-antitoxin systems provide stability, avoid deletions and maintain virulence genes of Pseudomonas syringae virulence plasmids. Mobile DNA 10:7. [PubMed:30728866]