Detailed information of TA system
Overview
TA module
| Type | II | Classification (family/domain) | vapBC/- |
| Location | 53291..53964 | Replicon | plasmid pPsv48A |
| Accession | NC_019265 | ||
| Organism | Pseudomonas savastanoi | ||
Toxin (Protein)
| Gene name | vapC | Uniprot ID | H1ZWW2 |
| Locus tag | PSA3335_RS00235 | Protein ID | WP_002556053.1 |
| Coordinates | 53545..53964 (+) | Length | 140 a.a. |
Antitoxin (Protein)
| Gene name | vapB | Uniprot ID | Q48B52 |
| Locus tag | PSA3335_RS00230 | Protein ID | WP_003381346.1 |
| Coordinates | 53291..53548 (+) | Length | 86 a.a. |
Genomic Context
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| PSA3335_RS00205 | 49436..50014 | - | 579 | WP_168550532.1 | toll/interleukin-1 receptor domain-containing protein | - |
| PSA3335_RS00210 | 50118..50330 | + | 213 | WP_244657730.1 | hypothetical protein | - |
| PSA3335_RS00215 (PSA3335_A0040) | 50380..51609 | + | 1230 | WP_082301212.1 | IS91 family transposase | - |
| PSA3335_RS00220 (PSA3335_A0041) | 52091..52465 | - | 375 | WP_002556055.1 | histone-like nucleoid-structuring protein, MvaT/MvaU family | - |
| PSA3335_RS00225 (PSA3335_A0042) | 52518..53186 | - | 669 | WP_002556054.1 | recombinase family protein | - |
| PSA3335_RS00230 (PSA3335_A0043) | 53291..53548 | + | 258 | WP_003381346.1 | Arc family DNA-binding protein | Antitoxin |
| PSA3335_RS00235 (PSA3335_A0044) | 53545..53964 | + | 420 | WP_002556053.1 | type II toxin-antitoxin system VapC family toxin | Toxin |
| PSA3335_RS00240 (PSA3335_A0045) | 54005..54637 | + | 633 | WP_015060648.1 | recombinase family protein | - |
Associated MGEs
| MGE detail |
Similar MGEs |
Relative position |
MGE Type | Cargo ARG | Virulence gene | Coordinates | Length (bp) |
|---|---|---|---|---|---|---|---|
| - | inside | Non-Mobilizable plasmid | - | - | 1..80123 | 80123 |
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: 140 a.a. Molecular weight: 15168.46 Da Isoelectric Point: 4.7010
>T10138 WP_002556053.1 NC_019265:53545-53964 [Pseudomonas savastanoi pv. savastanoi]
MILLDTNVISEPQRREPNAHVLDWIDAQALETLYLSTITVAELRAGIALMPVGKRQDSLRENLEKHLLPMFANRVLSFDM
TCTKAYAELLAKSRAAGLAVETADAFIAAIALANGFTVATRDTGPFEAAGLNVINPWET
MILLDTNVISEPQRREPNAHVLDWIDAQALETLYLSTITVAELRAGIALMPVGKRQDSLRENLEKHLLPMFANRVLSFDM
TCTKAYAELLAKSRAAGLAVETADAFIAAIALANGFTVATRDTGPFEAAGLNVINPWET
Download Length: 420 bp
>T10138 NC_019265:53545-53964 [Pseudomonas savastanoi pv. savastanoi]
ATGATCCTGCTCGATACGAACGTAATTTCAGAACCGCAGCGCCGAGAGCCCAATGCCCACGTCCTTGACTGGATCGACGC
ACAAGCGCTAGAAACGCTTTATCTGTCCACCATCACCGTAGCCGAGTTGCGTGCAGGTATCGCGCTGATGCCTGTCGGAA
AACGCCAGGATAGCTTGCGTGAAAACCTGGAAAAGCACCTGCTGCCGATGTTCGCCAATAGGGTGCTGTCGTTCGATATG
ACTTGTACGAAGGCTTATGCCGAGCTGCTGGCCAAGTCCCGCGCAGCCGGGTTGGCGGTCGAAACGGCAGATGCCTTCAT
TGCAGCCATCGCCCTCGCCAACGGCTTCACCGTCGCCACCCGTGACACTGGCCCTTTTGAGGCTGCCGGGTTGAACGTCA
TTAACCCCTGGGAAACGTAA
ATGATCCTGCTCGATACGAACGTAATTTCAGAACCGCAGCGCCGAGAGCCCAATGCCCACGTCCTTGACTGGATCGACGC
ACAAGCGCTAGAAACGCTTTATCTGTCCACCATCACCGTAGCCGAGTTGCGTGCAGGTATCGCGCTGATGCCTGTCGGAA
AACGCCAGGATAGCTTGCGTGAAAACCTGGAAAAGCACCTGCTGCCGATGTTCGCCAATAGGGTGCTGTCGTTCGATATG
ACTTGTACGAAGGCTTATGCCGAGCTGCTGGCCAAGTCCCGCGCAGCCGGGTTGGCGGTCGAAACGGCAGATGCCTTCAT
TGCAGCCATCGCCCTCGCCAACGGCTTCACCGTCGCCACCCGTGACACTGGCCCTTTTGAGGCTGCCGGGTTGAACGTCA
TTAACCCCTGGGAAACGTAA
Antitoxin
Download Length: 86 a.a. Molecular weight: 9401.62 Da Isoelectric Point: 9.0330
>AT10138 WP_003381346.1 NC_019265:53291-53548 [Pseudomonas savastanoi pv. savastanoi]
VANVNVRNLPDEVHRAIRIQAALHGRSTEAEIRDILERAARPEGRVKLGSFLASIAREVGGLTDKEHTLFENTRITSPAR
AVSFE
VANVNVRNLPDEVHRAIRIQAALHGRSTEAEIRDILERAARPEGRVKLGSFLASIAREVGGLTDKEHTLFENTRITSPAR
AVSFE
Download Length: 258 bp
>AT10138 NC_019265:53291-53548 [Pseudomonas savastanoi pv. savastanoi]
GTGGCAAACGTGAACGTAAGAAATCTACCCGATGAAGTGCATCGGGCCATCCGCATCCAAGCTGCCCTGCACGGGCGCAG
CACCGAGGCCGAAATACGCGACATCTTGGAGCGGGCGGCGAGACCCGAGGGACGTGTGAAACTTGGCTCGTTCCTGGCTT
CTATTGCCCGTGAGGTTGGTGGTCTGACCGATAAAGAACATACCTTGTTTGAGAACACGCGCATCACGTCTCCGGCCCGT
GCGGTGAGCTTTGAATGA
GTGGCAAACGTGAACGTAAGAAATCTACCCGATGAAGTGCATCGGGCCATCCGCATCCAAGCTGCCCTGCACGGGCGCAG
CACCGAGGCCGAAATACGCGACATCTTGGAGCGGGCGGCGAGACCCGAGGGACGTGTGAAACTTGGCTCGTTCCTGGCTT
CTATTGCCCGTGAGGTTGGTGGTCTGACCGATAAAGAACATACCTTGTTTGAGAACACGCGCATCACGTCTCCGGCCCGT
GCGGTGAGCTTTGAATGA
Similar Proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| T843 | Bradyrhizobium diazoefficiens USDA 110 |
40.146 |
98.561 |
0.396 |
| T6113 | Synechocystis sp. PCC 6803 |
35 |
100 |
0.353 |
| T10034 | Thermus thermophilus HB27 |
35.294 |
98.551 |
0.348 |
| T652 | Leptospira interrogans serovar Lai str. 56601 |
28.986 |
100 |
0.303 |
| T10054 | Bosea sp. PAMC 26642 strain PAMC26642 |
29.412 |
100 |
0.303 |
Multiple sequence alignment
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| AT10033 | Thermus thermophilus HB27 |
33.088 |
98.551 |
0.326 |
Multiple sequence alignment
Structures
Toxin
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A3M2ZA27 |
Antitoxin
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | Q48B52 |
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]