Detailed information of TA system
Overview
TA module
| Type | II | Classification (family/domain) | vapBC/RHH-PIN |
| Location | 1372567..1373210 | Replicon | chromosome |
| Accession | NC_008596 | ||
| Organism | Mycobacterium smegmatis str. MC2 155 | ||
Toxin (Protein)
| Gene name | vapC | Uniprot ID | A0A8B4QHE7 |
| Locus tag | MSMEG_RS06275 | Protein ID | WP_011727564.1 |
| Coordinates | 1372821..1373210 (+) | Length | 130 a.a. |
Antitoxin (Protein)
| Gene name | vapB | Uniprot ID | A0QRY5 |
| Locus tag | MSMEG_RS06270 | Protein ID | WP_003892665.1 |
| Coordinates | 1372567..1372821 (+) | Length | 85 a.a. |
Genomic Context
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| MSMEG_RS06260 (MSMEG_1281) | 1368009..1371380 | + | 3372 | WP_162139587.1 | AAA family ATPase | - |
| MSMEG_RS06265 (MSMEG_1282) | 1371377..1372546 | + | 1170 | WP_011727563.1 | DUF3322 and DUF2220 domain-containing protein | - |
| MSMEG_RS06270 (MSMEG_1283) | 1372567..1372821 | + | 255 | WP_003892665.1 | type II toxin-antitoxin system VapB family antitoxin | Antitoxin |
| MSMEG_RS06275 (MSMEG_1284) | 1372821..1373210 | + | 390 | WP_011727564.1 | type II toxin-antitoxin system VapC family toxin | Toxin |
| MSMEG_RS06280 (MSMEG_1285) | 1373229..1375634 | - | 2406 | WP_011727565.1 | SEC-C domain-containing protein | - |
| MSMEG_RS06285 (MSMEG_1286) | 1375656..1377416 | - | 1761 | WP_011727566.1 | sulfatase-like hydrolase/transferase | - |
| MSMEG_RS06290 (MSMEG_1287) | 1377413..1377850 | - | 438 | WP_011727567.1 | SRPBCC family 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: 130 a.a. Molecular weight: 13909.73 Da Isoelectric Point: 4.7222
>T3165 WP_011727564.1 NC_008596:1372821-1373210 [Mycolicibacterium smegmatis MC2 155]
MVIDTSALVAILTDEPDAELLEGAVADDPVRTMSTASYLETAIVIESRFGEPGGRELDLWLHRASVALVAVDADQADAAR
LAYRRYGKGRHRAGLNYGDCFSYALAKVSGQPLLFKGEAFRLTDVAAVH
MVIDTSALVAILTDEPDAELLEGAVADDPVRTMSTASYLETAIVIESRFGEPGGRELDLWLHRASVALVAVDADQADAAR
LAYRRYGKGRHRAGLNYGDCFSYALAKVSGQPLLFKGEAFRLTDVAAVH
Download Length: 390 bp
>T3165 NC_008596:1372821-1373210 [Mycolicibacterium smegmatis MC2 155]
ATGGTTATCGACACTTCTGCCCTCGTTGCCATCTTGACCGACGAACCCGACGCCGAGTTGTTGGAGGGGGCGGTGGCTGA
CGATCCTGTTCGGACTATGTCCACCGCGTCGTATCTGGAGACAGCGATCGTGATCGAAAGTCGCTTCGGCGAGCCAGGTG
GTCGCGAACTCGATCTGTGGTTGCATCGCGCATCAGTGGCACTGGTCGCTGTGGATGCCGATCAGGCCGACGCCGCCCGG
TTGGCTTACCGGAGATACGGCAAGGGGCGCCATCGTGCAGGCCTGAATTACGGCGACTGTTTTTCCTATGCGCTCGCCAA
GGTCAGCGGTCAGCCTTTGTTGTTCAAGGGCGAGGCTTTTCGGCTCACCGACGTCGCTGCGGTCCACTGA
ATGGTTATCGACACTTCTGCCCTCGTTGCCATCTTGACCGACGAACCCGACGCCGAGTTGTTGGAGGGGGCGGTGGCTGA
CGATCCTGTTCGGACTATGTCCACCGCGTCGTATCTGGAGACAGCGATCGTGATCGAAAGTCGCTTCGGCGAGCCAGGTG
GTCGCGAACTCGATCTGTGGTTGCATCGCGCATCAGTGGCACTGGTCGCTGTGGATGCCGATCAGGCCGACGCCGCCCGG
TTGGCTTACCGGAGATACGGCAAGGGGCGCCATCGTGCAGGCCTGAATTACGGCGACTGTTTTTCCTATGCGCTCGCCAA
GGTCAGCGGTCAGCCTTTGTTGTTCAAGGGCGAGGCTTTTCGGCTCACCGACGTCGCTGCGGTCCACTGA
Antitoxin
Download Length: 85 a.a. Molecular weight: 9279.72 Da Isoelectric Point: 8.0238
>AT3165 WP_003892665.1 NC_008596:1372567-1372821 [Mycolicibacterium smegmatis MC2 155]
MALSIKHPEADRLARELAARTGETLTEAVVMALRERLARTVGRTQVVPLREELAAIRRRCAALPVLDDRTAESILGYDDR
GLPS
MALSIKHPEADRLARELAARTGETLTEAVVMALRERLARTVGRTQVVPLREELAAIRRRCAALPVLDDRTAESILGYDDR
GLPS
Download Length: 255 bp
>AT3165 NC_008596:1372567-1372821 [Mycolicibacterium smegmatis MC2 155]
ATGGCTCTAAGCATCAAACACCCGGAAGCCGACCGGCTGGCCAGAGAGCTAGCGGCACGTACGGGGGAGACACTGACCGA
GGCGGTGGTGATGGCACTGCGGGAGCGACTGGCGCGCACTGTCGGCCGCACTCAGGTCGTTCCGCTTCGTGAGGAACTCG
CCGCGATCCGTCGTCGCTGCGCAGCCCTACCGGTGTTGGACGACCGGACAGCCGAATCGATCCTGGGCTACGACGACCGC
GGTCTGCCGTCCTGA
ATGGCTCTAAGCATCAAACACCCGGAAGCCGACCGGCTGGCCAGAGAGCTAGCGGCACGTACGGGGGAGACACTGACCGA
GGCGGTGGTGATGGCACTGCGGGAGCGACTGGCGCGCACTGTCGGCCGCACTCAGGTCGTTCCGCTTCGTGAGGAACTCG
CCGCGATCCGTCGTCGCTGCGCAGCCCTACCGGTGTTGGACGACCGGACAGCCGAATCGATCCTGGGCTACGACGACCGC
GGTCTGCCGTCCTGA
Similar Proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| T81 | Mycobacterium tuberculosis H37Rv |
81.25 |
99.225 |
0.806 |
| T79 | Mycobacterium tuberculosis H37Rv |
46.032 |
97.674 |
0.45 |
| T6246 | Mycobacterium tuberculosis H37Rv |
38.889 |
97.674 |
0.38 |
Multiple sequence alignment
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| AT81 | Mycobacterium tuberculosis H37Rv |
83.333 |
100 |
0.833 |
| AT6246 | Mycobacterium tuberculosis H37Rv |
40.476 |
100 |
0.405 |
| AT79 | Mycobacterium tuberculosis H37Rv |
37.647 |
100 |
0.395 |
Multiple sequence alignment
Structures
Toxin
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A8B4QHE7 |
Antitoxin
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0QRY5 |
References
(1) Joanna L McKenzie et al. (2012) A VapBC toxin-antitoxin module is a posttranscriptional regulator of metabolic flux in mycobacteria. Journal of Bacteriology 194(9):2189-204. [PubMed:22366418]
(2) Jennifer Robson et al. (2009) The vapBC operon from Mycobacterium smegmatis is an autoregulated toxin-antitoxin module that controls growth via inhibition of translation. Journal of Molecular Biology 390(3):353-67. [PubMed:19445953]
(3) Mikhail Zamakhaev et al. (2022) VapC toxin switches M. smegmatis cells into dormancy through 23S rRNA cleavage. Archives of Microbiology 205(1):28. [PubMed:36520276]