Detailed information of TA system
Overview
TA module
| Type | II | Classification (family/domain) | vapBC/PHD-PIN |
| Location | 2652602..2653308 | Replicon | chromosome |
| Accession | NC_004463 | ||
| Organism | Bradyrhizobium diazoefficiens USDA 110 | ||
Toxin (Protein)
| Gene name | vapC | Uniprot ID | Q89SG6 |
| Locus tag | BJA_RS11930 | Protein ID | WP_011085221.1 |
| Coordinates | 2652602..2653027 (-) | Length | 142 a.a. |
Antitoxin (Protein)
| Gene name | vapB | Uniprot ID | Q89SG5 |
| Locus tag | BJA_RS11935 | Protein ID | WP_011085222.1 |
| Coordinates | 2653024..2653308 (-) | Length | 95 a.a. |
Genomic Context
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| BJA_RS11900 (blr2429) | 2648605..2649357 | + | 753 | WP_162494065.1 | fatty acid desaturase family protein | - |
| BJA_RS11905 (blr2430) | 2649437..2649868 | + | 432 | WP_011085217.1 | acyl-CoA thioesterase | - |
| BJA_RS11910 | 2650060..2650251 | + | 192 | WP_028175062.1 | hypothetical protein | - |
| BJA_RS11915 (bll2431) | 2650353..2650820 | - | 468 | WP_011085218.1 | nuclear transport factor 2 family protein | - |
| BJA_RS11920 (blr2432) | 2650976..2651662 | + | 687 | WP_038967389.1 | HAD-IA family hydrolase | - |
| BJA_RS11925 (blr2433) | 2651754..2652599 | + | 846 | WP_011085220.1 | DeoR/GlpR family DNA-binding transcription regulator | - |
| BJA_RS11930 (bll2434) | 2652602..2653027 | - | 426 | WP_011085221.1 | type II toxin-antitoxin system VapC family toxin | Toxin |
| BJA_RS11935 (bsl2435) | 2653024..2653308 | - | 285 | WP_011085222.1 | type II toxin-antitoxin system Phd/YefM family antitoxin | Antitoxin |
| BJA_RS11940 (blr2436) | 2653541..2655091 | + | 1551 | WP_011085223.1 | glycerol-3-phosphate dehydrogenase | - |
| BJA_RS11945 (blr2437) | 2655088..2656164 | + | 1077 | WP_011085224.1 | ABC transporter ATP-binding protein | - |
| BJA_RS11950 (blr2438) | 2656177..2657262 | + | 1086 | WP_011085225.1 | ABC transporter ATP-binding protein | - |
| BJA_RS11955 (blr2439) | 2657262..2658236 | + | 975 | WP_011085226.1 | sugar ABC transporter permease | - |
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: 142 a.a. Molecular weight: 15448.66 Da Isoelectric Point: 5.5776
>T843 WP_011085221.1 NC_004463:c2653027-2652602 [Bradyrhizobium diazoefficiens USDA 110]
VNLLLDTNVLSEVQRPAPSPKVLAWLDTIDEDRAFISVASIAELRRGIALLEDGRRRSALAAWLAHDLPARFADRVLPID
HAVAEHWGDLMAQSRRSGVTLSVMDGFFAATALAHSLSLVTRNVKDFAAFGVPLLNPWDDP
VNLLLDTNVLSEVQRPAPSPKVLAWLDTIDEDRAFISVASIAELRRGIALLEDGRRRSALAAWLAHDLPARFADRVLPID
HAVAEHWGDLMAQSRRSGVTLSVMDGFFAATALAHSLSLVTRNVKDFAAFGVPLLNPWDDP
Download Length: 426 bp
>T843 NC_004463:c2653027-2652602 [Bradyrhizobium diazoefficiens USDA 110]
GTGAACCTGCTGCTCGACACCAACGTACTGTCGGAAGTTCAGCGGCCAGCCCCCTCGCCGAAAGTCTTGGCTTGGCTTGA
CACGATCGATGAAGATCGTGCGTTCATCAGCGTCGCATCGATCGCCGAGCTTCGCCGCGGCATCGCATTGCTGGAGGACG
GCCGCCGGCGCTCGGCACTGGCCGCCTGGCTCGCCCACGATCTACCGGCGCGGTTTGCCGACCGCGTCCTGCCGATCGAC
CACGCGGTGGCCGAGCACTGGGGCGACCTGATGGCTCAGAGCCGCAGGAGCGGCGTCACATTGTCTGTCATGGACGGCTT
CTTTGCCGCAACCGCGCTCGCGCACAGCCTCTCGCTCGTCACGCGCAACGTGAAGGATTTCGCTGCATTCGGCGTCCCCC
TGCTCAATCCGTGGGACGACCCATAG
GTGAACCTGCTGCTCGACACCAACGTACTGTCGGAAGTTCAGCGGCCAGCCCCCTCGCCGAAAGTCTTGGCTTGGCTTGA
CACGATCGATGAAGATCGTGCGTTCATCAGCGTCGCATCGATCGCCGAGCTTCGCCGCGGCATCGCATTGCTGGAGGACG
GCCGCCGGCGCTCGGCACTGGCCGCCTGGCTCGCCCACGATCTACCGGCGCGGTTTGCCGACCGCGTCCTGCCGATCGAC
CACGCGGTGGCCGAGCACTGGGGCGACCTGATGGCTCAGAGCCGCAGGAGCGGCGTCACATTGTCTGTCATGGACGGCTT
CTTTGCCGCAACCGCGCTCGCGCACAGCCTCTCGCTCGTCACGCGCAACGTGAAGGATTTCGCTGCATTCGGCGTCCCCC
TGCTCAATCCGTGGGACGACCCATAG
Antitoxin
Download Length: 95 a.a. Molecular weight: 10281.64 Da Isoelectric Point: 6.7251
>AT843 WP_011085222.1 NC_004463:c2653308-2653024 [Bradyrhizobium diazoefficiens USDA 110]
MADHNTAPDTLPADDTWTLANAKARLSQVIDRAQTGPQIITRHGKPNAVIVSAEEWARKTARKGTLAEFLLASPLRGADL
ALERMHDAPRDEMP
MADHNTAPDTLPADDTWTLANAKARLSQVIDRAQTGPQIITRHGKPNAVIVSAEEWARKTARKGTLAEFLLASPLRGADL
ALERMHDAPRDEMP
Download Length: 285 bp
>AT843 NC_004463:c2653308-2653024 [Bradyrhizobium diazoefficiens USDA 110]
ATGGCCGATCACAACACTGCACCCGACACGCTTCCGGCTGATGACACGTGGACGCTTGCCAACGCCAAGGCACGACTGTC
CCAGGTGATCGACCGCGCCCAAACCGGCCCGCAGATCATCACCCGTCACGGCAAGCCGAACGCCGTGATCGTTTCCGCAG
AGGAATGGGCCCGCAAGACCGCACGCAAAGGCACGTTGGCCGAATTCCTACTGGCCTCGCCGCTGCGCGGCGCCGACCTC
GCACTTGAACGCATGCACGATGCGCCGCGCGACGAGATGCCGTGA
ATGGCCGATCACAACACTGCACCCGACACGCTTCCGGCTGATGACACGTGGACGCTTGCCAACGCCAAGGCACGACTGTC
CCAGGTGATCGACCGCGCCCAAACCGGCCCGCAGATCATCACCCGTCACGGCAAGCCGAACGCCGTGATCGTTTCCGCAG
AGGAATGGGCCCGCAAGACCGCACGCAAAGGCACGTTGGCCGAATTCCTACTGGCCTCGCCGCTGCGCGGCGCCGACCTC
GCACTTGAACGCATGCACGATGCGCCGCGCGACGAGATGCCGTGA
Similar Proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| T10034 | Thermus thermophilus HB27 |
44.286 |
100 |
0.449 |
| T10138 | Pseudomonas savastanoi |
40.146 |
98.561 |
0.396 |
| T6113 | Synechocystis sp. PCC 6803 |
38.732 |
100 |
0.39 |
| T94 | Mycobacterium tuberculosis H37Rv |
34.109 |
96.992 |
0.331 |
| T10197 | Klebsiella pneumoniae |
32.117 |
99.275 |
0.319 |
| T4923 | Actinobacillus pleuropneumoniae serovar 3 str. JL03 |
31.206 |
100 |
0.312 |
| T4914 | Actinobacillus pleuropneumoniae serovar 3 str. JL03 |
33.051 |
91.473 |
0.302 |
Multiple sequence alignment
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| AT10033 | Thermus thermophilus HB27 |
43.165 |
100 |
0.435 |
Multiple sequence alignment
References
(1) Mariana Gallo et al. (2010) A new member of the ribbon-helix-helix transcription factor superfamily from the plant pathogen Xanthomonas axonopodis pv.citri. Journal of Structural Biology 170(1):21-31. [PubMed:20060909]