Detailed information of TA system
Overview
TA module
| Type | II | Classification (family/domain) | pemIK/AbrB-MazF |
| Location | 1289..1875 | Replicon | plasmid pXF-RIV11 |
| Accession | NC_014111 | ||
| Organism | Xylella fastidiosa | ||
Toxin (Protein)
| Gene name | pemK | Uniprot ID | A0A060HFN7 |
| Locus tag | HS687_RS00020 | Protein ID | WP_038230332.1 |
| Coordinates | 1549..1875 (+) | Length | 109 a.a. |
Antitoxin (Protein)
| Gene name | pemI | Uniprot ID | D5LL99 |
| Locus tag | HS687_RS00015 | Protein ID | WP_013087943.1 |
| Coordinates | 1289..1552 (+) | Length | 88 a.a. |
Genomic Context
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HS687_RS00010 (pXFRIV11_p01) | 130..1230 | + | 1101 | WP_013087942.1 | zeta toxin family protein | - |
| HS687_RS00015 (pXFRIV11_p02) | 1289..1552 | + | 264 | WP_013087943.1 | antitoxin | Antitoxin |
| HS687_RS00020 (pXFRIV11_p03) | 1549..1875 | + | 327 | WP_038230332.1 | type II toxin-antitoxin system PemK/MazF family toxin | Toxin |
| HS687_RS00025 (pXFRIV11_p04) | 1934..3070 | - | 1137 | WP_013087945.1 | relaxase/mobilization nuclease domain-containing protein | - |
| HS687_RS00030 (pXFRIV11_p05) | 3136..4242 | - | 1107 | WP_013087946.1 | LPD7 domain-containing protein | - |
| HS687_RS00035 (pXFRIV11_p06) | 4255..6531 | - | 2277 | WP_013087947.1 | type IV secretory system conjugative DNA transfer family protein | - |
Associated MGEs
| MGE detail |
Similar MGEs |
Relative position |
MGE Type | Cargo ARG | Virulence gene | Coordinates | Length (bp) |
|---|---|---|---|---|---|---|---|
| inside | Non-Mobilizable plasmid | - | - | 1..25105 | 25105 |
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: 109 a.a. Molecular weight: 11795.71 Da Isoelectric Point: 8.5480
>T6120 WP_038230332.1 NC_014111:1549-1875 [Xylella fastidiosa]
MKRGDVYMVDLEPTAGHEQRGHRPVVVISSERFNRLTSCPVILPITNGGEFASRLGFAVELLGTITTGVVRCDQPRALDL
LARNARKVESLPPNILADVLAKAVTIFQ
MKRGDVYMVDLEPTAGHEQRGHRPVVVISSERFNRLTSCPVILPITNGGEFASRLGFAVELLGTITTGVVRCDQPRALDL
LARNARKVESLPPNILADVLAKAVTIFQ
Download Length: 327 bp
>T6120 NC_014111:1549-1875 [Xylella fastidiosa]
ATGAAACGCGGCGATGTTTACATGGTCGATCTGGAGCCAACCGCCGGACACGAACAACGCGGTCACCGTCCGGTGGTTGT
TATCTCCAGTGAGCGATTCAATCGGCTTACCTCTTGTCCGGTGATCCTTCCAATCACAAACGGCGGCGAGTTCGCCTCCC
GCCTCGGGTTCGCTGTGGAATTACTAGGTACGATTACAACGGGCGTCGTTCGATGTGATCAACCACGTGCGCTCGACTTA
CTCGCTCGCAATGCCCGCAAAGTGGAAAGCCTACCACCAAACATCTTGGCCGATGTCTTGGCAAAAGCTGTCACCATCTT
CCAGTAA
ATGAAACGCGGCGATGTTTACATGGTCGATCTGGAGCCAACCGCCGGACACGAACAACGCGGTCACCGTCCGGTGGTTGT
TATCTCCAGTGAGCGATTCAATCGGCTTACCTCTTGTCCGGTGATCCTTCCAATCACAAACGGCGGCGAGTTCGCCTCCC
GCCTCGGGTTCGCTGTGGAATTACTAGGTACGATTACAACGGGCGTCGTTCGATGTGATCAACCACGTGCGCTCGACTTA
CTCGCTCGCAATGCCCGCAAAGTGGAAAGCCTACCACCAAACATCTTGGCCGATGTCTTGGCAAAAGCTGTCACCATCTT
CCAGTAA
Antitoxin
Download Length: 88 a.a. Molecular weight: 9365.77 Da Isoelectric Point: 4.3588
>AT6120 WP_013087943.1 NC_014111:1289-1552 [Xylella fastidiosa]
MHTTNLRKVGGSIMLAVPPAFLDQLHLEVGATVGLAVTDGRLVIEPVLHPQYTLDQLLAEAEASGAYPLPPEEREWVDAP
AVGRELI
MHTTNLRKVGGSIMLAVPPAFLDQLHLEVGATVGLAVTDGRLVIEPVLHPQYTLDQLLAEAEASGAYPLPPEEREWVDAP
AVGRELI
Download Length: 264 bp
>AT6120 NC_014111:1289-1552 [Xylella fastidiosa]
ATGCACACCACAAACCTTCGTAAAGTCGGTGGATCGATCATGCTGGCCGTTCCCCCCGCTTTCCTTGATCAGCTTCATCT
TGAGGTCGGCGCAACGGTCGGCTTAGCCGTCACAGACGGTCGTCTGGTCATTGAGCCAGTCCTACATCCTCAGTACACGC
TGGATCAACTGCTGGCCGAAGCGGAAGCCTCCGGGGCTTACCCGTTGCCGCCCGAGGAACGTGAATGGGTCGATGCTCCA
GCAGTAGGACGCGAACTGATATGA
ATGCACACCACAAACCTTCGTAAAGTCGGTGGATCGATCATGCTGGCCGTTCCCCCCGCTTTCCTTGATCAGCTTCATCT
TGAGGTCGGCGCAACGGTCGGCTTAGCCGTCACAGACGGTCGTCTGGTCATTGAGCCAGTCCTACATCCTCAGTACACGC
TGGATCAACTGCTGGCCGAAGCGGAAGCCTCCGGGGCTTACCCGTTGCCGCCCGAGGAACGTGAATGGGTCGATGCTCCA
GCAGTAGGACGCGAACTGATATGA
Similar Proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| T1076 | Shigella flexneri 2b |
50.459 |
100 |
0.509 |
| T10069 | Klebsiella pneumoniae subsp. pneumoniae MGH 78578 |
45.556 |
83.333 |
0.38 |
| T10067 | Agrobacterium tumefaciens str. C58 |
36.036 |
100 |
0.37 |
| T1049 | Escherichia coli str. K-12 substr. MG1655 |
42.391 |
85.185 |
0.361 |
| T1044 | Escherichia coli str. K-12 substr. MG1655 |
36.364 |
91.667 |
0.333 |
| T10130 | Escherichia coli str. K-12 substr. MC4100 strain K-12 |
36.364 |
91.667 |
0.333 |
| T137 | Deinococcus radiodurans R1 |
34 |
92.593 |
0.315 |
| T663 | Streptococcus mutans UA159 |
31.481 |
100 |
0.315 |
| T6091 | Staphylococcus aureus |
31.481 |
100 |
0.315 |
| T10090 | Enterococcus faecalis ATCC 29212 |
33.333 |
91.667 |
0.306 |
| T10160 | Mycobacterium tuberculosis H37Rv |
32.653 |
92.453 |
0.302 |
Multiple sequence alignment
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| AT1076 | Shigella flexneri 2b |
50.575 |
100 |
0.518 |
| AT10067 | Agrobacterium tumefaciens str. C58 |
42.353 |
97.701 |
0.414 |
| AT10069 | Klebsiella pneumoniae subsp. pneumoniae MGH 78578 |
35.385 |
85.526 |
0.303 |
Multiple sequence alignment
Structures
Toxin
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A060HFN7 |
Antitoxin
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A060H856 |
References
(1) Min Woo Lee et al. (2010) Functional characterization of replication and stability factors of an incompatibility group P-1 plasmid from Xylella fastidiosa. Applied And Environmental Microbiology 76(23):7734-40. [PubMed:20935126]