Detailed information of TA system
Overview
TA module
| Type | II | Classification (family/domain) | vapBC/VapC-VagC |
| Location | 1014523..1015157 | Replicon | chromosome |
| Accession | NC_007005 | ||
| Organism | Pseudomonas syringae pv. syringae B728a | ||
Toxin (Protein)
| Gene name | vapC | Uniprot ID | - |
| Locus tag | PSYR_RS04640 | Protein ID | WP_011266697.1 |
| Coordinates | 1014523..1014927 (-) | Length | 135 a.a. |
Antitoxin (Protein)
| Gene name | vapB | Uniprot ID | Q4ZY19 |
| Locus tag | PSYR_RS04645 | Protein ID | WP_011266698.1 |
| Coordinates | 1014927..1015157 (-) | Length | 77 a.a. |
Genomic Context
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| PSYR_RS04600 (Psyr_0887) | 1009534..1010016 | + | 483 | WP_003404789.1 | PAS domain-containing protein | - |
| PSYR_RS04605 (Psyr_0888) | 1010113..1011369 | + | 1257 | WP_011266693.1 | 3-phosphoshikimate 1-carboxyvinyltransferase | - |
| PSYR_RS04610 (Psyr_0889) | 1011517..1011771 | + | 255 | WP_003404793.1 | AbrB/MazE/SpoVT family DNA-binding domain-containing protein | - |
| PSYR_RS04615 (Psyr_0890) | 1011768..1012115 | + | 348 | WP_011266694.1 | type II toxin-antitoxin system ChpB family toxin | - |
| PSYR_RS04620 (Psyr_0891) | 1012163..1012825 | - | 663 | WP_011266695.1 | ChrR family anti-sigma-E factor | - |
| PSYR_RS04625 (Psyr_0892) | 1012825..1013337 | - | 513 | WP_003345995.1 | sigma-70 family RNA polymerase sigma factor | - |
| PSYR_RS04630 | 1013573..1013761 | - | 189 | WP_057457743.1 | hypothetical protein | - |
| PSYR_RS04635 (Psyr_0893) | 1013760..1014335 | + | 576 | WP_011266696.1 | hypothetical protein | - |
| PSYR_RS04640 (Psyr_0894) | 1014523..1014927 | - | 405 | WP_011266697.1 | tRNA(fMet)-specific endonuclease VapC | Toxin |
| PSYR_RS04645 (Psyr_0895) | 1014927..1015157 | - | 231 | WP_011266698.1 | antitoxin | Antitoxin |
| PSYR_RS04650 (Psyr_0896) | 1015273..1016154 | - | 882 | WP_011266699.1 | aldose 1-epimerase | - |
| PSYR_RS04655 (Psyr_0897) | 1016129..1017100 | - | 972 | WP_011266700.1 | DMT family transporter | - |
| PSYR_RS04660 (Psyr_0898) | 1017185..1018465 | - | 1281 | WP_003404808.1 | TRAP transporter large permease | - |
| PSYR_RS04665 (Psyr_0899) | 1018466..1018993 | - | 528 | WP_003404809.1 | TRAP transporter small permease | - |
| PSYR_RS04670 (Psyr_0900) | 1019056..1020081 | - | 1026 | WP_011266701.1 | TRAP transporter substrate-binding protein | - |
Associated MGEs
| MGE detail |
Similar MGEs |
Relative position |
MGE Type | Cargo ARG | Virulence gene | Coordinates | Length (bp) |
|---|---|---|---|---|---|---|---|
| - | inside | Genomic island | - | - | 1004748..1015157 | 10409 |
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: 135 a.a. Molecular weight: 14881.14 Da Isoelectric Point: 6.8620
>T21186 WP_011266697.1 NC_007005:c1014927-1014523 [Pseudomonas syringae pv. syringae B728a]
MLKYMLDTNICIFTIKNKPASVREACNLHHGQLRISAITLMELVYGAEKSLSPERNLAVVEGFTARLEVLPYDSDAAAHT
GMIRAELARAGTPIGPYDQMIAGHARSLGLVVITNNQREFQRVEGLRVEDWVSQ
MLKYMLDTNICIFTIKNKPASVREACNLHHGQLRISAITLMELVYGAEKSLSPERNLAVVEGFTARLEVLPYDSDAAAHT
GMIRAELARAGTPIGPYDQMIAGHARSLGLVVITNNQREFQRVEGLRVEDWVSQ
Download Length: 405 bp
>T21186 NC_007005:c1014927-1014523 [Pseudomonas syringae pv. syringae B728a]
ATGCTCAAGTACATGCTTGACACCAACATTTGCATTTTTACTATAAAGAACAAGCCAGCTTCGGTGCGTGAAGCCTGCAA
CCTCCATCACGGACAGCTACGTATCAGCGCGATCACATTGATGGAGCTTGTATACGGCGCAGAAAAGTCTTTGAGCCCCG
AAAGGAATCTTGCCGTTGTTGAGGGTTTCACGGCGCGTCTTGAAGTGCTCCCTTACGACAGCGACGCGGCGGCTCATACC
GGCATGATCAGAGCCGAACTGGCCAGAGCGGGCACGCCGATCGGCCCGTACGATCAAATGATTGCAGGACACGCCCGCTC
TCTAGGCTTGGTTGTCATCACTAACAACCAGCGTGAATTCCAGCGCGTCGAGGGGCTGAGGGTAGAAGACTGGGTAAGCC
AATGA
ATGCTCAAGTACATGCTTGACACCAACATTTGCATTTTTACTATAAAGAACAAGCCAGCTTCGGTGCGTGAAGCCTGCAA
CCTCCATCACGGACAGCTACGTATCAGCGCGATCACATTGATGGAGCTTGTATACGGCGCAGAAAAGTCTTTGAGCCCCG
AAAGGAATCTTGCCGTTGTTGAGGGTTTCACGGCGCGTCTTGAAGTGCTCCCTTACGACAGCGACGCGGCGGCTCATACC
GGCATGATCAGAGCCGAACTGGCCAGAGCGGGCACGCCGATCGGCCCGTACGATCAAATGATTGCAGGACACGCCCGCTC
TCTAGGCTTGGTTGTCATCACTAACAACCAGCGTGAATTCCAGCGCGTCGAGGGGCTGAGGGTAGAAGACTGGGTAAGCC
AATGA
Antitoxin
Download Length: 77 a.a. Molecular weight: 8522.55 Da Isoelectric Point: 4.7247
>AT21186 WP_011266698.1 NC_007005:c1015157-1014927 [Pseudomonas syringae pv. syringae B728a]
MEQSTVFKSNRSQAVRLPKAVALPDDVKRVDVIAVGRTRIISPAGEMWNSWFDGESVSDDFMAERGQPAEQQRESL
MEQSTVFKSNRSQAVRLPKAVALPDDVKRVDVIAVGRTRIISPAGEMWNSWFDGESVSDDFMAERGQPAEQQRESL
Download Length: 231 bp
>AT21186 NC_007005:c1015157-1014927 [Pseudomonas syringae pv. syringae B728a]
ATGGAACAATCCACAGTCTTCAAAAGCAATCGAAGCCAGGCTGTCCGACTGCCAAAAGCGGTGGCCTTGCCCGACGACGT
GAAACGTGTCGATGTTATAGCCGTGGGCAGAACCCGCATTATTTCCCCCGCCGGTGAAATGTGGAACAGCTGGTTCGATG
GTGAAAGTGTCAGTGATGATTTCATGGCAGAGCGCGGACAACCAGCCGAACAGCAGCGCGAATCGCTCTGA
ATGGAACAATCCACAGTCTTCAAAAGCAATCGAAGCCAGGCTGTCCGACTGCCAAAAGCGGTGGCCTTGCCCGACGACGT
GAAACGTGTCGATGTTATAGCCGTGGGCAGAACCCGCATTATTTCCCCCGCCGGTGAAATGTGGAACAGCTGGTTCGATG
GTGAAAGTGTCAGTGATGATTTCATGGCAGAGCGCGGACAACCAGCCGAACAGCAGCGCGAATCGCTCTGA
Similar Proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|