Detailed information of TA system TA116008

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 4664980..4665608
• Replicon: chromosome
• Accession: NZ_CP034425
• Organism: Pseudomonas libanensis strain DMSP-1

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: A0A6I6VXI6
• Locus tag: EJJ21_RS21760
• Protein ID: WP_069558626.1
• Coordinates: 4664980..4665378 (-)
• Length: 133 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: EJJ21_RS21765
• Protein ID: WP_034135537.1
• Coordinates: 4665378..4665608 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
EJJ21_RS21740	4661813..4662082	+	270	WP_003193635.1	DUF2790 domain-containing protein	-
EJJ21_RS21745	4662637..4663887	+	1251	WP_032895630.1	ribonucleotide-diphosphate reductase subunit beta	-
EJJ21_RS21750	4663954..4664127	+	174	Protein_4042	HNH endonuclease	-
EJJ21_RS21755	4664200..4664847	+	648	WP_069558625.1	HAD-IB family hydrolase	-
EJJ21_RS21760	4664980..4665378	-	399	WP_069558626.1	tRNA(fMet)-specific endonuclease VapC	Toxin
EJJ21_RS21765	4665378..4665608	-	231	WP_034135537.1	antitoxin	Antitoxin
EJJ21_RS21775	4665932..4666891	-	960	WP_047711615.1	LysR family transcriptional regulator	-
EJJ21_RS21780	4667085..4668512	+	1428	WP_125970571.1	argininosuccinate lyase	-
EJJ21_RS21785	4668659..4669537	+	879	WP_044273622.1	amino acid ABC transporter permease	-
EJJ21_RS21790	4669562..4670326	+	765	WP_003193648.1	amino acid ABC transporter ATP-binding 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.

Domains

Predicted by InterproScan

Toxin

• PIN domain (5-124)

Antitoxin

No domain identified.

Sequences

Toxin

Protein

• Length: 133 a.a.
• Molecular weight: 14996.24 Da
• Isoelectric Point: 8.0459

>T116008 WP_069558626.1 NZ_CP034425:c4665378-4664980 [Pseudomonas libanensis]
MLKFMLDTNICIFTIKNRPQQVRETFKKHYGQLAISTVTLMELIYGAEKSPNPERNLADVEGFAARLEVLKYDQDAAMHT
GQLRAELARAGTPIGSYDQMIAGHARSQGLIMVTNNRREFDRVPGLRVEDWV

Nucleotide

• Length: 399 bp

>T116008 NZ_CP034425:c4665378-4664980 [Pseudomonas libanensis]
ATGCTCAAGTTCATGCTCGATACCAACATCTGTATCTTCACAATCAAAAACAGACCTCAGCAGGTGCGCGAAACCTTCAA
AAAGCACTATGGCCAACTAGCTATCAGTACAGTAACCCTGATGGAGCTGATTTACGGCGCGGAAAAATCACCTAACCCAG
AGCGAAACTTGGCTGATGTCGAAGGCTTTGCAGCACGTCTGGAAGTTTTGAAATACGACCAGGATGCCGCTATGCACACA
GGCCAACTTCGCGCTGAGCTAGCGAGAGCTGGTACTCCGATAGGTTCATACGACCAGATGATCGCTGGGCATGCCCGTTC
GCAGGGCCTGATTATGGTCACTAACAACCGGCGCGAGTTCGACCGCGTGCCAGGTTTGCGGGTAGAAGATTGGGTGTAA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8467.28 Da
• Isoelectric Point: 4.2404

>AT116008 WP_034135537.1 NZ_CP034425:c4665608-4665378 [Pseudomonas libanensis]
MDQGSVFQSNRSQAVRLPKAAALPDDVKRVDVVSIGRARIITPAGESWDSWFDGEGVTPDFMNDRDQPADQERESF

Nucleotide

• Length: 231 bp

>AT116008 NZ_CP034425:c4665608-4665378 [Pseudomonas libanensis]
ATGGATCAAGGTTCTGTATTTCAAAGCAACCGCAGCCAAGCTGTACGTTTGCCAAAGGCAGCTGCGCTGCCGGATGACGT
AAAACGTGTAGATGTCGTCTCAATCGGTAGGGCCCGAATCATCACCCCAGCCGGTGAGTCATGGGACAGCTGGTTCGATG
GCGAGGGTGTCACGCCGGATTTCATGAACGACCGAGATCAGCCTGCTGACCAAGAGCGGGAATCTTTTTAA

Structures

Toxin

• AlphaFold DB: A0A6I6VXI6