Detailed information of TA system TA224987

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 317015..317643
• Replicon: chromosome
• Accession: NZ_CP087171
• Organism: Pseudomonas atacamensis strain B21-045

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: LOY27_RS01390
• Protein ID: WP_016772140.1
• Coordinates: 317015..317413 (-)
• Length: 133 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: V8RDT4
• Locus tag: LOY27_RS01395
• Protein ID: WP_024011210.1
• Coordinates: 317413..317643 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LOY27_RS01370 (LOY27_01370)	312689..313384	-	696	WP_024011207.1	ABC transporter permease	-
LOY27_RS01375 (LOY27_01375)	313462..314214	-	753	WP_130900469.1	ABC transporter substrate-binding protein	-
LOY27_RS01380 (LOY27_01380)	314228..315001	-	774	WP_024011209.1	ABC transporter ATP-binding protein	-
LOY27_RS01385 (LOY27_01385)	315545..316936	+	1392	WP_016772141.1	GABA permease	-
LOY27_RS01390 (LOY27_01390)	317015..317413	-	399	WP_016772140.1	tRNA(fMet)-specific endonuclease VapC	Toxin
LOY27_RS01395 (LOY27_01395)	317413..317643	-	231	WP_024011210.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
LOY27_RS01400 (LOY27_01400)	317809..318261	-	453	WP_016772138.1	hypothetical protein	-
LOY27_RS01405 (LOY27_01405)	318268..318681	-	414	WP_016772137.1	hypothetical protein	-
LOY27_RS01410 (LOY27_01410)	318711..319685	-	975	WP_258710848.1	alpha/beta fold hydrolase	-
LOY27_RS01415 (LOY27_01415)	319753..320811	-	1059	WP_258711664.1	PDDEXK nuclease domain-containing protein	-
LOY27_RS01420 (LOY27_01420)	321093..321437	-	345	WP_122699890.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Genomic island	-	-	308763..317643	8880

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 (4-124)

Antitoxin

• SpoVT-AbrB domain (7-52)

Sequences

Toxin

Protein

• Length: 133 a.a.
• Molecular weight: 14547.92 Da
• Isoelectric Point: 7.1340

>T224987 WP_016772140.1 NZ_CP087171:c317413-317015 [Pseudomonas atacamensis]
MIKYMLDTNICIFTIKNKPQIVREAFNRHSGQLCISAITLMELIYGAEKSAAPEKNLAIVEGFVARLDVLPFDNDAAAQA
GMVRSELAKAGTPIGPYDQMIAGHARSLGLIVVTNNVREFQRVSGLRIEDWV

Nucleotide

• Length: 399 bp

>T224987 NZ_CP120687:c733263-732880 [Lacticaseibacillus sp. DSM 115425]
ATGGATGTAACCGTAAAACGCGGAGATGTCTTCTTCGCCGATTTATCGCCGGTTGTCGGATCCGAACAGGGTGGCAATCG
ACCTGTACTTATTATTCAAAACAACGTTGGCAACCACTATAGTCCTACGGTTATTGTGGCGGCCATTACCTCCAAGATCC
AAAAACCCAAGATGCCCACTCATGTTGGCTTACGGGCAAAGCAAGACGGGGTTGAACGTAACTCGGTGATTTTGCTAGAA
CAGATTCGCACCATCGATAAGCAGCGATTACAGGCGCGCGTGACAGCTTTATCAAGCGCAAAAATGGCGGCCGTTGATCG
TGCGTTGGCAATTTCAGTAGGGCTCGTTAGTTTGCCCAAACCAAAAACATATAATAAAAATTAA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8588.62 Da
• Isoelectric Point: 4.5203

>AT224987 WP_024011210.1 NZ_CP087171:c317643-317413 [Pseudomonas atacamensis]
MEQTTIFMSNRSQAVRLPKAVAMPGDVKRVEVIAIGRTRVITPAGESWDSWFDGDSVSPDFMANREQPTEQERESF

Nucleotide

• Length: 231 bp

>AT224987 NZ_CP120687:c733531-733283 [Lacticaseibacillus sp. DSM 115425]
ATGAAGAAGCAAACGTCAGTAACGGTAACGTTTGATGCTGCTATTAAGGCGCGGTTAGATGCCTATTGTGAGTTGAATGA
CACGGATACTCAAGATGTGATCACAACAGCAGTGGCCAAATTTTTGCAGTCACAAGCACCCGATATCAACCAGCTGATTT
CCGGCTATGTTGCCATGGGACAGATCAATACAGAGATCAGTCATGCTTTCTCCGCCTGCGAAAGTGAGGCATACGCCCAT
ATTCGATAA

Structures

Antitoxin

• AlphaFold DB: V8RDT4