Detailed information of TA system TA224964

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 323807..324435
• Replicon: chromosome
• Accession: NZ_CP087167
• Organism: Pseudomonas atacamensis strain B21-050

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: LOY49_RS01410
• Protein ID: WP_016772140.1
• Coordinates: 323807..324205 (-)
• Length: 133 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: V8RDT4
• Locus tag: LOY49_RS01415
• Protein ID: WP_024011210.1
• Coordinates: 324205..324435 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LOY49_RS01390 (LOY49_01390)	319481..320176	-	696	WP_016772144.1	ABC transporter permease	-
LOY49_RS01395 (LOY49_01395)	320254..321006	-	753	WP_122881268.1	ABC transporter substrate-binding protein	-
LOY49_RS01400 (LOY49_01400)	321020..321793	-	774	WP_024011209.1	ABC transporter ATP-binding protein	-
LOY49_RS01405 (LOY49_01405)	322337..323728	+	1392	WP_016772141.1	GABA permease	-
LOY49_RS01410 (LOY49_01410)	323807..324205	-	399	WP_016772140.1	tRNA(fMet)-specific endonuclease VapC	Toxin
LOY49_RS01415 (LOY49_01415)	324205..324435	-	231	WP_024011210.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
LOY49_RS01420 (LOY49_01420)	324601..325053	-	453	WP_016772138.1	hypothetical protein	-
LOY49_RS01425 (LOY49_01425)	325060..325473	-	414	WP_016772137.1	hypothetical protein	-
LOY49_RS01430 (LOY49_01430)	325503..326438	-	936	WP_258604492.1	alpha/beta fold hydrolase	-
LOY49_RS01435 (LOY49_01435)	326545..327603	-	1059	WP_122611110.1	PDDEXK nuclease domain-containing protein	-
LOY49_RS01440 (LOY49_01440)	327885..328229	-	345	WP_160768523.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Genomic island	-	-	315555..324435	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

>T224964 WP_016772140.1 NZ_CP087167:c324205-323807 [Pseudomonas atacamensis]
MIKYMLDTNICIFTIKNKPQIVREAFNRHSGQLCISAITLMELIYGAEKSAAPEKNLAIVEGFVARLDVLPFDNDAAAQA
GMVRSELAKAGTPIGPYDQMIAGHARSLGLIVVTNNVREFQRVSGLRIEDWV

Nucleotide

• Length: 399 bp

>T224964 NZ_CP120671:c591976-591578 [Salmonella enterica]
ATGCTGAAATTCATGCTTGATACCAATACCTGTATTTTCACCATCAAAAATAAGCCCGAACACGTCAAAGAACGCTTCAA
CCTCAATACATCCCGAATGTGTATCAGCTCCATCACCTTAATGGAGCTGATTTACGGTGCTGAAAAAAGCCTGGCGCCGG
AGCGTAATCTTGCCGTCGTGGAGGGATTTATCTCCCGCCTTGAGGTTCTGGATTACGATACACAGGCAGCGATACATACC
GGTCAAATCCGTGCCGAACTGGCCCGCAAGGGAACACCTGTCGGGCCTTATGACCAGATGATTGCTGGCCATGCCCGTAG
CCGCGGACTGGTCGTCGTCACAAACAATCTCCGCGAGTTTGAACGCATTCCGGGTATCCGAATCGAAGACTGGTGCTAA

Antitoxin

Protein

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

>AT224964 WP_024011210.1 NZ_CP087167:c324435-324205 [Pseudomonas atacamensis]
MEQTTIFMSNRSQAVRLPKAVAMPGDVKRVEVIAIGRTRVITPAGESWDSWFDGDSVSPDFMANREQPTEQERESF

Nucleotide

• Length: 231 bp

>AT224964 NZ_CP120671:c592203-591976 [Salmonella enterica]
ATGCACACAACACTTTTTTTTAGTAACCGGACCCAGGCAGTCAGATTGCCTAAATCGATATCCTTTCCGGATGATGTGAA
ACATGTCGAAATCATTGCGGTTGGCAGAAGCAGAATCATTACTCCAGTCGGAGAATCCTGGGACAGCTGGTTCGATGGCG
AAGGCGCCAGTACTGATTTTATGAGTACCAGAGAACAACCCGCAGTACAGGAACGGGAAGGATTCTGA

Structures

Antitoxin

• AlphaFold DB: V8RDT4