Detailed information of TA system TA226839

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 84539..85182
• Replicon: plasmid pB-4548_1
• Accession: NZ_CP088143
• Organism: Salmonella enterica subsp. enterica serovar Gallinarum strain SCPM-O-B-4548

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: A0A8F2ZUT5
• Locus tag: LRM93_RS23100
• Protein ID: WP_001697179.1
• Coordinates: 84766..85182 (+)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: A0A8F2UWJ1
• Locus tag: LRM93_RS23095
• Protein ID: WP_001261289.1
• Coordinates: 84539..84769 (+)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LRM93_RS23055 (LRM93_23055)	79927..80412	-	486	WP_000905606.1	membrane protein	-
LRM93_RS23060 (LRM93_23060)	80406..80894	-	489	WP_001075507.1	CaiF/GrlA family transcriptional regulator	-
LRM93_RS23065 (LRM93_23065)	80919..81632	-	714	WP_000545756.1	EAL domain-containing protein	-
LRM93_RS23070 (LRM93_23070)	81641..82423	-	783	WP_000082169.1	site-specific integrase	-
LRM93_RS23075 (LRM93_23075)	82458..82979	-	522	WP_000198608.1	hypothetical protein	-
LRM93_RS23080 (LRM93_23080)	82976..83266	-	291	WP_001266176.1	hypothetical protein	-
LRM93_RS23085 (LRM93_23085)	83268..83573	-	306	WP_001159863.1	type II toxin-antitoxin system toxin CcdB	-
LRM93_RS23090 (LRM93_23090)	83575..83793	-	219	WP_000813641.1	type II toxin-antitoxin system antitoxin CcdA	-
LRM93_RS23095 (LRM93_23095)	84539..84769	+	231	WP_001261289.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
LRM93_RS23100 (LRM93_23100)	84766..85182	+	417	WP_001697179.1	type II toxin-antitoxin system VapC family toxin	Toxin
LRM93_RS23105 (LRM93_23105)	85214..85957	+	744	WP_001292424.1	hypothetical protein	-
LRM93_RS23110 (LRM93_23110)	86195..87283	+	1089	WP_021003379.1	transcriptional repressor PifC	-
LRM93_RS23115 (LRM93_23115)	87285..89528	+	2244	WP_001000609.1	P-loop NTPase fold protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	-	pefB / pefA / pefC / pefD / rck / spvB / spvC / fdeC	1..92906	92906

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 (5-129)

Antitoxin

• SpoVT-AbrB domain (7-52)

Sequences

Toxin

Protein

• Length: 139 a.a.
• Molecular weight: 15139.68 Da
• Isoelectric Point: 8.5258

>T226839 WP_001697179.1 NZ_CP088143:84766-85182 [Salmonella enterica subsp. enterica serovar Gallinarum]
VKKMYMLDTNICSFIMREQPEAVLKRLEQAVLRGHRIVVSAITYSEMRFGATGPKASPRHVQLVDAFCARLDAVLPWDRA
AVDATTEIKVALRMAGTPIGPNDTAIAGHAIAAGAILVTNNVREFERVPGLVLEDWVK

Nucleotide

• Length: 417 bp

>T226839 NZ_CP122636:c41593-41219 [Escherichia coli]
ATGATATTAGTAGATACGTCTGTGTGGGTTGATCATTTTAAAAATAAAAATGATACATTGATTCAGCTATTGCAGTCAGA
CTTTGTTCTTATGCACCCCATGATCCTGGCTGAAATTGCATGCGGCACACCGCCAGCGCCCAGGCAGCGAACATTGAGTG
ATTTAGACTTGTTACCGAAAAGTCATCAGGCCACGATCACTGAAGTTCTGGCGTTCATTGAAAATGAAAAATTATTCGGA
CTGGGTTGTGGTCTGGTTGATATAACATTATTAGCGTCAACGAGGATTACCCCCGGGGCTAAAATATGGACGCTGGATAA
GCGACTGTCACGACTGGCAAAACACCTGAATGTAGAATATCAGCCTGTACATTGA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8797.94 Da
• Isoelectric Point: 4.3775

>AT226839 WP_001261289.1 NZ_CP088143:84539-84769 [Salmonella enterica subsp. enterica serovar Gallinarum]
MRTVSIFKNGNNRAIRLPRDMDFEGVSELEIVREGDSIILRPVRPTWGSFLELEKADPDFMAEREDVVTDEGRFNL

Nucleotide

• Length: 231 bp

>AT226839 NZ_CP122636:c41793-41590 [Escherichia coli]
ATGAGAACTACTGTAACGATCGACGATGTTCTGTACGCACAGGCGCTGGAAATGGCTGATCCGGGTATGGATAAATCAGA
TATTTTCCGTGAAGCTGTGAAAACGTTTATTCGTGTGCAGGCTGCGAAACGCCTGGCTTCACTTGGTGGAGCTGCCCCGA
ATATGGAGATAACACCACGCAGGCGTGGAGATGTGGCAGAATGA