Detailed information of TA system TA217472

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 33648..34291
• Replicon: plasmid p11778_1
• Accession: NZ_CP083829
• Organism: Enterobacter kobei strain 11778-yvys

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: -
• Locus tag: LCD42_RS22235
• Protein ID: WP_208557604.1
• Coordinates: 33648..34064 (-)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: A0A5P6KGW8
• Locus tag: LCD42_RS22240
• Protein ID: WP_021312767.1
• Coordinates: 34061..34291 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LCD42_RS22215 (28755)	28755..29669	+	915	WP_208557601.1	4-hydroxybenzoate octaprenyltransferase	-
LCD42_RS22220 (29687)	29687..30018	-	332	Protein_30	GAF domain-containing protein	-
LCD42_RS22225 (30226)	30226..31188	+	963	WP_208557602.1	DJ-1/PfpI family protein	-
LCD42_RS22230 (31784)	31784..33463	+	1680	WP_208557603.1	DNA repair protein	-
LCD42_RS22235 (33648)	33648..34064	-	417	WP_208557604.1	type II toxin-antitoxin system VapC family toxin	Toxin
LCD42_RS22240 (34061)	34061..34291	-	231	WP_021312767.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
LCD42_RS22245 (34931)	34931..35287	+	357	WP_095450889.1	hypothetical protein	-
LCD42_RS22250 (35403)	35403..35963	+	561	WP_095450890.1	hypothetical protein	-
LCD42_RS22850 (36006)	36006..36140	+	135	WP_255248831.1	hypothetical protein	-
LCD42_RS22255 (36142)	36142..36918	+	777	WP_208557605.1	site-specific integrase	-
LCD42_RS22260 (37094)	37094..37365	+	272	Protein_39	tyrosine-type recombinase/integrase	-
LCD42_RS22265 (37609)	37609..38619	-	1011	WP_063161595.1	RepB family plasmid replication initiator protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	mcr-10	-	1..130391	130391

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 (7-50)

Sequences

Toxin

Protein

• Length: 139 a.a.
• Molecular weight: 15093.53 Da
• Isoelectric Point: 7.8874

>T217472 WP_208557604.1 NZ_CP083829:c34064-33648 [Enterobacter kobei]
VNKIYMLDTNICSFIMREQPEAVLKRLEQAVLRGHRIVVSAITYSEMRFGATGPKASPRHVQLVDAFCARLDAILPWDRA
AVDATTEIKVALRLAGTPIGPNDTAIAGHAIAAGAVLVTNNVREFERVTGLVLEDWVK

Nucleotide

• Length: 417 bp

>T217472 NZ_CP114316:c5488402-5488019 [Klebsiella variicola]
ATGACCTCCGGATCTGCGCTTTTTGATACCAATATTCTTATTGATTTATTTAGCGGGCGTCGCGAAGCCAAACAGGCGCT
GGAGGCCTGGCCACCGCAGAATGCGATCAGTCTGATTACCTGGATGGAGGTGATGGTTGGCGCTAAAAAATATCACCAGG
AGCAGCGCACGCGAATGGCGCTAAGCACCTTTAATATCATTAACATCTCACAGGATATTGCAGAGCGAAGCGTTGCGCTG
CGGCAGGAGTATAAGCTTAAGCTGCCGGATGCCATCATTCTGGCGACGGCGCAACTCCATCGTCTGGAACTGATTACGCG
GAATACGAAGGATTTTGCCGGTATTCCTGGCGTAGTCACGCCGTACGAACTACACCCTGAATAA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8722.81 Da
• Isoelectric Point: 4.4692

>AT217472 WP_021312767.1 NZ_CP083829:c34291-34061 [Enterobacter kobei]
MRTVSIFKNGNNRAIRLPRDLDFEGVSELEIVREGDSIILRPVRPTWGSFAQLEKADPDFMAEREDVVSDEGRFNL

Nucleotide

• Length: 231 bp

>AT217472 NZ_CP114316:c5488644-5488402 [Klebsiella variicola]
ATGATGGCTGAAAGGGATATGGGCAGAATTCTTCTCGATTTATCAGACGATGTCATTCAACGTCTCGATGACCTCAAAGT
GCAGCGTAACATTCCGCGAGCGGAACTGTTACGTGAAGCGGTTGAACAATATCTGGAGAAACAAGATCGAGCTAAAGATA
CCATCTCCAGTGCGCTGGGTCTGTGGCAAGACTGCGAAGAAGACGGCATGGAATATCAACGTCAGCTACGCAAGGAGTGG
TAA

Structures

Antitoxin

• AlphaFold DB: A0A5P6KGW8