Detailed information of TA system TA124092

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 173589..174259
• Replicon: plasmid pHB25-1-vir
• Accession: NZ_CP039526
• Organism: Klebsiella pneumoniae subsp. pneumoniae strain HB25-1

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: Q6U619
• Locus tag: E8Q43_RS28855
• Protein ID: WP_004213072.1
• Coordinates: 173589..174032 (-)
• Length: 148 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: Q6U620
• Locus tag: E8Q43_RS28860
• Protein ID: WP_004213073.1
• Coordinates: 174029..174259 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
E8Q43_RS28820	169001..169276	+	276	WP_004213932.1	carboxymuconolactone decarboxylase family protein	-
E8Q43_RS28825	169339..169830	+	492	WP_011251327.1	DM13 domain-containing protein	-
E8Q43_RS28830	169879..170799	+	921	WP_004213934.1	DUF1471 domain-containing protein	-
E8Q43_RS28835	170890..171296	+	407	Protein_178	GAF domain-containing protein	-
E8Q43_RS28840	171810..172445	-	636	WP_165452888.1	response regulator	-
E8Q43_RS28845	172862..173155	+	294	Protein_180	transposase	-
E8Q43_RS28850	173159..173575	+	417	Protein_181	restriction endonuclease	-
E8Q43_RS28855	173589..174032	-	444	WP_004213072.1	type II toxin-antitoxin system VapC family toxin	Toxin
E8Q43_RS28860	174029..174259	-	231	WP_004213073.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
E8Q43_RS28865	174867..176000	+	1134	WP_004213075.1	DUF3800 domain-containing protein	-
E8Q43_RS28870	176016..176309	+	294	WP_004213076.1	hypothetical protein	-
E8Q43_RS28875	176299..176505	-	207	WP_004213077.1	hypothetical protein	-
E8Q43_RS28880	176857..177147	+	291	WP_004213078.1	hypothetical protein	-
E8Q43_RS28885	177137..178036	+	900	WP_004225022.1	nucleotide-binding protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	mph(E) / msr(E) / armA / sul1 / blaDHA-1 / qnrB4 / blaTEM-1B / aac(3)-IId / qacE / aadA2 / dfrA12 / blaSHV-187 / catA1	iucA / iucB / iucC / iucD / iutA / rmpA	1..396373	396373

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 (6-129)

Antitoxin

• SpoVT-AbrB domain (7-47)

Sequences

Toxin

Protein

• Length: 148 a.a.
• Molecular weight: 16006.74 Da
• Isoelectric Point: 9.3642

>T124092 WP_004213072.1 NZ_CP039526:c174032-173589 [Klebsiella pneumoniae subsp. pneumoniae]
MKKTWMLDTNICSFIMREQPAAVLKRLEQAVLRGDRIVVSAVTYAEMRFGATGPKASPRHIQLVDAFCARLDAILPWDRA
AVDATTDIRVALRLAGTPIGPNDTAIAGHAIAAGAVLVTNNVREFERVPGLVLEDWVKKAALCRVIS

Nucleotide

• Length: 444 bp

>T124092 NZ_CP039526:c174032-173589 [Klebsiella pneumoniae subsp. pneumoniae]
ATGAAGAAAACCTGGATGCTCGACACTAACATCTGCTCGTTCATCATGCGCGAGCAGCCGGCAGCGGTGCTGAAGCGCCT
GGAACAGGCGGTGCTGCGCGGTGATCGCATCGTGGTCTCGGCCGTGACGTATGCCGAGATGCGCTTCGGCGCCACCGGCC
CGAAGGCCTCGCCGCGCCATATTCAGCTGGTCGACGCGTTCTGCGCGCGCCTCGATGCCATCCTGCCCTGGGACCGGGCC
GCGGTGGACGCCACGACGGACATCCGGGTGGCGCTGCGCCTCGCCGGGACGCCGATCGGCCCGAACGACACGGCCATTGC
TGGGCACGCTATCGCGGCCGGCGCCGTCCTAGTGACGAACAATGTGAGAGAGTTTGAGCGGGTGCCGGGTCTGGTGCTGG
AAGACTGGGTGAAGAAAGCCGCTCTCTGCAGGGTAATTTCTTGA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8677.73 Da
• Isoelectric Point: 4.4563

>AT124092 WP_004213073.1 NZ_CP039526:c174259-174029 [Klebsiella pneumoniae subsp. pneumoniae]
MRTVSIFKNGNNRAIRLPRDLDFDGVSELEIVREGDSIILRPVRPTWGSFAQLDRAAPDFMAEREDVVSDEGRFEP

Nucleotide

• Length: 231 bp

>AT124092 NZ_CP039526:c174259-174029 [Klebsiella pneumoniae subsp. pneumoniae]
ATGCGCACAGTTTCGATATTTAAAAACGGCAATAACCGCGCCATCCGTCTGCCCCGGGACCTGGATTTTGACGGCGTCAG
CGAGCTGGAGATCGTCCGGGAAGGGGACAGCATCATTCTGCGTCCCGTCCGGCCGACCTGGGGCTCGTTCGCGCAGCTGG
ACAGGGCCGCTCCGGACTTTATGGCGGAGCGTGAGGATGTGGTCAGCGATGAAGGACGCTTTGAGCCATGA

Structures

Toxin

• AlphaFold DB: Q6U619

Antitoxin

• AlphaFold DB: Q6U620