Detailed information of TA system TA172469

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 125654..126324
• Replicon: plasmid pKpVP
• Accession: NZ_CP061351
• Organism: Klebsiella pneumoniae strain ENT1988

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: Q6U619
• Locus tag: ICN80_RS25895
• Protein ID: WP_004213072.1
• Coordinates: 125654..126097 (-)
• Length: 148 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: Q6U620
• Locus tag: ICN80_RS25900
• Protein ID: WP_004213073.1
• Coordinates: 126094..126324 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
ICN80_RS25860	121062..121337	+	276	WP_004213932.1	carboxymuconolactone decarboxylase family protein	-
ICN80_RS25865	121400..121891	+	492	WP_011251327.1	DM13 domain-containing protein	-
ICN80_RS25870	121940..122860	+	921	WP_004213934.1	DUF1471 domain-containing protein	-
ICN80_RS25875	122951..123357	+	407	Protein_126	GAF domain-containing protein	-
ICN80_RS25880	123871..124510	-	640	Protein_127	response regulator	-
ICN80_RS25885	124927..125220	+	294	Protein_128	transposase	-
ICN80_RS25890	125224..125640	+	417	Protein_129	restriction endonuclease	-
ICN80_RS25895	125654..126097	-	444	WP_004213072.1	type II toxin-antitoxin system VapC family toxin	Toxin
ICN80_RS25900	126094..126324	-	231	WP_004213073.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
ICN80_RS25905	126932..128065	+	1134	WP_004213075.1	DUF3800 domain-containing protein	-
ICN80_RS25910	128081..128374	+	294	WP_004213076.1	hypothetical protein	-
ICN80_RS25915	128364..128570	-	207	WP_004213077.1	hypothetical protein	-
ICN80_RS25920	128922..129212	+	291	WP_004213078.1	hypothetical protein	-
ICN80_RS25925	129303..130271	-	969	WP_011154535.1	IS5 family transposase	-
ICN80_RS25930	130312..131166	+	855	WP_023302792.1	nucleotide-binding protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Mobilizable plasmid	-	iroN / rmpA / iucA / iucB / iucC / iucD / iutA / rmpA2	1..200067	200067
	-	flank	IS/Tn	-	-	129303..130271	968

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

>T172469 WP_004213072.1 NZ_CP061351:c126097-125654 [Klebsiella pneumoniae]
MKKTWMLDTNICSFIMREQPAAVLKRLEQAVLRGDRIVVSAVTYAEMRFGATGPKASPRHIQLVDAFCARLDAILPWDRA
AVDATTDIRVALRLAGTPIGPNDTAIAGHAIAAGAVLVTNNVREFERVPGLVLEDWVKKAALCRVIS

Nucleotide

• Length: 444 bp

>T172469 NZ_CP079767:c2796291-2796004 [Escherichia coli]
ATGCCAATGGAGTTTGAATGGGATGCAAACAAGGCCAAAAGTAATCGGGTGAAACATGGCATCCGCTTTGAAGATGCGGT
GTTGGTGTTTGATGATCCACAACATTTGTCACAGCAAGATCGCATAGAAAACGGTGAGTATCGCTGGCAGACTATCGGCG
TGGTTCACGGTATCGTGGTTATTCTGGTTGCGCATACCATCCGTTTCGAAAGCGGAAATGAAATTATTCGAATCATCAGT
GCACGAAAAGCAGATCGTAAAGAGAGGAGTCGCTATGAGCATGGTTAA

Antitoxin

Protein

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

>AT172469 WP_004213073.1 NZ_CP061351:c126324-126094 [Klebsiella pneumoniae]
MRTVSIFKNGNNRAIRLPRDLDFDGVSELEIVREGDSIILRPVRPTWGSFAQLDRAAPDFMAEREDVVSDEGRFEP

Nucleotide

• Length: 231 bp

>AT172469 NZ_CP079767:c2796017-2795715 [Escherichia coli]
ATGAGCATGGTTAAACATAAACGAGGGACCTCCTCTACACTCGATGTGCAGCATGAGGCCGAATTGAAGGCGCTGGCGAA
TAAATCCGACGAAGAGATTGATTACAGCGATATCCCACCTTCCAGCGATGAGCAATGGTCTAACGCAGAACGCGGTAAGT
TTTATCGGCCATTGAAAACCCAGGCTTCGGTGCGTATTGATGCTGATGTGATGGAATGGCTGAAGCGACCTGGTAAAGGC
TATCAAACTCGCCTGAACGCAATTTTACGTGAAGCGATGCTGCGCGATCAGAACAAAAAATAA

Structures

Toxin

• AlphaFold DB: Q6U619

Antitoxin

• AlphaFold DB: Q6U620