Detailed information of TA system TA240908

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 281645..282315
• Replicon: plasmid pB-8919_OXA-48
• Accession: NZ_CP094992
• Organism: Klebsiella pneumoniae strain SCPM-O-B-8919 (12PKP/19c)

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: Q6U619
• Locus tag: KF986_RS27610
• Protein ID: WP_004213072.1
• Coordinates: 281645..282088 (-)
• Length: 148 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: Q6U620
• Locus tag: KF986_RS27615
• Protein ID: WP_004213073.1
• Coordinates: 282085..282315 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
KF986_RS27580 (KF986_027580)	277481..277884	+	404	Protein_317	GAF domain-containing protein	-
KF986_RS27585 (KF986_027585)	278402..278757	-	356	Protein_318	mucoid phenotype regulator RmpA2	-
KF986_RS27590 (KF986_027590)	278987..280183	+	1197	WP_249012456.1	IS110-like element ISEc20 family transposase	-
KF986_RS27595 (KF986_027595)	280217..280501	-	285	Protein_320	mucoid phenotype regulator RmpA2	-
KF986_RS27600 (KF986_027600)	280918..281222	+	305	Protein_321	transposase	-
KF986_RS27605 (KF986_027605)	281245..281496	-	252	WP_186987481.1	hypothetical protein	-
KF986_RS27610 (KF986_027610)	281645..282088	-	444	WP_004213072.1	type II toxin-antitoxin system VapC family toxin	Toxin
KF986_RS27615 (KF986_027615)	282085..282315	-	231	WP_004213073.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
KF986_RS27620 (KF986_027620)	282923..284056	+	1134	WP_004213075.1	DUF3800 domain-containing protein	-
KF986_RS27625 (KF986_027625)	284072..284365	+	294	WP_004213076.1	hypothetical protein	-
KF986_RS27630 (KF986_027630)	284355..284561	-	207	WP_004213077.1	hypothetical protein	-
KF986_RS27635 (KF986_027635)	284913..285203	+	291	WP_004213078.1	hypothetical protein	-
KF986_RS27640 (KF986_027640)	285193..286092	+	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	blaOXA-48 / catA1 / blaOXA-1 / aac(6')-Ib-cr / blaTEM-1B / qnrS1 / blaCTX-M-15 / ant(2'')-Ia / ant(3'')-Ia / qacE / sul1	iucA / iucB / iucC / iucD / iutA / rmpA2	1..326663	326663
	-	flank	IS/Tn	-	-	278987..280183	1196

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

>T240908 WP_004213072.1 NZ_CP094992:c282088-281645 [Klebsiella pneumoniae]
MKKTWMLDTNICSFIMREQPAAVLKRLEQAVLRGDRIVVSAVTYAEMRFGATGPKASPRHIQLVDAFCARLDAILPWDRA
AVDATTDIRVALRLAGTPIGPNDTAIAGHAIAAGAVLVTNNVREFERVPGLVLEDWVKKAALCRVIS

Nucleotide

• Length: 444 bp

>T240908 NZ_LT853886:c11531-11238 [Xanthomonas fragariae]
GTGCTCGTTCTTGAGTGGCGCGAGACAGCCCGCGCCGATCTGCTGGCGATTGTCGATTACATATCCGACGACAACCCGGA
TGCAGCGCAGCGGTTGAAAGATGACATCGAGGCCAAGGCCTCGATGCTGCCTGAGCGCCCGAAGCTGTATCGGCCTGGTC
GCGTCGCCGGCACTCGGGAAATGGTCGTCCGATCGAACTACGTGGTGGTGTACGCGGAAGACGCGCGCGCCGTTTCCATC
CTGCGGGTGCTGCATGCGGCCCAACAGTGGCCGCCAGTGACCGGGGTTGAGTGA

Antitoxin

Protein

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

>AT240908 WP_004213073.1 NZ_CP094992:c282315-282085 [Klebsiella pneumoniae]
MRTVSIFKNGNNRAIRLPRDLDFDGVSELEIVREGDSIILRPVRPTWGSFAQLDRAAPDFMAEREDVVSDEGRFEP

Nucleotide

• Length: 231 bp

>AT240908 NZ_LT853886:c11817-11518 [Xanthomonas fragariae]
ATGGCTGCTCACACCTCGATGCTGCATATCCGCGTCGATGACGCTCTAAAGGCACAGGCTGCCGAGACGCTCGCCAATGT
CGGCCTGACGGTCTCGGATGCTGTGCGCATCCTGCTGACCCGCGTCGCCAAGGAAGGCGGGTTGCCAGCCGGCCTGACGG
CCGATCCAGAGGCCCACGACGCCTGGTTCCGGGGCAAGGTGCAAGAGGCCCTGGCCGACACGCGGCCGGCGGTGCCGCAT
CGCCAGGTGATGGATGAGGCGCAAGCCCTGATCGACCGGAAACGCCGTGCTCGTTCTTGA

Structures

Toxin

• AlphaFold DB: Q6U619

Antitoxin

• AlphaFold DB: Q6U620