Detailed information of TA system TA238812

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 5963..6606
• Replicon: plasmid pVA04-58
• Accession: NZ_CP093503
• Organism: Klebsiella pneumoniae strain VA04

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: Q84A06
• Locus tag: MO409_RS27910
• Protein ID: WP_000754566.1
• Coordinates: 5963..6379 (-)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: Q84A07
• Locus tag: MO409_RS27915
• Protein ID: WP_001261276.1
• Coordinates: 6376..6606 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
MO409_RS27885 (MO409_27865)	2998..3333	+	336	Protein_1	Tn3 family transposase	-
MO409_RS27890 (MO409_27870)	3470..3967	-	498	WP_032446861.1	hypothetical protein	-
MO409_RS27895 (MO409_27875)	3976..4398	-	423	WP_032446862.1	hypothetical protein	-
MO409_RS27900 (MO409_27880)	4421..4621	-	201	Protein_4	transposase	-
MO409_RS27905 (MO409_27885)	4903..5759	-	857	Protein_5	IS3-like element ISEc15 family transposase	-
MO409_RS27910 (MO409_27890)	5963..6379	-	417	WP_000754566.1	type II toxin-antitoxin system VapC family toxin	Toxin
MO409_RS27915 (MO409_27895)	6376..6606	-	231	WP_001261276.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
MO409_RS27920 (MO409_27900)	7180..7530	+	351	WP_000493378.1	hypothetical protein	-
MO409_RS27925 (MO409_27905)	7581..8324	+	744	WP_000129823.1	hypothetical protein	-
MO409_RS27930 (MO409_27910)	8321..9097	+	777	WP_000015958.1	site-specific integrase	-
MO409_RS27935 (MO409_27915)	9155..9412	-	258	WP_000764642.1	hypothetical protein	-
MO409_RS27940 (MO409_27920)	9541..9645	-	105	WP_032409716.1	hypothetical protein	-
MO409_RS27945 (MO409_27925)	10175..11041	+	867	WP_004118283.1	replication initiation protein	-
MO409_RS27950 (MO409_27930)	11218..11487	-	270	WP_000339857.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Mobilizable plasmid	ARR-3 / cmlA1 / blaOXA-10 / ant(3'')-Ia / qacE / sul1 / blaCTX-M-2	-	1..57589	57589

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: 139 a.a.
• Molecular weight: 15006.52 Da
• Isoelectric Point: 9.2957

>T238812 WP_000754566.1 NZ_CP093503:c6379-5963 [Klebsiella pneumoniae]
MKKTWMLDTNICSFIMREQPAAVLKRLEQAVLRGDRIVVSAVTYAEMRFGATGPKASPRHIQLVDAFCARLDAVLPWDRA
AVDATTDIRVALRLAGTPIGPNDTAIAGHAIAAGAILVTNNVREFARVPGLVLEDWVK

Nucleotide

• Length: 417 bp

>T238812 NZ_LR890490:4233278-4233496 [Klebsiella pneumoniae]
ATGTCTGATAAGCCATTAACTAAAACAGACTATTTGATGCGCTTACGTCGTTGCCAGACAATTGACACGCTGGAGCGCGT
CATTGAAAAAAATAAATATGAACTGTCTGATAATGAGCTGGCGGTATTTTACTCAGCTGCCGACCATCGTCTGGCGGAAC
TGACCATGAATAAGCTATACGATAAAATCCCGACCTCTGTCTGGAAATTTATCCGCTAA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8721.74 Da
• Isoelectric Point: 4.3533

>AT238812 WP_001261276.1 NZ_CP093503:c6606-6376 [Klebsiella pneumoniae]
MRTVSIFKNGNNRAIRLPRDLDFDGVSELEIVREGDSIILRPVRPTWGSFAQLDRADPDFMAEREDVVSDEGRFEP

Nucleotide

• Length: 231 bp

>AT238812 NZ_LR890490:4232877-4233251 [Klebsiella pneumoniae]
ATGGACGAATACTCGCCAAAAAGACATGATATTGCACAGCTACGCTTTCTCTGCGAAACGCTGTATCATGACTGCCTTGC
AAACCTGGAAGAGAGCAACCATGGCTGGGTCAACGACCCGACGTCGGCTGTCAATCTCCAGTTAAATGAATTGATCGAGC
ACATTGCCACATTCGCTCTTAATTATAAAATTAAGTATGCAGAGGATAATAAGCTGATCGCTCAGGTTGACGAATATCTG
GACGACACTTTTACGTTGTTCAGTAACTACGGCATTAACTCTACGGATTTGCAAAAGTGGAAAAAATCCGGTAACCGACT
ATTTCGTTGCTTTGTCAACGCCAGCCGTGAAAACCCGGCCAGTCTATCGTGTTAG

Structures

Toxin

• AlphaFold DB: A0A387K1G3

Antitoxin

• AlphaFold DB: A0A387K023