Detailed information of TA system TA048556

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 5280431..5281074
• Replicon: chromosome
• Accession: NZ_CP009208
• Organism: Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: A4GZE5
• Locus tag: VK055_RS25850
• Protein ID: WP_015874977.1
• Coordinates: 5280431..5280847 (-)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: A4GZE4
• Locus tag: VK055_RS25855
• Protein ID: WP_015874976.1
• Coordinates: 5280844..5281074 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
VK055_RS25835	5275834..5276949	-	1116	WP_032447702.1	salmochelin biosynthesis C-glycosyltransferase IroB	-
VK055_RS25840	5277821..5279995	+	2175	WP_015874979.1	siderophore salmochelin receptor IroN	-
VK055_RS25845	5280150..5280395	-	246	WP_032447699.1	hypothetical protein	-
VK055_RS25850	5280431..5280847	-	417	WP_015874977.1	type II toxin-antitoxin system VapC family toxin	Toxin
VK055_RS25855	5280844..5281074	-	231	WP_015874976.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
VK055_RS25860	5281517..5281897	+	381	WP_015874975.1	YrzE family protein	-
VK055_RS25865	5282034..5282987	+	954	Protein_4961	IS21 family transposase	-
VK055_RS25870	5283082..5283808	+	727	Protein_4962	IS21-like element IS100kyp family helper ATPase IstB	-
VK055_RS25875	5283852..5283965	-	114	WP_015874970.1	hypothetical protein	-
VK055_RS27610	5284208..5284417	-	210	WP_038433206.1	TraR/DksA family transcriptional regulator	-
VK055_RS25885	5284407..5284988	-	582	WP_000937857.1	DUF2857 domain-containing protein	-
VK055_RS27615	5284973..5285155	-	183	WP_071882703.1	hypothetical protein	-
VK055_RS25890	5285177..5285362	-	186	WP_000205185.1	AlpA family transcriptional regulator	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Genomic island	-	rmpA / iroD / iroC / iroB / iroN	5242165..5286428	44263

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: 14945.39 Da
• Isoelectric Point: 8.5464

>T48556 WP_015874977.1 NZ_CP009208:c5280847-5280431 [Klebsiella pneumoniae subsp. pneumoniae]
MKKTWMLDTNICSFIMREQPAAVLKRLEQAGLRGDRIVVSAVTYAEMRFGATGPKASPHHIQLVDAFCARLDAILPWDRA
AVDATTDIRVALRLAGTPIGPNDTAIAGHAIAAGAVLVTNNVREFARVPGLVLEDWVK

Nucleotide

• Length: 417 bp

>T48556 NZ_CP009208:c5280847-5280431 [Klebsiella pneumoniae subsp. pneumoniae]
ATGAAGAAAACCTGGATGCTCGACACTAACATCTGCTCGTTCATCATGCGCGAGCAGCCGGCAGCGGTGCTGAAGCGCCT
GGAGCAGGCGGGGCTGCGCGGTGATCGCATCGTGGTCTCGGCCGTGACGTATGCCGAGATGCGCTTCGGCGCCACCGGCC
CGAAGGCCTCGCCGCACCATATTCAGCTGGTCGACGCGTTCTGCGCGCGCCTCGATGCCATCCTGCCCTGGGACCGGGCC
GCGGTGGACGCCACGACGGACATCCGGGTGGCGCTGCGCCTCGCCGGGACGCCGATCGGCCCGAACGACACGGCCATTGC
CGGCCACGCCATCGCGGCGGGCGCCGTCCTGGTGACGAACAATGTGAGAGAGTTTGCGCGGGTACCGGGCCTGGTGCTGG
AAGACTGGGTAAAATAA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8749.80 Da
• Isoelectric Point: 4.3533

>AT48556 WP_015874976.1 NZ_CP009208:c5281074-5280844 [Klebsiella pneumoniae subsp. pneumoniae]
MRTVSIFKNGNNRAIRLPRDLDFDGVSELEIVREGDSIILRPVRPTWGSFAQLDRADPDFMVEREDVVSDEGRFEP

Nucleotide

• Length: 231 bp

>AT48556 NZ_CP009208:c5281074-5280844 [Klebsiella pneumoniae subsp. pneumoniae]
ATGCGCACAGTTTCGATATTTAAAAACGGCAATAACCGCGCCATCCGTCTGCCCCGGGACCTGGATTTTGACGGCGTCAG
CGAGCTGGAGATCGTCCGGGAAGGGGACAGCATCATTCTGCGTCCCGTCCGGCCGACCTGGGGCTCGTTCGCGCAGCTGG
ACAGGGCCGATCCGGACTTTATGGTGGAGCGTGAGGATGTGGTCAGCGATGAAGGACGCTTTGAGCCATGA

Structures

Toxin

• AlphaFold DB: A4GZE5

Antitoxin

• AlphaFold DB: A4GZE4