Detailed information of TA system TA228345

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 54795..55438
• Replicon: plasmid pHNGS471-1
• Accession: NZ_CP089510
• Organism: Klebsiella pneumoniae strain GD21SC417

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: -
• Locus tag: LT986_RS26005
• Protein ID: WP_016236302.1
• Coordinates: 55022..55438 (+)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: D5KTK7
• Locus tag: LT986_RS26000
• Protein ID: WP_001261282.1
• Coordinates: 54795..55025 (+)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LT986_RS25970 (LT986_25960)	49804..50979	+	1176	Protein_48	IS3 family transposase	-
LT986_RS25975 (LT986_25965)	51361..52146	-	786	WP_050485696.1	site-specific integrase	-
LT986_RS25980 (LT986_25970)	52192..52713	-	522	WP_032448294.1	hypothetical protein	-
LT986_RS25985 (LT986_25975)	52771..53163	-	393	WP_074422814.1	hypothetical protein	-
LT986_RS25990 (LT986_25980)	53272..54216	-	945	WP_032448293.1	hypothetical protein	-
LT986_RS25995 (LT986_25985)	54416..54838	-	423	WP_050485703.1	hypothetical protein	-
LT986_RS26000 (LT986_25990)	54795..55025	+	231	WP_001261282.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
LT986_RS26005 (LT986_25995)	55022..55438	+	417	WP_016236302.1	type II toxin-antitoxin system VapC family toxin	Toxin
LT986_RS26010 (LT986_26000)	55512..57074	+	1563	WP_004206609.1	AAA family ATPase	-
LT986_RS26015 (LT986_26005)	57059..58081	+	1023	WP_000361404.1	helicase UvrD	-
LT986_RS26020 (LT986_26010)	58625..59533	+	909	WP_032411229.1	HNH endonuclease	-
LT986_RS26025 (LT986_26015)	59719..60069	-	351	WP_004187110.1	DUF305 domain-containing protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	tet(A) / aph(3')-Ia / dfrA12 / aadA2 / cmlA1 / ant(3'')-Ia / sul3 / mef(B)	iutA / iucD / iucC / iucB / iucA	1..239834	239834

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 (5-129)

Antitoxin

• SpoVT-AbrB domain (7-47)

Sequences

Toxin

Protein

• Length: 139 a.a.
• Molecular weight: 15091.55 Da
• Isoelectric Point: 7.1084

>T228345 WP_016236302.1 NZ_CP089510:55022-55438 [Klebsiella pneumoniae]
VNKTYMLDTCICSFIMREQPEAVLKRLELAVLRGQRIVVSAITYSEMRFGATGPKASPRHVELVDAFCARLDAILPWDRA
AVDATTEIKVALRMAGTPIGPNDTAIAGHAIAAGAVLVTNNTREFERVPGLVLEDWVR

Nucleotide

• Length: 417 bp

>T228345 NZ_CP123843:c1708319-1708050 [Agrobacterium fabrum]
ATGAAGCTCGTCTGGACGCTGAGTTCATGGGACGATTATGAGTTCTGGCAAAGAACCGATGCTCGCATGGTCGAGAAAAT
AAACGACCTTATCCGAAATGCCAAACGCACGCCCTTTGCAGGGCTTGGGAAACCGGAGCCTCTGAAAGGCGATATGGCAG
GATATTGGTCTCGGCGGATTACCGCCGAGCATCGGTTTGTCTACCGTGTATCCGGGTCCGGAAGCGAGCAACGGCTGGAA
ATCATCCAGTGCCGCTTTCACTACCTGTAA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8756.83 Da
• Isoelectric Point: 4.4692

>AT228345 WP_001261282.1 NZ_CP089510:54795-55025 [Klebsiella pneumoniae]
MRTVSIFKNGNNRAIRLPRDLDFEGVSELEIVREGDSIILRPVRPTWGSFAQFEKADPDFMAEREDVVSDEGRFNL

Nucleotide

• Length: 231 bp

>AT228345 NZ_CP123843:c1708570-1708316 [Agrobacterium fabrum]
ATGGCGAATGTGCGATTCACCGAGTTCCGGCAGAACTTCGCGACCCATTTCGACCGGGTTCTGGAAACCCGCGCGCCATT
GCTCGTCACGCGGCAGGGTAAAGAGGCGGTCGTGGTGCTCGCCGAAGGGGAATATGAGAGCATGCAGGAAACGCTGCATC
TCCTGTCCAACCCGGCAAATGCCTCACGGCTTCGCGCGTCCATGGACGAACTTGAGCGCGATGATACCATAGAGCGGGAT
CCGACCGAAAAATGA

Structures

Antitoxin

• AlphaFold DB: A0A0H3GZG3