Detailed information of TA system TA153382

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 190031..190674
• Replicon: plasmid pSCH6109-Vir
• Accession: NZ_CP050860
• Organism: Klebsiella pneumoniae strain SCH6109

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: -
• Locus tag: HC233_RS28375
• Protein ID: WP_016236302.1
• Coordinates: 190031..190447 (-)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: D5KTK7
• Locus tag: HC233_RS28380
• Protein ID: WP_001261282.1
• Coordinates: 190444..190674 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
HC233_RS28350	185399..185749	+	351	WP_004187110.1	DUF305 domain-containing protein	-
HC233_RS28355	185935..186849	-	915	WP_210428760.1	HNH endonuclease	-
HC233_RS28365	187388..188410	-	1023	WP_032439672.1	helicase UvrD	-
HC233_RS28370	188395..189957	-	1563	WP_167835987.1	AAA family ATPase	-
HC233_RS28375	190031..190447	-	417	WP_016236302.1	type II toxin-antitoxin system VapC family toxin	Toxin
HC233_RS28380	190444..190674	-	231	WP_001261282.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
HC233_RS28385	190631..191053	+	423	WP_167835988.1	hypothetical protein	-
HC233_RS28395	191253..192197	+	945	WP_032448293.1	hypothetical protein	-
HC233_RS28400	192306..192698	+	393	WP_074422814.1	hypothetical protein	-
HC233_RS28405	192756..193277	+	522	WP_032448294.1	hypothetical protein	-
HC233_RS28410	193323..194108	+	786	WP_050485696.1	site-specific integrase	-
HC233_RS28415	194490..195665	-	1176	Protein_206	IS3 family transposase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	ARR-3 / cmlA1 / blaOXA-10 / ant(3'')-Ia / dfrA14 / floR / tet(A) / aph(6)-Id / aph(3'')-Ib / sul2	vat / iucA / iucB / iucC / iucD / iutA	1..242628	242628

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

>T153382 WP_016236302.1 NZ_CP050860:c190447-190031 [Klebsiella pneumoniae]
VNKTYMLDTCICSFIMREQPEAVLKRLELAVLRGQRIVVSAITYSEMRFGATGPKASPRHVELVDAFCARLDAILPWDRA
AVDATTEIKVALRMAGTPIGPNDTAIAGHAIAAGAVLVTNNTREFERVPGLVLEDWVR

Nucleotide

• Length: 417 bp

>T153382 NZ_CP066891:c5331789-5331406 [Klebsiella pneumoniae]
ATGACCTCCGGATCTGCGCTTTTTGATACCAATATTCTTATTGATTTATTTAGCGGGCGTCGCGAAGCCAAACAGGCGCT
GGAGGCCTGGCCACCGCAGAATGCGATCAGTCTGATTACCTGGATGGAGGTGATGGTTGGCGCTAAAAAATATCACCAGG
AGCAGCGCACGCGAATGGCGCTGAGCACCTTTAATATCATTAACATCTCACAGGATATTGCAGAGCGAAGCGTTGCGCTG
CGGCAGGAGTATAAGCTTAAGCTGCCGGATGCCATCATTCTGGCGACGGCGCAACTCCATCGTCTGGAACTAATTACGCG
GAATACGAAGGATTTTGCCGGTATTCCTGGCGTAGTCACGCCGTACGAAATCCACCCTGAATAA

Antitoxin

Protein

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

>AT153382 WP_001261282.1 NZ_CP050860:c190674-190444 [Klebsiella pneumoniae]
MRTVSIFKNGNNRAIRLPRDLDFEGVSELEIVREGDSIILRPVRPTWGSFAQFEKADPDFMAEREDVVSDEGRFNL

Nucleotide

• Length: 231 bp

>AT153382 NZ_CP066891:c5332031-5331789 [Klebsiella pneumoniae]
ATGATGGCTGAAAGGGATATGGGCAGAATTCTTCTCGATTTATCAGACGATGTCATTCAACGTCTCGATGACCTCAAAGT
GCAGCGTAACATTCCGCGAGCGGAACTGTTACGTGAAGCGGTTGAACAATATCTGGAGAAACAAGATCGAGCTAAAGATA
CCATCTCCAGTGCGCTGGGTCTGTGGCAAGACTGCGAAGAAGACGGCATGGAATATCAACGTCAGCTACGCAAGGAGTGG
TAA

Structures

Antitoxin

• AlphaFold DB: A0A0H3GZG3