Detailed information of TA system TA056230

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): pemIK/PRK09907-MazE
• Location: 2141..2742
• Replicon: plasmid pL21533-2
• Accession: NZ_CP012277
• Organism: Pediococcus damnosus strain TMW 2.1533

Toxin (Protein)

• Gene name: pemK
• Uniprot ID: Q684P1
• Locus tag: ADU70_RS10430
• Protein ID: WP_001748110.1
• Coordinates: 2141..2485 (-)
• Length: 115 a.a.

Antitoxin (Protein)

• Gene name: pemI
• Uniprot ID: -
• Locus tag: ADU70_RS10435
• Protein ID: WP_062904615.1
• Coordinates: 2479..2742 (-)
• Length: 88 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
ADU70_RS11635	827..1384	-	558	WP_158509302.1	IS3 family transposase	-
ADU70_RS10430	2141..2485	-	345	WP_001748110.1	type II toxin-antitoxin system PemK/MazF family toxin	Toxin
ADU70_RS10435	2479..2742	-	264	WP_062904615.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
ADU70_RS10440	2828..3415	+	588	WP_062904616.1	site-specific integrase	-
ADU70_RS10445	3869..4168	+	300	Protein_4	helix-turn-helix domain-containing protein	-
ADU70_RS10450	4297..4845	+	549	WP_080945468.1	NUMOD4 motif-containing HNH endonuclease	-
ADU70_RS10455	5043..5501	+	459	WP_062904617.1	phage terminase small subunit P27 family	-
ADU70_RS11900	5515..5667	-	153	WP_155386924.1	hypothetical protein	-
ADU70_RS10460	5654..6073	-	420	WP_046870702.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	-	1..19671	19671

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

• mRNA interferase PemK-like (1-104)

Antitoxin

• SpoVT-AbrB domain (12-55)

Sequences

Toxin

Protein

• Length: 115 a.a.
• Molecular weight: 13041.89 Da
• Isoelectric Point: 6.4782

>T56230 WP_001748110.1 NZ_CP012277:c2485-2141 [Pediococcus damnosus]
MVSQGDIFYVNFNPSRGHEQMNKRPAIALSNDLVCQTSNMTIVAPISSTKRNFPMYHRLTSSQTVYGKVLLDQTIALDLR
ARHVTDETIVDHVSREELEEIITLYKLLFSIDDK

Nucleotide

• Length: 345 bp

>T56230 NZ_CP012277:c2485-2141 [Pediococcus damnosus]
ATGGTAAGCCAAGGTGATATATTTTATGTTAACTTTAATCCAAGCCGTGGTCATGAACAGATGAATAAGCGACCAGCCAT
TGCGCTAAGCAATGATCTAGTCTGTCAGACAAGTAACATGACGATTGTGGCTCCAATTAGCAGTACCAAGCGTAATTTTC
CAATGTATCATCGACTAACTAGTAGTCAAACAGTATATGGAAAAGTATTATTAGATCAAACCATAGCCTTAGATTTACGG
GCAAGACATGTCACTGATGAAACTATTGTCGATCATGTATCGCGTGAAGAACTAGAAGAAATAATCACTTTGTACAAATT
ATTGTTTAGTATTGATGACAAATAG

Antitoxin

Protein

• Length: 88 a.a.
• Molecular weight: 10113.50 Da
• Isoelectric Point: 6.4708

>AT56230 WP_062904615.1 NZ_CP012277:c2742-2479 [Pediococcus damnosus]
MELIKEQTRLAKWGNSKAARIPSQIIKQLKLDDNQDMTITIENGSIVLTPIKKNPTNIHELFKDWKDDGKKDHELDWGKS
EGNELQW

Nucleotide

• Length: 264 bp

>AT56230 NZ_CP012277:c2742-2479 [Pediococcus damnosus]
ATGGAACTTATTAAAGAACAAACACGCTTAGCAAAGTGGGGAAACTCGAAAGCTGCTAGAATTCCTAGCCAAATTATTAA
ACAACTGAAATTAGATGATAACCAAGATATGACAATAACCATTGAAAATGGATCAATTGTTTTAACACCAATAAAAAAGA
ACCCAACCAATATTCACGAACTATTTAAGGATTGGAAAGATGACGGGAAAAAGGATCACGAGCTTGATTGGGGAAAGTCA
GAAGGTAATGAACTTCAATGGTAA

Structures

Toxin

• AlphaFold DB: A0A0R2K1X3