Detailed information of TA system TA059240

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): yefM-yoeB (relBE)/YoeB-RelB
• Location: 1932898..1933418
• Replicon: chromosome
• Accession: NZ_CP013737
• Organism: Herbaspirillum rubrisubalbicans M1

Toxin (Protein)

• Gene name: yoeB
• Uniprot ID: -
• Locus tag: HRUBRI_RS08430
• Protein ID: WP_058895029.1
• Coordinates: 1933149..1933418 (+)
• Length: 90 a.a.

Antitoxin (Protein)

• Gene name: yefM
• Uniprot ID: A0A0U3KYN9
• Locus tag: HRUBRI_RS08425
• Protein ID: WP_017450694.1
• Coordinates: 1932898..1933152 (+)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
HRUBRI_RS08390	1928699..1929505	+	807	WP_058895024.1	alpha/beta hydrolase	-
HRUBRI_RS08395	1929565..1929759	-	195	WP_058895025.1	hypothetical protein	-
HRUBRI_RS08400	1929915..1930274	+	360	WP_058895026.1	hypothetical protein	-
HRUBRI_RS08415	1930724..1931554	-	831	WP_026051934.1	spermidine synthase	-
HRUBRI_RS25110	1931558..1931785	+	228	WP_164471173.1	hypothetical protein	-
HRUBRI_RS08420	1931737..1932552	+	816	WP_058895028.1	MetQ/NlpA family ABC transporter substrate-binding protein	-
HRUBRI_RS24775	1932606..1932836	-	231	WP_156425817.1	hypothetical protein	-
HRUBRI_RS08425	1932898..1933152	+	255	WP_017450694.1	type II toxin-antitoxin system prevent-host-death family antitoxin	Antitoxin
HRUBRI_RS08430	1933149..1933418	+	270	WP_058895029.1	Txe/YoeB family addiction module toxin	Toxin
HRUBRI_RS08435	1933434..1933934	-	501	WP_058895030.1	DNA-deoxyinosine glycosylase	-
HRUBRI_RS08440	1934143..1934892	+	750	WP_058895031.1	SDR family oxidoreductase	-
HRUBRI_RS08445	1934931..1935422	+	492	WP_197416677.1	DUF962 domain-containing protein	-
HRUBRI_RS08450	1935586..1936038	+	453	WP_058895032.1	hypothetical protein	-
HRUBRI_RS08455	1936137..1936664	-	528	WP_058897526.1	FUSC family protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)

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

• Toxin YoeB (9-88)

Antitoxin

• Type II toxin-antitoxin system, antitoxin Phd/YefM (1-74)

Sequences

Toxin

Protein

• Length: 90 a.a.
• Molecular weight: 10529.88 Da
• Isoelectric Point: 9.4582

>T59240 WP_058895029.1 NZ_CP013737:1933149-1933418 [Herbaspirillum rubrisubalbicans M1]
MTASRNIMFTAAAWDDYQYWQTQDRKTLKRINQLIREAQRTPFDGIGKPEPLKANLSGFWSRRIGDVNRLVYEATDTQLN
IVSCRYHYE

Nucleotide

• Length: 270 bp

>T59240 NZ_CP013737:1933149-1933418 [Herbaspirillum rubrisubalbicans M1]
ATGACGGCAAGCCGCAATATCATGTTCACCGCTGCAGCGTGGGACGACTATCAGTATTGGCAAACGCAGGATCGCAAGAC
CCTCAAGCGTATCAATCAATTGATTCGGGAGGCGCAGCGCACTCCCTTCGACGGTATCGGTAAGCCAGAACCTCTGAAGG
CGAATCTTTCCGGCTTCTGGTCACGTCGAATTGGTGATGTGAATCGTCTCGTATATGAAGCAACGGACACTCAGCTCAAT
ATCGTGTCTTGCCGATATCATTACGAATAG

Antitoxin

Protein

• Length: 85 a.a.
• Molecular weight: 9461.90 Da
• Isoelectric Point: 7.3193

>AT59240 WP_017450694.1 NZ_CP013737:1932898-1933152 [Herbaspirillum rubrisubalbicans M1]
MRTVHFTDARSNLKSVIDRVVEDADVTLITRRDAPNAVLMSQDYFDSLMETVHLLRSPANVAHLEKSIAQLRAGKLKEKM
LGEP

Nucleotide

• Length: 255 bp

>AT59240 NZ_CP013737:1932898-1933152 [Herbaspirillum rubrisubalbicans M1]
ATGCGAACCGTCCACTTTACTGATGCCCGCAGCAATCTCAAGAGCGTGATCGACCGCGTCGTCGAAGATGCAGATGTGAC
CCTGATTACCCGACGTGATGCGCCCAATGCGGTGTTAATGTCTCAGGATTACTTCGATAGCCTGATGGAGACCGTTCATC
TTCTGCGCTCACCCGCCAACGTCGCGCATCTGGAAAAATCGATAGCCCAATTGCGCGCTGGCAAGCTTAAAGAGAAGATG
CTCGGCGAGCCATGA

Structures

Antitoxin

• AlphaFold DB: A0A0U3KYN9