Detailed information of TA system TA025067

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): higBA (relBE)/HigB-HigA
• Location: 5666853..5667516
• Replicon: chromosome
• Accession: NC_014931
• Organism: Variovorax paradoxus EPS

Toxin (Protein)

• Gene name: graT
• Uniprot ID: E6V5B0
• Locus tag: VARPA_RS25975
• Protein ID: WP_013543569.1
• Coordinates: 5666853..5667122 (+)
• Length: 90 a.a.

Antitoxin (Protein)

• Gene name: higA
• Uniprot ID: -
• Locus tag: VARPA_RS25980
• Protein ID: WP_013543570.1
• Coordinates: 5667163..5667516 (+)
• Length: 118 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
VARPA_RS25950	5661963..5662799	-	837	WP_013543564.1	cytidylate kinase family protein	-
VARPA_RS25955	5662825..5664357	-	1533	WP_013543565.1	tripartite tricarboxylate transporter permease	-
VARPA_RS25960	5664377..5664898	-	522	WP_013543566.1	tripartite tricarboxylate transporter TctB family protein	-
VARPA_RS25965	5665224..5666249	-	1026	WP_049794557.1	tripartite tricarboxylate transporter substrate binding protein	-
VARPA_RS25975	5666853..5667122	+	270	WP_013543569.1	type II toxin-antitoxin system RelE/ParE family toxin	Toxin
VARPA_RS25980	5667163..5667516	+	354	WP_013543570.1	HigA family addiction module antidote protein	Antitoxin
VARPA_RS25985	5667667..5668005	+	339	WP_013543571.1	hypothetical protein	-
VARPA_RS25990	5668175..5668381	-	207	WP_013543572.1	hypothetical protein	-
VARPA_RS25995	5668496..5669017	-	522	WP_013543573.1	hypothetical protein	-
VARPA_RS26000	5669209..5669649	-	441	WP_013543574.1	helix-turn-helix transcriptional regulator	-
VARPA_RS26005	5669725..5670150	+	426	WP_013543575.1	nuclear transport factor 2 family protein	-
VARPA_RS26010	5670293..5670664	+	372	WP_013543576.1	hypothetical protein	-
VARPA_RS26015	5671144..5671890	-	747	WP_013543577.1	1-acyl-sn-glycerol-3-phosphate acyltransferase	-

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 HigB-1 (1-89)

Antitoxin

• Cro/C1-type helix-turn-helix domain (18-65)

Sequences

Toxin

Protein

• Length: 90 a.a.
• Molecular weight: 10270.76 Da
• Isoelectric Point: 7.1637

>T25067 WP_013543569.1 NC_014931:5666853-5667122 [Variovorax paradoxus EPS]
MAIQSFSCPDTEQLFVTGKSARFANIKDVAARKLTQLDAAPSLVFMKMPPGNDLKFYEDAWHIRINQQWRLIFKWSDAGP
YDVRIDDPH

Nucleotide

• Length: 270 bp

>T25067 NC_014931:5666853-5667122 [Variovorax paradoxus EPS]
ATGGCAATTCAATCCTTCTCTTGCCCCGACACCGAACAGCTGTTCGTCACTGGCAAGAGCGCTCGGTTCGCCAATATCAA
GGATGTTGCGGCGCGAAAGCTGACACAGCTGGATGCAGCGCCATCACTGGTATTCATGAAGATGCCGCCCGGAAACGACT
TGAAGTTCTATGAAGATGCCTGGCACATCAGGATCAACCAACAGTGGCGGCTGATCTTCAAGTGGAGTGATGCGGGTCCA
TATGACGTGAGGATTGATGACCCGCACTGA

Antitoxin

Protein

• Length: 118 a.a.
• Molecular weight: 12722.72 Da
• Isoelectric Point: 9.9116

>AT25067 WP_013543570.1 NC_014931:5667163-5667516 [Variovorax paradoxus EPS]
MFKNGMRPVHPGEVLREDYLKPLGMTANALAKALHVPASRINDIVLERRGISPDTALRLTRYFGGEEADAVGWVNMQATY
DFKIAQKAVGKAIAKEVNPRAGLAAAMVNDERFALGA

Nucleotide

• Length: 354 bp

>AT25067 NC_014931:5667163-5667516 [Variovorax paradoxus EPS]
ATGTTTAAAAATGGAATGCGCCCGGTTCACCCGGGTGAAGTCCTCCGCGAGGACTATCTAAAACCTCTTGGCATGACTGC
CAATGCGCTGGCGAAGGCGCTGCATGTGCCGGCATCCCGCATCAATGACATCGTGCTCGAACGCCGAGGCATCTCGCCGG
ACACCGCGCTCCGCCTGACCCGCTACTTCGGCGGCGAAGAGGCCGACGCGGTGGGCTGGGTCAATATGCAAGCGACCTAC
GATTTCAAGATCGCGCAAAAGGCCGTCGGCAAAGCGATCGCAAAGGAAGTGAATCCGCGCGCGGGTCTTGCGGCGGCCAT
GGTTAATGACGAGCGTTTTGCCCTGGGCGCGTGA

Structures

Toxin

• AlphaFold DB: E6V5B0