Detailed information of TA system TA105993

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): higBA (relBE)/HigB-HigA
• Location: 3547587..3548188
• Replicon: chromosome
• Accession: NZ_CP029603
• Organism: Bradyrhizobium diazoefficiens strain XF7

Toxin (Protein)

• Gene name: graT
• Uniprot ID: Q89QW2
• Locus tag: DI395_RS16055
• Protein ID: WP_011085796.1
• Coordinates: 3547907..3548188 (-)
• Length: 94 a.a.

Antitoxin (Protein)

• Gene name: graA
• Uniprot ID: -
• Locus tag: DI395_RS16050
• Protein ID: WP_011085795.1
• Coordinates: 3547587..3547895 (-)
• Length: 103 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
DI395_RS16035	3542833..3545421	+	2589	WP_011085792.1	MMPL family transporter	-
DI395_RS16040	3545389..3546045	-	657	WP_038965759.1	DUF2147 domain-containing protein	-
DI395_RS16045	3546187..3547578	+	1392	WP_011085794.1	aminobacteriohopanetriol synthase HpnO	-
DI395_RS16050	3547587..3547895	-	309	WP_011085795.1	HigA family addiction module antidote protein	Antitoxin
DI395_RS16055	3547907..3548188	-	282	WP_011085796.1	type II toxin-antitoxin system RelE/ParE family toxin	Toxin
DI395_RS16060	3548260..3549027	-	768	WP_011085797.1	anti-sigma factor	-
DI395_RS16065	3549024..3549572	-	549	WP_028172321.1	sigma-70 family RNA polymerase sigma factor	-
DI395_RS16070	3549700..3550035	-	336	WP_011085799.1	cupredoxin family copper-binding protein	-
DI395_RS16075	3550061..3551005	-	945	WP_011085800.1	metallophosphoesterase	-
DI395_RS16080	3551185..3552051	+	867	WP_011085801.1	helix-turn-helix transcriptional regulator	-
DI395_RS16085	3552074..3552397	-	324	WP_011085802.1	antibiotic biosynthesis monooxygenase	-
DI395_RS16090	3552443..3552805	-	363	WP_011085803.1	hypothetical 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 HigB-1 (4-93)

Antitoxin

• Cro/C1-type helix-turn-helix domain (19-67)

Sequences

Toxin

Protein

• Length: 94 a.a.
• Molecular weight: 10528.99 Da
• Isoelectric Point: 9.7579

>T105993 WP_011085796.1 NZ_CP029603:c3548188-3547907 [Bradyrhizobium diazoefficiens]
VIRTFRDKTTEAVFDGESPKGFPADLVKVARRKLRYLHAAGELGDLRAPPGNRLEALSGNRKGQHSIRINDQFRVCFIWT
PQGPVEVEIVDYH

Nucleotide

• Length: 282 bp

>T105993 NZ_CP029603:c3548188-3547907 [Bradyrhizobium diazoefficiens]
GTGATCAGAACGTTTCGGGACAAAACGACTGAGGCAGTCTTCGACGGAGAAAGTCCCAAAGGCTTTCCAGCCGATCTCGT
GAAGGTTGCACGCCGGAAACTGCGTTATCTGCACGCTGCCGGCGAGCTCGGCGATCTAAGGGCGCCGCCCGGCAACCGTC
TGGAGGCCCTGAGCGGCAATCGCAAGGGACAGCACTCGATCAGGATCAATGATCAGTTCCGAGTGTGCTTCATCTGGACA
CCGCAAGGGCCCGTCGAGGTCGAGATTGTGGACTATCACTAG

Antitoxin

Protein

• Length: 103 a.a.
• Molecular weight: 11266.07 Da
• Isoelectric Point: 9.0966

>AT105993 WP_011085795.1 NZ_CP029603:c3547895-3547587 [Bradyrhizobium diazoefficiens]
MAKKLKPMHPGEVLREEFLVPLNMSAGALAKTCGLPRTRIERIANEQTGITADTALRLAKALGTTAELWLNLQNDYDIQI
AKRDLGKALDRIETVNRPQAAE

Nucleotide

• Length: 309 bp

>AT105993 NZ_CP029603:c3547895-3547587 [Bradyrhizobium diazoefficiens]
ATGGCCAAAAAACTCAAGCCCATGCACCCCGGTGAGGTTCTACGGGAGGAGTTTCTAGTCCCACTGAACATGTCCGCTGG
CGCGCTCGCCAAGACGTGCGGCTTGCCGCGCACGCGCATCGAGCGGATCGCGAATGAGCAGACCGGAATCACCGCCGACA
CCGCGCTTCGACTGGCCAAGGCGCTCGGCACAACGGCCGAACTCTGGCTCAATCTTCAGAATGATTATGACATCCAGATC
GCGAAGCGCGATCTCGGCAAGGCACTTGACCGCATCGAGACCGTGAACAGGCCGCAAGCGGCTGAATGA

Structures

Toxin

• AlphaFold DB: Q89QW2