Detailed information of TA system TA220833

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 3540936..3541597
• Replicon: chromosome
• Accession: NZ_CP085525
• Organism: Sinorhizobium meliloti strain L6-AK89

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: Q92KY5
• Locus tag: LJD24_RS16910
• Protein ID: WP_010970565.1
• Coordinates: 3540936..3541340 (-)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q92KY4
• Locus tag: LJD24_RS16915
• Protein ID: WP_010970566.1
• Coordinates: 3541337..3541597 (-)
• Length: 87 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LJD24_RS16895 (LJD24_16895)	3536479..3537591	+	1113	WP_003535893.1	3-isopropylmalate dehydrogenase	-
LJD24_RS16900 (LJD24_16900)	3537720..3538427	+	708	WP_010970563.1	phosphatase PAP2 family protein	-
LJD24_RS16905 (LJD24_16905)	3538528..3540417	-	1890	WP_014527006.1	MFS transporter	-
LJD24_RS16910 (LJD24_16910)	3540936..3541340	-	405	WP_010970565.1	type II toxin-antitoxin system VapC family toxin	Toxin
LJD24_RS16915 (LJD24_16915)	3541337..3541597	-	261	WP_010970566.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
LJD24_RS16920 (LJD24_16920)	3541726..3541896	+	171	WP_010970567.1	hypothetical protein	-
LJD24_RS16925 (LJD24_16925)	3542010..3543044	+	1035	WP_003531790.1	aspartate-semialdehyde dehydrogenase	-
LJD24_RS16930 (LJD24_16930)	3543217..3544038	+	822	WP_010970568.1	lytic transglycosylase domain-containing protein	-
LJD24_RS16935 (LJD24_16935)	3544361..3545524	-	1164	WP_003537933.1	IS4-like element ISRm16 family transposase	-
LJD24_RS16940 (LJD24_16940)	3545693..3546376	-	684	WP_010970569.1	carbonic anhydrase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	flank	IS/Tn	-	-	3544361..3545524	1163

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 (5-124)

Antitoxin

• SpoVT-AbrB domain (8-44)

Sequences

Toxin

Protein

• Length: 135 a.a.
• Molecular weight: 14507.71 Da
• Isoelectric Point: 6.7257

>T220833 WP_010970565.1 NZ_CP085525:c3541340-3540936 [Sinorhizobium meliloti]
VISHILDTNAVIALIGRKSDALVTRVLHSPQGIIGLPSVVAYELYFGAQKSAKAQHNLETLRLLMADFPILDFDRNDAFV
AGEIRAALAAKGTPIGPYDVLIAGQAKARGLTLVTNNVGEFNRVENLRVEDWSL

Nucleotide

• Length: 405 bp

>T220833 NZ_CP117298:678843-679250 [Mycobacterium tuberculosis variant bovis]
GTGATCATCGACACGAGTGCGCTGCTTGCCTATTTCGACGCCGCCGAGCCAGACCACGCCGCAGTGTCTGAGTGCATCGA
TAGCTCCGCAGACGCGCTCGTCGTATCCCCTTATGTGGTAGCGGAACTCGACTATCTCGTCGCCACCCGGGTAGGTGTCG
ATGCCGAGCTCGCCGTCCTGCGTGAACTCGCCGGCGGGGCCTGGGAGCTCGCCAACTGCGGTGCCGCCGAAATCGAGCAG
GCCGCCCGCATCGTCACGAAATACCAGGATCAGCGGATCGGGATCGCGGATGCGGCCAACGTCGTGCTGGCCGACCGATA
CCGCACGCGCACGATCCTCACCCTGGACCGTCGGCACTTCTCGGCGCTGCGGCCGATCGGCGGTGGGCGCTTCACCGTCA
TTCCGTAA

Antitoxin

Protein

• Length: 87 a.a.
• Molecular weight: 9903.16 Da
• Isoelectric Point: 5.1253

>AT220833 WP_010970566.1 NZ_CP085525:c3541597-3541337 [Sinorhizobium meliloti]
MPHLARVFQSGNSQAVRLPKEFRFNVDRVEITQEGDALILRPHVEQGEQWSSLKAALARGMSEDFMMCGREQPEQQDRSE
LDAVFR

Nucleotide

• Length: 261 bp

>AT220833 NZ_CP117298:678631-678846 [Mycobacterium tuberculosis variant bovis]
GTGGACAAGACGACGGTCTACCTGCCGGATGAACTCAAGGCGGCCGTGAAGCGCGCCGCTCGGCAGCGCGGAGTCTCCGA
AGCGCAGGTAATCCGGGAGTCCATCCGGGCGGCGGTCGGCGGCGCCAAGCCGCCGCCGCGCGGGGGTCTATATGCGGGTT
CGGAGCCCATCGCGCGGCGAGTCGACGAGCTGCTGGCTGGCTTCGGTGAGCGGTGA

Structures

Toxin

• AlphaFold DB: Q92KY5

Antitoxin

• AlphaFold DB: Q92KY4