Detailed information of TA system TA020650

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 2890261..2890892
• Replicon: chromosome
• Accession: NC_003047
• Organism: Sinorhizobium meliloti 1021

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: SM_RS13755
• Protein ID: WP_010970128.1
• Coordinates: 2890261..2890659 (-)
• Length: 133 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q92MD9
• Locus tag: SM_RS13760
• Protein ID: WP_010970129.1
• Coordinates: 2890659..2890892 (-)
• Length: 78 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
SM_RS13725 (SMc00694)	2885341..2885643	-	303	WP_010970122.1	type II toxin-antitoxin system RelE/ParE family toxin	-
SM_RS13730 (SMc00693)	2885640..2885915	-	276	WP_010970123.1	type II toxin-antitoxin system ParD family antitoxin	-
SM_RS31325 (SMc00692)	2886203..2886352	+	150	WP_010970124.1	hypothetical protein	-
SM_RS13735 (SMc00691)	2886349..2887284	+	936	WP_010970125.1	site-specific tyrosine recombinase XerD	-
SM_RS13740 (SMc00690)	2887348..2888301	+	954	WP_003527479.1	acetyl-CoA carboxylase carboxyltransferase subunit alpha	-
SM_RS13745 (SMc00689)	2888546..2889988	+	1443	WP_010970126.1	murein L,D-transpeptidase	-
SM_RS13750 (SMc00688)	2889988..2890227	+	240	WP_010970127.1	sulfurtransferase TusA family protein	-
SM_RS13755 (SMc00687)	2890261..2890659	-	399	WP_010970128.1	type II toxin-antitoxin system toxin VapC	Toxin
SM_RS13760 (SMc00686)	2890659..2890892	-	234	WP_010970129.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
SM_RS13765 (SMc00684)	2891001..2892146	-	1146	WP_010970130.1	GTP-binding protein	-
SM_RS13770 (SMc00683)	2892160..2893242	-	1083	WP_010970131.1	D-alanyl-D-alanine carboxypeptidase	-
SM_RS13775 (SMc00682)	2893494..2894657	+	1164	WP_010970132.1	amidohydrolase	-
SM_RS13780 (SMc00681)	2894680..2895144	+	465	WP_010970133.1	Lrp/AsnC ligand binding domain-containing 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

• PIN domain (4-123)

Antitoxin

• SpoVT-AbrB domain (7-56)

Sequences

Toxin

Protein

• Length: 133 a.a.
• Molecular weight: 14859.16 Da
• Isoelectric Point: 6.6329

>T20650 WP_010970128.1 NC_003047:c2890659-2890261 [Sinorhizobium meliloti 1021]
MLTYMLDTNICIYVMKTYPPAVREKFNGLAEQLCISSITLGELHYGAEKSAWRVENLTAIEHFVARLEVLPFADKAAAHY
GQVRAELERTGTPCGPHDMQIGAHARSEGLIVVTNNIREFVRMPGVRVENWL

Nucleotide

• Length: 399 bp

>T20650 NC_003047:c2890659-2890261 [Sinorhizobium meliloti 1021]
ATGCTCACCTATATGCTCGATACCAATATCTGCATCTATGTGATGAAGACCTATCCGCCGGCCGTGCGCGAAAAGTTCAA
CGGACTGGCGGAGCAGCTTTGCATATCGAGCATCACGCTGGGAGAATTACACTATGGCGCCGAAAAATCGGCCTGGCGCG
TTGAGAACCTTACGGCTATCGAACATTTCGTGGCACGGCTGGAGGTGCTGCCGTTCGCAGACAAGGCAGCGGCCCACTAC
GGGCAGGTTCGGGCTGAACTGGAGCGGACGGGAACGCCATGCGGCCCTCATGACATGCAGATCGGCGCGCATGCGCGCAG
CGAAGGGCTGATTGTCGTGACCAACAATATACGCGAGTTCGTCCGCATGCCGGGTGTAAGGGTCGAGAACTGGCTGTGA

Antitoxin

Protein

• Length: 78 a.a.
• Molecular weight: 8673.87 Da
• Isoelectric Point: 8.9167

>AT20650 WP_010970129.1 NC_003047:c2890892-2890659 [Sinorhizobium meliloti 1021]
MASSTVFISNRSQAVRLPKAVAFPEGVHQVDILKIGRSRVIVPQGKRWDDLFLSGPRVSEDFMSERDQPVAETRESF

Nucleotide

• Length: 234 bp

>AT20650 NC_003047:c2890892-2890659 [Sinorhizobium meliloti 1021]
TTGGCCAGTTCGACCGTATTCATCAGTAACCGTAGCCAGGCGGTGCGGCTGCCAAAGGCCGTCGCCTTTCCCGAGGGCGT
GCATCAGGTCGATATCCTCAAGATCGGCCGCAGCCGCGTGATCGTCCCCCAGGGCAAAAGATGGGACGATCTGTTCCTCA
GCGGGCCGCGCGTCAGCGAGGATTTCATGAGCGAGCGTGATCAGCCGGTGGCGGAAACACGCGAATCCTTCTGA

Structures

Antitoxin

• AlphaFold DB: Q92MD9