Detailed information of TA system TA072710

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 2916565..2917196
• Replicon: chromosome
• Accession: NZ_CP019584
• Organism: Sinorhizobium meliloti strain CCMM B554 (FSM-MA)

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: SMB554_RS14675
• Protein ID: WP_013844828.1
• Coordinates: 2916565..2916963 (-)
• Length: 133 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q92MD9
• Locus tag: SMB554_RS14680
• Protein ID: WP_010970129.1
• Coordinates: 2916963..2917196 (-)
• Length: 78 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
SMB554_RS14640	2911647..2911949	-	303	WP_010970122.1	type II toxin-antitoxin system RelE/ParE family toxin	-
SMB554_RS14645	2911946..2912221	-	276	WP_010970123.1	type II toxin-antitoxin system ParD family antitoxin	-
SMB554_RS14650	2912507..2912656	+	150	WP_010970124.1	hypothetical protein	-
SMB554_RS14655	2912653..2913588	+	936	WP_010970125.1	site-specific tyrosine recombinase XerD	-
SMB554_RS14660	2913652..2914605	+	954	WP_003527479.1	acetyl-CoA carboxylase carboxyltransferase subunit alpha	-
SMB554_RS14665	2914850..2916292	+	1443	WP_010970126.1	murein L,D-transpeptidase	-
SMB554_RS14670	2916292..2916531	+	240	WP_010970127.1	sulfurtransferase TusA family protein	-
SMB554_RS14675	2916565..2916963	-	399	WP_013844828.1	type II toxin-antitoxin system toxin VapC	Toxin
SMB554_RS14680	2916963..2917196	-	234	WP_010970129.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
SMB554_RS14685	2917304..2918449	-	1146	WP_010970130.1	GTP-binding protein	-
SMB554_RS14690	2918463..2919545	-	1083	WP_010970131.1	D-alanyl-D-alanine carboxypeptidase	-
SMB554_RS14695	2919797..2920960	+	1164	WP_010970132.1	amidohydrolase	-
SMB554_RS14700	2920983..2921447	+	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: 14829.13 Da
• Isoelectric Point: 6.9581

>T72710 WP_013844828.1 NZ_CP019584:c2916963-2916565 [Sinorhizobium meliloti]
MLTYMLDTNICIYVMKTYPPAVREKFNGLAEQLCISSITLGELHYGAEKSARRVENLTAIEHFVARLEVLPFADKAAAHY
GQVRAELERTGTPCGPHDMQIGAHARSEGLIVVTNNIREFVRMPGVRVENWL

Nucleotide

• Length: 399 bp

>T72710 NZ_CP019584:c2916963-2916565 [Sinorhizobium meliloti]
ATGCTCACCTATATGCTCGATACCAATATCTGCATCTATGTGATGAAGACCTATCCGCCGGCCGTGCGCGAAAAGTTCAA
CGGACTGGCGGAGCAGCTTTGCATATCGAGCATCACGCTGGGAGAATTACACTATGGCGCCGAAAAATCGGCCCGGCGCG
TTGAGAACCTTACGGCTATCGAACATTTCGTGGCACGGCTGGAGGTGCTGCCGTTCGCAGACAAGGCAGCGGCCCACTAC
GGGCAGGTTCGGGCTGAACTGGAGCGGACGGGAACGCCATGCGGCCCTCATGACATGCAGATCGGCGCGCATGCGCGCAG
CGAAGGGCTGATTGTCGTGACCAACAATATACGCGAGTTCGTCCGCATGCCGGGTGTAAGGGTCGAGAACTGGCTGTGA

Antitoxin

Protein

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

>AT72710 WP_010970129.1 NZ_CP019584:c2917196-2916963 [Sinorhizobium meliloti]
MASSTVFISNRSQAVRLPKAVAFPEGVHQVDILKIGRSRVIVPQGKRWDDLFLSGPRVSEDFMSERDQPVAETRESF

Nucleotide

• Length: 234 bp

>AT72710 NZ_CP019584:c2917196-2916963 [Sinorhizobium meliloti]
TTGGCCAGTTCGACCGTATTCATCAGTAACCGTAGCCAGGCGGTGCGGCTGCCAAAGGCCGTCGCCTTTCCCGAGGGCGT
GCATCAGGTCGATATCCTCAAGATCGGCCGCAGCCGCGTGATCGTCCCCCAGGGCAAAAGATGGGACGATCTGTTCCTCA
GCGGGCCGCGCGTCAGCGAGGATTTCATGAGCGAGCGTGATCAGCCGGTGGCGGAAACACGCGAATCCTTCTGA

Structures

Antitoxin

• AlphaFold DB: Q92MD9