Detailed information of TA system TA048451

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 2975940..2976571
• Replicon: chromosome
• Accession: NZ_CP009144
• Organism: Sinorhizobium meliloti strain RMO17

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: DU99_RS14385
• Protein ID: WP_013844828.1
• Coordinates: 2975940..2976338 (-)
• Length: 133 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q92MD9
• Locus tag: DU99_RS14390
• Protein ID: WP_010970129.1
• Coordinates: 2976338..2976571 (-)
• Length: 78 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
DU99_RS14355	2971322..2971597	-	276	WP_010970123.1	type II toxin-antitoxin system ParD family antitoxin	-
DU99_RS36160	2971882..2972031	+	150	WP_010970124.1	hypothetical protein	-
DU99_RS14365	2972028..2972963	+	936	WP_010970125.1	site-specific tyrosine recombinase XerD	-
DU99_RS14370	2973027..2973980	+	954	WP_003527479.1	acetyl-CoA carboxylase carboxyltransferase subunit alpha	-
DU99_RS14375	2974225..2975667	+	1443	WP_010970126.1	murein L,D-transpeptidase	-
DU99_RS14380	2975667..2975906	+	240	WP_010970127.1	sulfurtransferase TusA family protein	-
DU99_RS14385	2975940..2976338	-	399	WP_013844828.1	type II toxin-antitoxin system toxin VapC	Toxin
DU99_RS14390	2976338..2976571	-	234	WP_010970129.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
DU99_RS14395	2976680..2977825	-	1146	WP_010970130.1	GTP-binding protein	-
DU99_RS14400	2977839..2978921	-	1083	WP_010970131.1	D-alanyl-D-alanine carboxypeptidase	-
DU99_RS14405	2979173..2980336	+	1164	WP_010970132.1	amidohydrolase	-
DU99_RS14410	2980359..2980823	+	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

>T48451 WP_013844828.1 NZ_CP009144:c2976338-2975940 [Sinorhizobium meliloti]
MLTYMLDTNICIYVMKTYPPAVREKFNGLAEQLCISSITLGELHYGAEKSARRVENLTAIEHFVARLEVLPFADKAAAHY
GQVRAELERTGTPCGPHDMQIGAHARSEGLIVVTNNIREFVRMPGVRVENWL

Nucleotide

• Length: 399 bp

>T48451 NZ_CP009144:c2976338-2975940 [Sinorhizobium meliloti]
ATGCTCACCTATATGCTCGATACCAATATCTGCATCTATGTGATGAAGACCTATCCGCCGGCCGTGCGCGAAAAGTTCAA
CGGACTGGCGGAGCAGCTTTGCATATCGAGCATCACGCTGGGAGAATTACACTATGGCGCCGAAAAATCGGCCCGGCGCG
TTGAGAACCTTACGGCTATCGAACATTTCGTGGCACGGCTGGAGGTGCTGCCGTTCGCAGACAAGGCAGCGGCCCACTAC
GGGCAGGTTCGGGCTGAACTGGAGCGGACGGGAACGCCATGCGGCCCTCATGACATGCAGATCGGCGCGCATGCGCGCAG
CGAAGGGCTGATTGTCGTGACCAACAATATACGCGAGTTCGTCCGCATGCCGGGTGTAAGGGTCGAGAACTGGCTGTGA

Antitoxin

Protein

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

>AT48451 WP_010970129.1 NZ_CP009144:c2976571-2976338 [Sinorhizobium meliloti]
MASSTVFISNRSQAVRLPKAVAFPEGVHQVDILKIGRSRVIVPQGKRWDDLFLSGPRVSEDFMSERDQPVAETRESF

Nucleotide

• Length: 234 bp

>AT48451 NZ_CP009144:c2976571-2976338 [Sinorhizobium meliloti]
TTGGCCAGTTCGACCGTATTCATCAGTAACCGTAGCCAGGCGGTGCGGCTGCCAAAGGCCGTCGCCTTTCCCGAGGGCGT
GCATCAGGTCGATATCCTCAAGATCGGCCGCAGCCGCGTGATCGTCCCCCAGGGCAAAAGATGGGACGATCTGTTCCTCA
GCGGGCCGCGCGTCAGCGAGGATTTCATGAGCGAGCGTGATCAGCCGGTGGCGGAAACACGCGAATCCTTCTGA

Structures

Antitoxin

• AlphaFold DB: Q92MD9