Detailed information of TA system TA097040

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 79423..80048
• Replicon: plasmid unnamed
• Accession: NZ_CP027028
• Organism: Shigella dysenteriae strain E670/74

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: C5S64_RS27775
• Protein ID: WP_000911325.1
• Coordinates: 79650..80048 (+)
• Length: 133 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q31SG2
• Locus tag: C5S64_RS27770
• Protein ID: WP_000450530.1
• Coordinates: 79423..79650 (+)
• Length: 76 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
C5S64_RS27770	79423..79650	+	228	WP_000450530.1	toxin-antitoxin system antitoxin VapB	Antitoxin
C5S64_RS27775	79650..80048	+	399	WP_000911325.1	tRNA(fMet)-specific endonuclease VapC	Toxin
C5S64_RS27780	80057..82232	-	2176	Protein_93	type IV conjugative transfer system coupling protein TraD	-
C5S64_RS27785	82514..82993	-	480	WP_000282333.1	hypothetical protein	-
C5S64_RS27790	83197..83928	-	732	WP_000850425.1	complement resistance protein TraT	-
C5S64_RS27795	83960..84487	-	528	WP_032336038.1	entry exclusion protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	spa9 / spa24 / spa33 / spa32 / spa13 / spa47 / spa15 / mxiA / mxiC / mxiD / mxiE / mxiM / mxiL / mxiN / mxiN / mxiK / mxiJ / mxiI / mxiH / mxiG / ipgF / ipgE / ipgD / icsB / ipgA / ipgB1 / ipgC / ipaB / ipaC / ipaD / ipaA / ipaA / ipaJ / ospC3 / ospC2 / ospC4 / ospC3 / ospB / icsP/sopA / nleE / ospC2 / ospG / ipaH9.8 / ospI / papC / icsA/virG / virA / spa40 / spa29	1..149179	149179
	-	flank	IS/Tn	-	-	84533..85564	1031

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 (5-125)

Antitoxin

• SpoVT-AbrB domain (7-51)

Sequences

Toxin

Protein

• Length: 133 a.a.
• Molecular weight: 14944.23 Da
• Isoelectric Point: 9.2199

>T97040 WP_000911325.1 NZ_CP027028:79650-80048 [Shigella dysenteriae]
MLKFMLDTNICIFTIKNKPASVRERFNLNQRRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRIDVLDYDAAAATHT
GQIRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDWS

Nucleotide

• Length: 399 bp

>T97040 NZ_CP027028:79650-80048 [Shigella dysenteriae]
ATGCTGAAGTTTATGCTCGATACCAACATCTGCATTTTTACGATAAAGAACAAACCCGCCAGCGTCAGGGAGCGTTTTAA
CCTGAACCAGAGGAGAATGTGTATCAGTTCGGTCACCCTGATGGAGCTGATATATGGTGCAGAAAAAAGCCAGATGCCTG
AACGTAATCTCGCTGTGATCGAGGGATTTGTTTCCCGCATTGATGTTCTGGATTACGACGCTGCTGCAGCCACACACACC
GGCCAGATAAGAGCAGAACTTGCCCGTCAGGGACGCCCTGTCGGGCCATTTGATCAAATGATCGCAGGTCATGCCCGCAG
TCGGGGGCTGATTATTGTGACTAATAACACCCGGGAATTTGAACGTGTGGGCGGCCTGAGAACTGAAGACTGGAGCTGA

Antitoxin

Protein

• Length: 76 a.a.
• Molecular weight: 8535.59 Da
• Isoelectric Point: 4.7513

>AT97040 WP_000450530.1 NZ_CP027028:79423-79650 [Shigella dysenteriae]
METTVFLSNRSQAVRLPKAVALPENVKRVEVIAVGRTRIITPAGETWDEWFDGHSVSADFMDNREQPGMQERESF

Nucleotide

• Length: 228 bp

>AT97040 NZ_CP027028:79423-79650 [Shigella dysenteriae]
ATGGAAACCACCGTATTTCTCAGCAACCGCAGCCAGGCGGTCAGACTGCCAAAAGCGGTTGCATTGCCGGAAAACGTAAA
ACGCGTTGAAGTGATTGCTGTCGGACGAACCAGAATCATTACGCCAGCCGGAGAGACATGGGACGAATGGTTCGACGGAC
ACAGCGTCAGCGCCGATTTTATGGATAACAGGGAACAGCCCGGCATGCAGGAAAGGGAGTCATTCTGA

Structures

Antitoxin

• AlphaFold DB: Q31SG2