Detailed information of TA system TA116968

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 25941..26566
• Replicon: plasmid p79-8006
• Accession: NZ_CP034934
• Organism: Shigella dysenteriae strain 79-8006

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: Q6XVU6
• Locus tag: EPD85_RS00170
• Protein ID: WP_000911318.1
• Coordinates: 25941..26339 (-)
• Length: 133 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q31SG2
• Locus tag: EPD85_RS00175
• Protein ID: WP_000450530.1
• Coordinates: 26339..26566 (-)
• Length: 76 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
EPD85_RS00150	21022..21966	+	945	WP_005027201.1	lauroyl-Kdo(2)-lipid IV(A) myristoyltransferase	-
EPD85_RS00155	22120..22791	-	672	Protein_30	IS630 family transposase	-
EPD85_RS00165	23752..25932	+	2181	WP_069661558.1	type IV conjugative transfer system coupling protein TraD	-
EPD85_RS00170	25941..26339	-	399	WP_000911318.1	type II toxin-antitoxin system VapC family toxin	Toxin
EPD85_RS00175	26339..26566	-	228	WP_000450530.1	toxin-antitoxin system antitoxin VapB	Antitoxin

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	ipaH9.8 / ospG / ospC2 / nleE / icsP/sopA / ospB / ospC4 / ospD2 / ospF / ospD1 / ipgB2 / ospI	1..100586	100586
	-	inside	IScluster/Tn	-	ipaH9.8 / ospG	5..23310	23305

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: 14845.09 Da
• Isoelectric Point: 8.5264

>T116968 WP_000911318.1 NZ_CP034934:c26339-25941 [Shigella dysenteriae]
MLKFMLDTNICIFTIKNKPASVRERFNLNQGRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRIDVLDYDAAAATHT
GQIRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDWS

Nucleotide

• Length: 399 bp

>T116968 NZ_CP034934:c26339-25941 [Shigella dysenteriae]
ATGCTGAAGTTTATGCTCGATACCAACATCTGCATTTTTACGATAAAGAACAAACCCGCCAGCGTCAGGGAGCGTTTTAA
CCTGAACCAGGGGAGAATGTGTATCAGTTCGGTCACCCTGATGGAGCTGATATATGGTGCAGAAAAAAGCCAGATGCCTG
AACGTAATCTCGCTGTGATCGAGGGATTTGTTTCCCGCATTGATGTTCTGGATTACGACGCTGCTGCAGCCACACACACC
GGCCAGATAAGAGCAGAACTTGCCCGTCAGGGACGCCCTGTCGGGCCATTTGATCAAATGATCGCAGGTCATGCCCGCAG
TCGGGGGCTGATTATTGTGACTAATAACACCCGGGAATTTGAACGTGTGGGCGGCCTGAGAACTGAAGACTGGAGCTGA

Antitoxin

Protein

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

>AT116968 WP_000450530.1 NZ_CP034934:c26566-26339 [Shigella dysenteriae]
METTVFLSNRSQAVRLPKAVALPENVKRVEVIAVGRTRIITPAGETWDEWFDGHSVSADFMDNREQPGMQERESF

Nucleotide

• Length: 228 bp

>AT116968 NZ_CP034934:c26566-26339 [Shigella dysenteriae]
ATGGAAACCACCGTATTTCTCAGCAACCGCAGCCAGGCGGTCAGACTGCCAAAAGCGGTTGCATTGCCGGAAAACGTAAA
ACGCGTTGAAGTGATTGCTGTCGGACGAACCAGAATCATTACGCCAGCCGGAGAGACATGGGACGAATGGTTCGACGGAC
ACAGCGTCAGCGCCGATTTTATGGATAACAGGGAACAGCCCGGCATGCAGGAAAGGGAGTCATTCTGA

Structures

Toxin

• PDB: 6SD6

Antitoxin

• AlphaFold DB: Q31SG2