Detailed information of TA system TA096300

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 3016983..3017608
• Replicon: chromosome
• Accession: NZ_CP026831
• Organism: Shigella dysenteriae strain ATCC 12039

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: C1P71_RS16995
• Protein ID: WP_128879691.1
• Coordinates: 3016983..3017381 (-)
• Length: 133 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q31SG2
• Locus tag: C1P71_RS17000
• Protein ID: WP_000450530.1
• Coordinates: 3017381..3017608 (-)
• Length: 76 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
C1P71_RS16955 (3012043)	3012043..3012198	-	156	WP_284514390.1	type I toxin-antitoxin system Hok family toxin	-
C1P71_RS16960 (3012614)	3012614..3012970	+	357	WP_046881158.1	helix-turn-helix domain-containing protein	-
C1P71_RS16965 (3012985)	3012985..3013542	+	558	WP_128880897.1	ImmA/IrrE family metallo-endopeptidase	-
C1P71_RS26530 (3013704)	3013704..3013847	+	144	WP_000206095.1	hypothetical protein	-
C1P71_RS16970 (3013897)	3013897..3014091	-	195	WP_046881536.1	hypothetical protein	-
C1P71_RS16980 (3014539)	3014539..3015093	-	555	Protein_3046	IS3-like element IS600 family transposase	-
C1P71_RS16985 (3015185)	3015185..3016413	+	1229	WP_128879903.1	IS3-like element IS2 family transposase	-
C1P71_RS16990 (3016522)	3016522..3016974	+	453	Protein_3048	conjugal transfer protein TraD	-
C1P71_RS16995 (3016983)	3016983..3017381	-	399	WP_128879691.1	tRNA(fMet)-specific endonuclease VapC	Toxin
C1P71_RS17000 (3017381)	3017381..3017608	-	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	Integrative and Conjugative Element	-	-	3014965..3029744	14779

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: 14788.03 Da
• Isoelectric Point: 7.8604

>T96300 WP_128879691.1 NZ_CP026831:c3017381-3016983 [Shigella dysenteriae]
MLKFMLDTNICIFTIKNKPASVRESFNLNQGRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRIDVLDYDAAAAIHT
GQIRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDWS

Nucleotide

• Length: 399 bp

>T96300 NZ_CP026831:c3017381-3016983 [Shigella dysenteriae]
ATGCTGAAGTTTATGCTCGATACCAACATCTGCATTTTTACGATAAAGAACAAACCCGCCAGCGTCAGGGAGAGTTTTAA
CCTTAACCAGGGGAGAATGTGTATCAGTTCGGTCACCCTGATGGAGCTGATATATGGTGCAGAAAAAAGCCAGATGCCTG
AACGTAATCTCGCTGTGATCGAGGGATTTGTTTCCCGCATTGATGTTCTGGATTACGACGCCGCTGCAGCCATACACACC
GGCCAGATAAGAGCAGAACTTGCCCGTCAGGGACGCCCTGTCGGGCCATTTGATCAAATGATCGCAGGTCATGCCCGCAG
TCGGGGGCTGATTATTGTGACTAATAACACCCGGGAATTTGAACGTGTGGGCGGCCTGAGAACTGAAGACTGGAGCTGA

Antitoxin

Protein

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

>AT96300 WP_000450530.1 NZ_CP026831:c3017608-3017381 [Shigella dysenteriae]
METTVFLSNRSQAVRLPKAVALPENVKRVEVIAVGRTRIITPAGETWDEWFDGHSVSADFMDNREQPGMQERESF

Nucleotide

• Length: 228 bp

>AT96300 NZ_CP026831:c3017608-3017381 [Shigella dysenteriae]
ATGGAAACCACCGTATTTCTCAGCAACCGCAGCCAGGCGGTCAGACTGCCAAAAGCGGTTGCATTGCCGGAAAACGTAAA
ACGCGTTGAAGTGATTGCTGTCGGACGAACCCGAATCATTACGCCAGCCGGAGAGACATGGGACGAATGGTTCGACGGAC
ACAGCGTCAGCGCCGATTTTATGGATAACAGGGAACAGCCCGGCATGCAGGAAAGGGAGTCATTCTGA

Structures

Antitoxin

• AlphaFold DB: Q31SG2