Detailed information of TA system TA157730

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 34294..34919
• Replicon: plasmid pMHMC-001
• Accession: NZ_CP053752
• Organism: Shigella sonnei strain 506

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: Q6XVU6
• Locus tag: COO90_RS24500
• Protein ID: WP_000911318.1
• Coordinates: 34521..34919 (+)
• Length: 133 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q31SG2
• Locus tag: COO90_RS24495
• Protein ID: WP_000450530.1
• Coordinates: 34294..34521 (+)
• Length: 76 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
COO90_RS24490 (COO90_24310)	29942..34212	-	4271	Protein_39	conjugative transfer relaxase/helicase TraI	-
COO90_RS24495 (COO90_24320)	34294..34521	+	228	WP_000450530.1	toxin-antitoxin system antitoxin VapB	Antitoxin
COO90_RS24500 (COO90_24325)	34521..34919	+	399	WP_000911318.1	type II toxin-antitoxin system VapC family toxin	Toxin
COO90_RS24505 (COO90_24330)	34928..37084	-	2157	WP_052945385.1	type IV conjugative transfer system coupling protein TraD	-
COO90_RS24510 (COO90_24335)	37110..37241	-	132	Protein_43	IS1 family transposase	-
COO90_RS24520 (COO90_24345)	38506..38844	-	339	Protein_45	antirestriction protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	tviC / ipaH1.4 / ospG / ipaH9.8 / ospI / papC / icsA/virG / virA / spa40 / spa29 / spa9 / spa24 / spa33 / spa32 / spa13 / spa47 / spa15 / mxiA / mxiC / mxiD / mxiE / mxiM / mxiL / mxiN / mxiK / mxiJ / mxiI / mxiH / mxiG / ipgF / ipgE / ipgD / icsB / ipgA / ipgB1 / ipgC / ipaB / ipaC / ipaD / ipaA / ipaA / ipaJ / ospC3 / ospC2 / ipaH4.5 / ipaH7.8 / ospD3/senA / ospC1 / ospE2 / ipgB2 / ospD1 / ospF / ospD2 / ospC4 / ospB / icsP/sopA / nleE	1..212834	212834

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

>T157730 WP_000911318.1 NZ_CP053752:34521-34919 [Shigella sonnei]
MLKFMLDTNICIFTIKNKPASVRERFNLNQGRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRIDVLDYDAAAATHT
GQIRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDWS

Nucleotide

• Length: 399 bp

>T157730 NZ_CP069451:4536757-4537221 [Escherichia coli]
ATGGATTTTCCACAAAGGGTTAATGGTTGGGCGCTATATGCTCATCCCTGTTTTCAGGAAACCTACGATGCTTTAGTTGC
CGAAGTCGAGGCATTAAAGGGAAAAGATCCTGAAAATTATCAGAGAAAAGCTGCCACAAAGTTATTGGCGGTGGTCCATA
AAGTGATTGAGGAGCATATCACGGTCAATCCATCATCACCGGCATTCCGTCATGGCAAGTCGTTAGGCTCTGGGAAAAAT
AAAGACTGGTCACGGGTAAAATTTGGTGCTGGTCGCTATCGTCTCTTCTTTCGTTACAGTGAAAAAGAGAAAGTCATCAT
TCTGGGATGGATGAACGATGAAAACACGCTGCGCACCTACGGTAAAAAAACAGATGCCTATACCGTATTCAGTAAAATGT
TAAAAAGAGGACATCCTCCTGCCGACTGGGAAAGCCTCACCCAAGAGACAGAAGAAAGCCATTGA

Antitoxin

Protein

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

>AT157730 WP_000450530.1 NZ_CP053752:34294-34521 [Shigella sonnei]
METTVFLSNRSQAVRLPKAVALPENVKRVEVIAVGRTRIITPAGETWDEWFDGHSVSADFMDNREQPGMQERESF

Nucleotide

• Length: 228 bp

>AT157730 NZ_CP069451:4536422-4536757 [Escherichia coli]
ATGCCCGCTAATGCTCGCTCTAACGCTGTACTGACCACTGAATCAAAGGTCACTATACGCGGACAAACAACTATCCCCGC
GCCAGTGCGTGAGGCCTTAAAACTGAAGCCAGGCCTGGACAGCATTCATTACGAAATTCTGCCTGGTGGGCAAGTATTTA
TGTGCCGACTGGGAGATGAACAGGAGGATCATACTATGAATGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAAC
CCGCAAAAAACTCGTCCATTCGACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCAACATTGACGATGAGAT
TGGCGACGACGAATAA

Structures

Toxin

• PDB: 6SD6

Antitoxin

• AlphaFold DB: Q31SG2