Detailed information of TA system TA116566

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 47952..48595
• Replicon: plasmid pTB422
• Accession: NZ_CP034789
• Organism: Escherichia coli strain ECCNB20-2

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: Q84A06
• Locus tag: CRG85_RS24920
• Protein ID: WP_000754566.1
• Coordinates: 48179..48595 (+)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: Q84A07
• Locus tag: CRG85_RS24915
• Protein ID: WP_001261276.1
• Coordinates: 47952..48182 (+)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
CRG85_RS24875	43102..43992	+	891	Protein_42	IS30-like element IS30 family transposase	-
CRG85_RS24880	44015..45043	-	1029	WP_054528934.1	tyrosine-type recombinase/integrase	-
CRG85_RS24885	45437..45912	+	476	Protein_44	IS1 family transposase	-
CRG85_RS24890	46189..46398	-	210	Protein_45	IS110 family transposase	-
CRG85_RS24900	46452..47156	+	705	WP_001067855.1	IS6-like element IS26 family transposase	-
CRG85_RS24905	47262..47753	+	492	Protein_47	IS5-like element ISKpn26 family transposase	-
CRG85_RS24915	47952..48182	+	231	WP_001261276.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
CRG85_RS24920	48179..48595	+	417	WP_000754566.1	type II toxin-antitoxin system VapC family toxin	Toxin
CRG85_RS24925	48800..49485	+	686	Protein_50	IS3 family transposase	-
CRG85_RS24935	50158..51666	+	1509	WP_048322219.1	group II intron reverse transcriptase/maturase	-
CRG85_RS24940	51747..51926	+	180	Protein_52	DDE-type integrase/transposase/recombinase	-
CRG85_RS24950	52208..53284	+	1077	WP_000227969.1	IS110 family transposase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Mobilizable plasmid	mph(A) / oqxA / oqxB / sul2 / aph(3'')-Ib / aph(6)-Id / tet(A) / blaTEM-1B / sul1 / qacE / ant(3'')-Ia / dfrA1	-	1..159108	159108
	-	inside	IScluster/Tn	oqxA / oqxB / sul2 / aph(3'')-Ib / aph(6)-Id / tet(A) / blaTEM-1B	-	31314..73855	42541

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 (6-129)

Antitoxin

• SpoVT-AbrB domain (7-47)

Sequences

Toxin

Protein

• Length: 139 a.a.
• Molecular weight: 15006.52 Da
• Isoelectric Point: 9.2957

>T116566 WP_000754566.1 NZ_CP034789:48179-48595 [Escherichia coli]
MKKTWMLDTNICSFIMREQPAAVLKRLEQAVLRGDRIVVSAVTYAEMRFGATGPKASPRHIQLVDAFCARLDAVLPWDRA
AVDATTDIRVALRLAGTPIGPNDTAIAGHAIAAGAILVTNNVREFARVPGLVLEDWVK

Nucleotide

• Length: 417 bp

>T116566 NZ_CP034789:48179-48595 [Escherichia coli]
ATGAAGAAAACCTGGATGCTCGACACCAACATCTGCTCGTTCATCATGCGCGAGCAGCCGGCAGCGGTGCTGAAGCGCCT
GGAGCAGGCGGTGCTGCGCGGTGATCGCATTGTGGTCTCGGCCGTGACGTATGCCGAGATGCGCTTCGGCGCCACCGGCC
CGAAGGCCTCGCCGCGCCATATTCAGCTGGTCGACGCGTTCTGCGCGCGCCTCGATGCCGTCCTGCCCTGGGACCGCGCC
GCGGTGGACGCCACGACGGACATCCGGGTGGCGCTGCGCCTAGCCGGGACGCCGATCGGCCCGAATGACACGGCCATTGC
CGGGCACGCCATCGCGGCGGGCGCCATCCTGGTGACGAACAATGTGAGAGAGTTTGCGCGGGTCCCGGGCCTGGTGCTGG
AAGACTGGGTGAAATAA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8721.74 Da
• Isoelectric Point: 4.3533

>AT116566 WP_001261276.1 NZ_CP034789:47952-48182 [Escherichia coli]
MRTVSIFKNGNNRAIRLPRDLDFDGVSELEIVREGDSIILRPVRPTWGSFAQLDRADPDFMAEREDVVSDEGRFEP

Nucleotide

• Length: 231 bp

>AT116566 NZ_CP034789:47952-48182 [Escherichia coli]
ATGCGCACAGTTTCGATATTTAAAAACGGCAATAACCGCGCCATCCGTCTGCCCCGGGACCTGGATTTTGATGGCGTCAG
CGAGCTGGAGATCGTCCGGGAAGGGGACAGCATCATTCTGCGTCCCGTCCGGCCGACCTGGGGCTCGTTCGCGCAGCTGG
ACAGGGCCGATCCGGACTTTATGGCGGAGCGTGAGGATGTGGTCAGCGATGAAGGACGCTTTGAGCCATGA

Structures

Toxin

• AlphaFold DB: A0A387K1G3

Antitoxin

• AlphaFold DB: A0A387K023