Detailed information of TA system TA158939

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 261305..261948
• Replicon: plasmid pHNTH9F11-1
• Accession: NZ_CP054192
• Organism: Escherichia coli strain TH9F11

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: Q84A06
• Locus tag: HRL54_RS25075
• Protein ID: WP_000754566.1
• Coordinates: 261532..261948 (+)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: Q84A07
• Locus tag: HRL54_RS25070
• Protein ID: WP_001261276.1
• Coordinates: 261305..261535 (+)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
HRL54_RS25035 (256506)	256506..256673	+	168	Protein_278	colicin-B	-
HRL54_RS25040 (256691)	256691..257218	-	528	WP_000203272.1	colicin B immunity protein	-
HRL54_RS25045 (257462)	257462..258277	+	816	WP_001312845.1	lipid II-degrading bacteriocin colicin M	-
HRL54_RS25050 (258327)	258327..258680	-	354	WP_000864812.1	colicin M immunity protein	-
HRL54_RS25055 (258858)	258858..259649	-	792	WP_000016493.1	site-specific integrase	-
HRL54_RS25060 (259646)	259646..260335	-	690	WP_000796228.1	hypothetical protein	-
HRL54_RS25065 (260379)	260379..260729	-	351	WP_000493379.1	hypothetical protein	-
HRL54_RS25070 (261305)	261305..261535	+	231	WP_001261276.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
HRL54_RS25075 (261532)	261532..261948	+	417	WP_000754566.1	type II toxin-antitoxin system VapC family toxin	Toxin
HRL54_RS25080 (262152)	262152..263287	+	1136	WP_076611389.1	IS3-like element ISEc15 family transposase	-
HRL54_RS25085 (263395)	263395..265470	-	2076	WP_000205526.1	protease Lon-related BREX system protein BrxL	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	aadA2 / cmlA1 / ant(3'')-Ia / sul3 / aac(3)-IVa / aph(4)-Ia / aph(3')-Ia / aph(6)-Id / aph(3'')-Ib / blaNDM-5 / tet(A) / blaCTX-M-55 / fosA3 / dfrA1 / sitABCD / qnrS1 / ARR-3 / blaOXA-10 / dfrA14 / floR	iroB / iroC / iroD / iroE / iroN	1..407456	407456

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

>T158939 WP_000754566.1 NZ_CP054192:261532-261948 [Escherichia coli]
MKKTWMLDTNICSFIMREQPAAVLKRLEQAVLRGDRIVVSAVTYAEMRFGATGPKASPRHIQLVDAFCARLDAVLPWDRA
AVDATTDIRVALRLAGTPIGPNDTAIAGHAIAAGAILVTNNVREFARVPGLVLEDWVK

Nucleotide

• Length: 417 bp

>T158939 NZ_CP069893:c1523485-1523078 [Escherichia coli]
GTGGTCCTGTGGCAATCTGATTTGCGCGTCTCCTGGCGCGCACAGTGGCTTTCCTTGCTGATTCATGGGCTGGTTGCCGC
TGTTATTTTACTCATGCCCTGGCCGCTCAGTTACACCCCGTTATGGATGGTGTTACTTTCGCTGGTGGTGTTTGATTGCG
TTCGCAGCCAGCGGCGCATTAATGCTCGCCAGGGGGAAATTCGCTTGTTGATGGACGGGCGTTTGCGTTGGCAAGGGCAG
GAGTGGAGCATCGTCAAAGCGCCGTGGATGATTAAGAGCGGCATGATGCTGCGTTTACGTTCTGACAGCGGAAAACGGCA
ACATTTATGGCTGGCAGCTGACAGCATGGACGAAGCCGAATGGCGGGATTTACGGCGGATATTGTTACAACAAGAGACGC
AAAGATAA

Antitoxin

Protein

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

>AT158939 WP_001261276.1 NZ_CP054192:261305-261535 [Escherichia coli]
MRTVSIFKNGNNRAIRLPRDLDFDGVSELEIVREGDSIILRPVRPTWGSFAQLDRADPDFMAEREDVVSDEGRFEP

Nucleotide

• Length: 231 bp

>AT158939 NZ_CP069893:c1523732-1523466 [Escherichia coli]
ATGGACATTAACAACAAAGCCCGCATTCATTGGGCATGCCGCCGTGGTATGCGCGAACTCGATATTTCAATCATGCCGTT
TTTCGAACATGAGTACGACAGCTTAAGCGATGACGAAAAACGCATCTTTATTCGTCTGCTGGAATGTGACGATCCGGACC
TGTTTAACTGGCTGATGAATCACGGTAAACCAGCCGATGCAGAACTGGAAATGATGGTCCGACTCATCCAGACACGGAAC
CGGGAACGTGGTCCTGTGGCAATCTGA

Structures

Toxin

• AlphaFold DB: A0A387K1G3

Antitoxin

• AlphaFold DB: A0A387K023