Detailed information of TA system TA217906

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 23804..24474
• Replicon: plasmid pKP2648-VirV
• Accession: NZ_CP083992
• Organism: Escherichia coli strain EC2648-Vir2

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: Q6U619
• Locus tag: LCH23_RS22735
• Protein ID: WP_004213072.1
• Coordinates: 23804..24247 (-)
• Length: 148 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: Q6U620
• Locus tag: LCH23_RS22740
• Protein ID: WP_004213073.1
• Coordinates: 24244..24474 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LCH23_RS22700 (LCH23_22715)	19215..19490	+	276	WP_004213932.1	carboxymuconolactone decarboxylase family protein	-
LCH23_RS22705 (LCH23_22720)	19553..20044	+	492	WP_011251327.1	DM13 domain-containing protein	-
LCH23_RS22710 (LCH23_22725)	20093..21013	+	921	WP_004213934.1	DUF1471 domain-containing protein	-
LCH23_RS22715 (LCH23_22730)	21104..21507	+	404	Protein_24	GAF domain-containing protein	-
LCH23_RS22720 (LCH23_22735)	22025..22660	-	636	Protein_25	mucoid phenotype regulator RmpA2	-
LCH23_RS22725 (LCH23_22740)	23077..23381	+	305	Protein_26	transposase	-
LCH23_RS22730 (LCH23_22745)	23404..23655	-	252	WP_186987481.1	hypothetical protein	-
LCH23_RS22735 (LCH23_22750)	23804..24247	-	444	WP_004213072.1	type II toxin-antitoxin system VapC family toxin	Toxin
LCH23_RS22740 (LCH23_22755)	24244..24474	-	231	WP_004213073.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
LCH23_RS22745 (LCH23_22760)	25082..26215	+	1134	WP_004213075.1	DUF3800 domain-containing protein	-
LCH23_RS22750 (LCH23_22765)	26231..26524	+	294	WP_004213076.1	hypothetical protein	-
LCH23_RS22755 (LCH23_22770)	26514..26720	-	207	WP_004213077.1	hypothetical protein	-
LCH23_RS22760 (LCH23_22775)	27692..28513	+	822	WP_004213562.1	hypothetical protein	-
LCH23_RS22765 (LCH23_22780)	28510..29289	+	780	WP_004213560.1	site-specific integrase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Mobilizable plasmid	-	iucA / iucB / iucC / iucD / iutA / rmpA2 / iroN / rmpA	1..222599	222599

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: 148 a.a.
• Molecular weight: 16006.74 Da
• Isoelectric Point: 9.3642

>T217906 WP_004213072.1 NZ_CP083992:c24247-23804 [Escherichia coli]
MKKTWMLDTNICSFIMREQPAAVLKRLEQAVLRGDRIVVSAVTYAEMRFGATGPKASPRHIQLVDAFCARLDAILPWDRA
AVDATTDIRVALRLAGTPIGPNDTAIAGHAIAAGAVLVTNNVREFERVPGLVLEDWVKKAALCRVIS

Nucleotide

• Length: 444 bp

>T217906 NZ_CP114894:861796-861972 [Escherichia coli]
GTGAAACAAAGCGAGTTCAGACGTTGGCTCGAATCTCAGGGCGTCGATGTAGCGAATGGCAGCAACCATTTGAAACTCAG
GTTTCATGGGAGGCGCAGTGTCATGCCGCGTCACCCCTGCGATGAGATTAAAGAACCATTGCGTAAAGCAATCCTGAAAC
AACTCGGTTTGAGTTAA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8677.73 Da
• Isoelectric Point: 4.4563

>AT217906 WP_004213073.1 NZ_CP083992:c24474-24244 [Escherichia coli]
MRTVSIFKNGNNRAIRLPRDLDFDGVSELEIVREGDSIILRPVRPTWGSFAQLDRAAPDFMAEREDVVSDEGRFEP

Nucleotide

• Length: 231 bp

>AT217906 NZ_CP114894:862018-862434 [Escherichia coli]
ATGCGTTATCCCGTCACTCTTACACCCGCGCCGGAAGGCGGTTATATGGTTTCTTTTGTGGATATCCCTGAAGCGTTGAC
CCAGGGCGAAACTGTCGCTGAAGCGATGGAAGCGGCAAAAGATGCTTTACTGACCGCATTTGATTTTTATTTTGAAGATA
ACGAGCTTATCCCTTTACCTTCGCCATTAAATAGTCACGATCACTTTATTGAAGTACCTTTGAGCGTCGCCTCTAAGGTA
TTGCTGTTAAATGCTTTTTTACAGTCAGAAATCACTCAGCAAGAGTTAGCCAGGCGAATTGGCAAACCTAAACAGGAGAT
TACTCGCCTATTTAACTTGCATCATGCGACAAAAATCGACGCCGTCCAGCTCGCGGCAAAGGCGCTTGGCAAAGAGTTAT
CGCTGGTGATGGTTTAA

Structures

Toxin

• AlphaFold DB: Q6U619

Antitoxin

• AlphaFold DB: Q6U620