Detailed information of TA system TA164038

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 9327..9970
• Replicon: plasmid pRHBSTW-00333_2
• Accession: NZ_CP056720
• Organism: Enterobacter hormaechei strain RHBSTW-00333

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: A0A5P6KDG5
• Locus tag: HV163_RS24315
• Protein ID: WP_021312768.1
• Coordinates: 9554..9970 (+)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: A0A5P6KGW8
• Locus tag: HV163_RS24310
• Protein ID: WP_021312767.1
• Coordinates: 9327..9557 (+)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
HV163_RS24270	4485..4958	+	474	WP_045340523.1	YkgJ family cysteine cluster protein	-
HV163_RS24275	5050..5280	+	231	WP_011977773.1	hypothetical protein	-
HV163_RS24280	6172..6954	-	783	WP_004152340.1	site-specific integrase	-
HV163_RS24285	6954..7286	-	333	WP_004152339.1	hypothetical protein	-
HV163_RS24290	7293..7691	-	399	WP_181561686.1	hypothetical protein	-
HV163_RS24295	7717..8046	-	330	WP_004152337.1	hypothetical protein	-
HV163_RS24300	8074..8382	-	309	WP_004152336.1	hypothetical protein	-
HV163_RS24305	8428..8634	-	207	WP_004153649.1	hypothetical protein	-
HV163_RS24310	9327..9557	+	231	WP_021312767.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
HV163_RS24315	9554..9970	+	417	WP_021312768.1	type II toxin-antitoxin system VapC family toxin	Toxin
HV163_RS24320	10068..10301	-	234	WP_089617563.1	helix-turn-helix domain-containing protein	-
HV163_RS24325	10307..11011	-	705	WP_001067855.1	IS6-like element IS26 family transposase	-
HV163_RS24330	11077..11406	+	330	Protein_16	L-2-amino-thiazoline-4-carboxylic acid hydrolase	-
HV163_RS24335	11403..12155	+	753	Protein_17	VOC family protein	-
HV163_RS24340	12256..13020	-	765	WP_032192077.1	GntR family transcriptional regulator	-
HV163_RS24345	13247..14032	+	786	WP_003032097.1	ABC transporter substrate-binding protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	-	mrkJ / mrkF / mrkD / mrkC / mrkB / mrkA	1..123311	123311
	-	flank	IS/Tn	-	-	10307..11011	704

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 (5-129)

Antitoxin

• SpoVT-AbrB domain (7-50)

Sequences

Toxin

Protein

• Length: 139 a.a.
• Molecular weight: 15175.60 Da
• Isoelectric Point: 7.2452

>T164038 WP_021312768.1 NZ_CP056720:9554-9970 [Enterobacter hormaechei]
VNKIYMLDTNICSFIMREQPEAVLKRLEQAVLRGHRIVVSAITYSEMRFGATGPKASPRHVQLVDAFCARLDAILPWDRA
AVDATTEIKVALRLAGTPIGPNDTAIAGHAIAAGAVLVTNNVREFERVPDLVLEDWVR

Nucleotide

• Length: 417 bp

>T164038 NZ_CP072787:c1377431-1377213 [Escherichia coli]
ATGTCCGAAAAACCTTTAACGAAAACCGATTATTTAATGCGTTTACGTCGTTGTCAGACAATTGACACGCTGGAGCGTGT
TATCGAGAAAAATAAATACGAATTATCAGATAATGAACTGGCGGTATTTTACTCAGCTGCAGATCACCGCCTCGCCGAAT
TGACCATGAATAAACTGTACGACAAGATCCCTTCCTCAGTATGGAAATTTATTCGCTAA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8722.81 Da
• Isoelectric Point: 4.4692

>AT164038 WP_021312767.1 NZ_CP056720:9327-9557 [Enterobacter hormaechei]
MRTVSIFKNGNNRAIRLPRDLDFEGVSELEIVREGDSIILRPVRPTWGSFAQLEKADPDFMAEREDVVSDEGRFNL

Nucleotide

• Length: 231 bp

>AT164038 NZ_CP072787:c1377831-1377457 [Escherichia coli]
ATGGATGAATACTCACCCAAAAGACATGATATCGCACAGCTTAAGTTTCTCTGTGAAACCCTGTATCATGACTGCCTTGC
AAACCTTGAAGAAAGCAATCATGGCTGGGTTAACGACCCAACCTCGGCGATCAACCTCCAGTTGAATGAACTGATTGAGC
ATATTGCGACCTTCGCACTTAATTACAAAATTAAGTATAATGAAGACAATAAGCTCATTGAGCAGATCGACGAATATCTG
GATGACACCTTTATGTTGTTCAGTAGTTATGGTATTAATATGCAGGATCTTCAGAAATGGCGGAAGTCAGGTAATCGACT
ATTCCGTTGTTTTGTCAATGCGACGAAAGAGAATCCTGCGAGTTTATCTTGTTAG

Structures

Toxin

• AlphaFold DB: A0A5P6KDG5

Antitoxin

• AlphaFold DB: A0A5P6KGW8