Detailed information of TA system TA170335

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 3431485..3432137
• Replicon: chromosome
• Accession: NZ_CP060401
• Organism: Xenorhabdus nematophila strain SII

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: D3VFY8
• Locus tag: H8F46_RS15320
• Protein ID: WP_013185764.1
• Coordinates: 3431748..3432137 (+)
• Length: 130 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: H8F46_RS15315
• Protein ID: WP_038219381.1
• Coordinates: 3431485..3431748 (+)
• Length: 88 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
H8F46_RS15270	3426726..3426980	+	255	WP_041979744.1	AAA family ATPase	-
H8F46_RS15275	3426999..3427340	+	342	WP_041979746.1	hypothetical protein	-
H8F46_RS15280	3427423..3427770	+	348	Protein_2969	ISAs1 family transposase	-
H8F46_RS15285	3427743..3428096	-	354	WP_072021876.1	M28 family peptidase	-
H8F46_RS15290	3428032..3428514	-	483	WP_010846161.1	hypothetical protein	-
H8F46_RS15295	3429275..3429829	+	555	WP_038219384.1	cytochrome b	-
H8F46_RS15300	3429850..3430431	+	582	WP_010846163.1	YceI family protein	-
H8F46_RS15305	3430589..3430902	+	314	Protein_2974	type II toxin-antitoxin system RelE/ParE family toxin	-
H8F46_RS15310	3430899..3431180	+	282	WP_010846165.1	helix-turn-helix transcriptional regulator	-
H8F46_RS15315	3431485..3431748	+	264	WP_038219381.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
H8F46_RS15320	3431748..3432137	+	390	WP_013185764.1	type II toxin-antitoxin system VapC family toxin	Toxin
H8F46_RS15325	3432480..3433421	-	942	WP_013185763.1	phenylacetic acid degradation operon negative regulatory protein PaaX	-
H8F46_RS15330	3433509..3434009	-	501	WP_013185762.1	GNAT family N-acetyltransferase	-
H8F46_RS15335	3434006..3434284	-	279	WP_010846171.1	DUF1778 domain-containing protein	-
H8F46_RS15340	3434422..3435765	-	1344	WP_041977333.1	phenylacetate--CoA ligase	-
H8F46_RS15345	3435851..3437065	-	1215	WP_038219377.1	3-oxoadipyl-CoA thiolase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	flank	IS/Tn	-	-	3427498..3427770	272

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 (2-117)

Antitoxin

No domain identified.

Sequences

Toxin

Protein

• Length: 130 a.a.
• Molecular weight: 14464.48 Da
• Isoelectric Point: 5.1131

>T170335 WP_013185764.1 NZ_CP060401:3431748-3432137 [Xenorhabdus nematophila]
MYMLDTNTVSYIFRQNQAVTAKLRTIPPSEICISSITEAELRFGLAKRQNHALEQVVNTFIDSITVYDWDQNAAKTYGTL
RAGMEQTGRTMGTMDQLIAAHALSRELTLVTSDSAFEMVIGLNIENWAK

Nucleotide

• Length: 390 bp

>T170335 NZ_CP077291:726307-726594 [Citrobacter farmeri]
ATGCCAACGGAGTTTGAATGGGATGCAAATAAGGCAAAAAGCAACGTCGGTAAACATGGTGTCCGTTTTGAAGATGCGAT
TCTGGTATTTGACGATCCGCGACATCTGTCTCGTCAGGATCGCATAGAGAACGGGGAATATCGCTGGCAAACCCTTGGTC
TCGTTCATAGCATCGTGGTCATCCTGGTTGCTCACAGCATTCGGTTTGAAAGTGGTATTGAGGTCATTCGCATCATTAGC
GCCCGAAAGGCGGATCGTAAAGAGAGGAATCGTTATGAGCATGGTTAA

Antitoxin

Protein

• Length: 88 a.a.
• Molecular weight: 10158.16 Da
• Isoelectric Point: 4.2455

>AT170335 WP_038219381.1 NZ_CP060401:3431485-3431748 [Xenorhabdus nematophila]
MERIAKIFKNGRNQAVRLPVAFEFDTDQVYIRKNENGDVILSKNRPSTDNWDNFFNMLGAVSVPDNFLDANDRNQDDTER
DPFEDVF

Nucleotide

• Length: 264 bp

>AT170335 NZ_CP077291:726581-726883 [Citrobacter farmeri]
ATGAGCATGGTTAAACATAAACGCGGCACGCAATCCGCGCTCAGTGCTCAGCATGAGGTTGAACTCAAGGCGCTGGCGAA
GCAATCAGATGATGAAATTGATTACAGCGATATTCCCTTTTCGCCAGATGAGCAGTGGTCTGAAGCAGTACGCGGTAAGT
TTTTTCGCCCCTTAAAGACCCAGGCGTCCGTACGTATTGACGCTGATGTGATGGAATGGCTGAAGCGCCCGGGGAAAGGG
TATCAGACACGGCTTAACGCGATTTTGCGGGAGGCAATGCTGCGGGAACAAAACAAGAAATAG

Structures

Toxin

• AlphaFold DB: D3VFY8