Detailed information of TA system TA111663

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 3431433..3432085
• Replicon: chromosome
• Accession: NZ_CP032329
• Organism: Xenorhabdus nematophila strain YL001

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: D3VFY8
• Locus tag: D3790_RS15655
• Protein ID: WP_013185764.1
• Coordinates: 3431696..3432085 (+)
• Length: 130 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: D3790_RS15650
• Protein ID: WP_038219381.1
• Coordinates: 3431433..3431696 (+)
• Length: 88 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
D3790_RS15605	3426674..3426928	+	255	WP_041979744.1	AAA family ATPase	-
D3790_RS15610	3426947..3427288	+	342	WP_041979746.1	hypothetical protein	-
D3790_RS15615	3427371..3427718	+	348	Protein_2974	ISAs1 family transposase	-
D3790_RS15620	3427691..3428044	-	354	WP_072021876.1	M28 family peptidase	-
D3790_RS15625	3427980..3428462	-	483	WP_010846161.1	hypothetical protein	-
D3790_RS15630	3429223..3429777	+	555	WP_038219384.1	cytochrome b	-
D3790_RS15635	3429798..3430379	+	582	WP_010846163.1	YceI family protein	-
D3790_RS15640	3430537..3430850	+	314	Protein_2979	type II toxin-antitoxin system RelE/ParE family toxin	-
D3790_RS15645	3430847..3431128	+	282	WP_010846165.1	helix-turn-helix transcriptional regulator	-
D3790_RS15650	3431433..3431696	+	264	WP_038219381.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
D3790_RS15655	3431696..3432085	+	390	WP_013185764.1	type II toxin-antitoxin system VapC family toxin	Toxin
D3790_RS15660	3432428..3433369	-	942	WP_013185763.1	phenylacetic acid degradation operon negative regulatory protein PaaX	-
D3790_RS15665	3433457..3433957	-	501	WP_013185762.1	GNAT family N-acetyltransferase	-
D3790_RS15670	3433954..3434232	-	279	WP_010846171.1	DUF1778 domain-containing protein	-
D3790_RS15675	3434370..3435713	-	1344	WP_041977333.1	phenylacetate--CoA ligase	-
D3790_RS15680	3435799..3437013	-	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	-	-	3427446..3427718	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

>T111663 WP_013185764.1 NZ_CP032329:3431696-3432085 [Xenorhabdus nematophila]
MYMLDTNTVSYIFRQNQAVTAKLRTIPPSEICISSITEAELRFGLAKRQNHALEQVVNTFIDSITVYDWDQNAAKTYGTL
RAGMEQTGRTMGTMDQLIAAHALSRELTLVTSDSAFEMVIGLNIENWAK

Nucleotide

• Length: 390 bp

>T111663 NZ_CP032329:3431696-3432085 [Xenorhabdus nematophila]
ATGTATATGTTGGACACAAACACGGTCAGCTATATTTTCCGTCAAAATCAGGCGGTAACTGCTAAATTGCGAACCATACC
ACCATCAGAGATATGTATTTCCAGTATCACTGAAGCTGAGTTGCGTTTTGGTTTGGCTAAACGTCAAAATCACGCATTAG
AACAAGTCGTAAATACATTTATTGATTCAATCACTGTTTACGACTGGGATCAAAACGCTGCCAAAACCTATGGGACATTG
CGAGCCGGCATGGAACAGACTGGCCGAACTATGGGGACAATGGATCAACTGATTGCAGCACATGCACTGAGCCGAGAATT
AACTCTCGTTACCAGCGATTCTGCGTTTGAAATGGTTATTGGATTAAATATCGAAAATTGGGCGAAATAG

Antitoxin

Protein

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

>AT111663 WP_038219381.1 NZ_CP032329:3431433-3431696 [Xenorhabdus nematophila]
MERIAKIFKNGRNQAVRLPVAFEFDTDQVYIRKNENGDVILSKNRPSTDNWDNFFNMLGAVSVPDNFLDANDRNQDDTER
DPFEDVF

Nucleotide

• Length: 264 bp

>AT111663 NZ_CP032329:3431433-3431696 [Xenorhabdus nematophila]
ATGGAACGAATTGCAAAAATCTTCAAAAACGGACGCAATCAGGCTGTCAGGCTGCCTGTTGCGTTTGAATTTGATACTGA
CCAGGTTTATATCCGAAAAAATGAGAACGGAGACGTTATTCTCTCCAAAAACAGACCGTCTACTGACAATTGGGATAATT
TTTTCAATATGCTCGGTGCTGTATCTGTTCCTGATAATTTTCTGGATGCAAATGATCGTAACCAGGATGACACAGAACGT
GACCCATTCGAGGACGTTTTCTGA

Structures

Toxin

• AlphaFold DB: D3VFY8