Detailed information of TA system TA111659

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): phd-doc/Doc-RelB
• Location: 3236514..3237130
• Replicon: chromosome
• Accession: NZ_CP032329
• Organism: Xenorhabdus nematophila strain YL001

Toxin (Protein)

• Gene name: doc
• Uniprot ID: D3VH06
• Locus tag: D3790_RS14610
• Protein ID: WP_013183155.1
• Coordinates: 3236514..3236912 (-)
• Length: 133 a.a.

Antitoxin (Protein)

• Gene name: phd
• Uniprot ID: N1NKK1
• Locus tag: D3790_RS14615
• Protein ID: WP_010847654.1
• Coordinates: 3236909..3237130 (-)
• Length: 74 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
D3790_RS14580	3232037..3232483	-	447	WP_038219114.1	DUF805 domain-containing protein	-
D3790_RS14585	3232542..3233162	+	621	WP_038219100.1	DUF1454 family protein	-
D3790_RS14590	3233251..3234018	+	768	WP_038219101.1	triose-phosphate isomerase	-
D3790_RS14600	3234534..3235310	+	777	WP_010847657.1	type IV toxin-antitoxin system AbiEi family antitoxin	-
D3790_RS14605	3235373..3236272	+	900	WP_041979641.1	nucleotidyl transferase AbiEii/AbiGii toxin family protein	-
D3790_RS14610	3236514..3236912	-	399	WP_013183155.1	type II toxin-antitoxin system death-on-curing family toxin	Toxin
D3790_RS14615	3236909..3237130	-	222	WP_010847654.1	type II toxin-antitoxin system Phd/YefM family antitoxin	Antitoxin
D3790_RS14620	3237389..3237949	-	561	Protein_2787	DUF4102 domain-containing protein	-
D3790_RS14630	3238277..3239101	-	825	WP_038219103.1	DNA damage-inducible protein D	-
D3790_RS14640	3239811..3240023	-	213	WP_113935543.1	ogr/Delta-like zinc finger family protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Prophage	-	-	3236514..3253688	17174

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

• Death on curing protein (5-120)

Antitoxin

• Type II toxin-antitoxin system, antitoxin Phd/YefM (1-53)

Sequences

Toxin

Protein

• Length: 133 a.a.
• Molecular weight: 14931.84 Da
• Isoelectric Point: 6.3262

>T111659 WP_013183155.1 NZ_CP032329:c3236912-3236514 [Xenorhabdus nematophila]
MIWVSAQEVIAFHDRILQRLPGVAGMPDSGRAEALIYRVQNRTHHEGITDIFELAATYWAAIARGHIFNDGNKRTAFFVT
MTFLYRNGIKIRDNDNTLENLTVDAATGEKTVDQLAQHLRELVDYTNPSCNP

Nucleotide

• Length: 399 bp

>T111659 NZ_CP032329:c3236912-3236514 [Xenorhabdus nematophila]
ATGATATGGGTCAGCGCACAGGAAGTTATCGCTTTTCATGACCGAATATTACAACGGCTTCCCGGCGTTGCCGGAATGCC
CGATTCTGGTAGAGCTGAAGCGCTCATCTATCGGGTACAAAACCGTACACACCATGAAGGCATAACAGATATTTTTGAAC
TTGCAGCTACCTATTGGGCTGCTATCGCTCGTGGTCATATTTTCAATGATGGTAATAAGCGCACAGCGTTTTTCGTTACC
ATGACTTTTCTCTATCGTAACGGTATCAAGATCCGTGATAACGACAATACATTGGAAAACTTAACAGTAGATGCCGCTAC
GGGCGAGAAAACCGTTGACCAGTTGGCGCAGCACCTGCGCGAATTGGTGGACTATACTAACCCGAGCTGTAATCCATGA

Antitoxin

Protein

• Length: 74 a.a.
• Molecular weight: 8171.99 Da
• Isoelectric Point: 5.5589

>AT111659 WP_010847654.1 NZ_CP032329:c3237130-3236909 [Xenorhabdus nematophila]
MRTYTSTQARANIAEVLDTAAHGEPVEITRRDGSSAVVISRAEFDNWQNAKLDAEFDSIMQRHGHTIEALTNR

Nucleotide

• Length: 222 bp

>AT111659 NZ_CP032329:c3237130-3236909 [Xenorhabdus nematophila]
ATGCGTACATACACCTCAACTCAAGCCCGTGCCAACATCGCGGAAGTGTTGGACACAGCGGCTCACGGTGAACCTGTTGA
AATCACTCGTCGAGACGGTAGTTCAGCGGTCGTTATCAGTAGAGCTGAATTCGATAATTGGCAAAACGCTAAGCTGGATG
CAGAGTTCGATTCGATTATGCAACGTCATGGGCATACGATAGAGGCGCTGACAAATCGATGA

Structures

Toxin

• AlphaFold DB: D3VH06

Antitoxin

• AlphaFold DB: N1NKK1