Detailed information of TA system TA111662

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): ccdAB/CcdA(antitoxin)
• Location: 3343042..3343588
• Replicon: chromosome
• Accession: NZ_CP032329
• Organism: Xenorhabdus nematophila strain YL001

Toxin (Protein)

• Gene name: ccdB
• Uniprot ID: N1NNP2
• Locus tag: D3790_RS15195
• Protein ID: WP_010847542.1
• Coordinates: 3343042..3343347 (-)
• Length: 102 a.a.

Antitoxin (Protein)

• Gene name: ccdA
• Uniprot ID: -
• Locus tag: D3790_RS15200
• Protein ID: WP_187007053.1
• Coordinates: 3343349..3343588 (-)
• Length: 80 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
D3790_RS15180	3340316..3340624	-	309	WP_010847546.1	formate dehydrogenase accessory protein FdhE	-
D3790_RS15190	3340861..3342939	+	2079	WP_010847544.1	plasmid pRiA4b ORF-3 family protein	-
D3790_RS15195	3343042..3343347	-	306	WP_010847542.1	CcdB family protein	Toxin
D3790_RS15200	3343349..3343588	-	240	WP_187007053.1	type II toxin-antitoxin system CcdA family antitoxin	Antitoxin
D3790_RS15205	3343671..3344012	-	342	WP_187007132.1	formate dehydrogenase subunit gamma	-
D3790_RS15210	3344021..3344221	-	201	Protein_2901	hypothetical protein	-
D3790_RS15215	3344370..3345200	+	831	WP_041978206.1	formate dehydrogenase accessory sulfurtransferase FdhD	-
D3790_RS15220	3345206..3345970	-	765	WP_038219944.1	hypothetical protein	-
D3790_RS15225	3346603..3347343	+	741	WP_010847535.1	transferrin-binding protein-like solute binding protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)

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

• Toxin CcdB (2-100)

Antitoxin

• Post-segregation antitoxin CcdA (9-79)

Sequences

Toxin

Protein

• Length: 102 a.a.
• Molecular weight: 11543.30 Da
• Isoelectric Point: 4.9756

>T111662 WP_010847542.1 NZ_CP032329:c3343347-3343042 [Xenorhabdus nematophila]
MQYTVYKNTGNPDYSYLLDVQSDIIDVLETRLVIPLFLKSNFHGRIPTRLCPTLNIDGNEYLVMTHAMASIRVSMLGDEM
TNVSSHRQLIKDAMDLLFDGF

Nucleotide

• Length: 306 bp

>T111662 NZ_CP032329:c3343347-3343042 [Xenorhabdus nematophila]
ATGCAGTACACAGTTTACAAAAATACAGGTAATCCTGATTATTCCTATCTGTTGGATGTTCAGAGCGACATTATTGATGT
ATTAGAAACACGATTGGTCATTCCATTATTCCTAAAATCAAATTTCCACGGGCGAATTCCAACTCGATTATGCCCGACCC
TGAACATTGATGGGAACGAATATCTCGTTATGACTCACGCGATGGCTAGCATCAGAGTCTCTATGTTAGGTGATGAGATG
ACAAATGTTTCATCCCACAGACAGCTAATTAAAGATGCGATGGATTTACTCTTTGACGGGTTTTGA

Antitoxin

Protein

• Length: 80 a.a.
• Molecular weight: 8989.18 Da
• Isoelectric Point: 8.5906

>AT111662 WP_187007053.1 NZ_CP032329:c3343588-3343349 [Xenorhabdus nematophila]
MTALHSRTKKTVSVTVSPELYEQAKQIGLNFSAILTQALIAELKSAAAEQWKRDNREGLEELNRVTREHGLLSDQYRTF

Nucleotide

• Length: 240 bp

>AT111662 NZ_CP032329:c3343588-3343349 [Xenorhabdus nematophila]
ATGACAGCATTACACTCCAGAACTAAAAAAACTGTCAGCGTGACTGTTTCACCAGAACTGTATGAACAAGCAAAACAAAT
AGGACTAAATTTTTCTGCTATTTTGACTCAGGCATTAATTGCAGAACTTAAATCTGCGGCGGCTGAGCAGTGGAAACGTG
ATAATAGGGAGGGGTTGGAAGAACTCAATCGCGTCACCCGTGAACATGGTCTACTGTCCGATCAATATAGGACATTTTAA

Structures

Toxin

• AlphaFold DB: N1NNP2