Detailed information of TA system TA170334

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): ccdAB/CcdA(antitoxin)
• Location: 3343089..3343635
• Replicon: chromosome
• Accession: NZ_CP060401
• Organism: Xenorhabdus nematophila strain SII

Toxin (Protein)

• Gene name: ccdB
• Uniprot ID: N1NNP2
• Locus tag: H8F46_RS14880
• Protein ID: WP_010847542.1
• Coordinates: 3343089..3343394 (-)
• Length: 102 a.a.

Antitoxin (Protein)

• Gene name: ccdA
• Uniprot ID: -
• Locus tag: H8F46_RS14885
• Protein ID: WP_187007053.1
• Coordinates: 3343396..3343635 (-)
• Length: 80 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
H8F46_RS14870	3340363..3340671	-	309	WP_010847546.1	formate dehydrogenase accessory protein FdhE	-
H8F46_RS14875	3340908..3342986	+	2079	WP_010847544.1	plasmid pRiA4b ORF-3 family protein	-
H8F46_RS14880	3343089..3343394	-	306	WP_010847542.1	CcdB family protein	Toxin
H8F46_RS14885	3343396..3343635	-	240	WP_187007053.1	type II toxin-antitoxin system CcdA family antitoxin	Antitoxin
H8F46_RS14890	3343718..3344059	-	342	WP_187007132.1	formate dehydrogenase subunit gamma	-
H8F46_RS14895	3344068..3344268	-	201	Protein_2896	hypothetical protein	-
H8F46_RS14900	3344417..3345247	+	831	WP_041978206.1	formate dehydrogenase accessory sulfurtransferase FdhD	-
H8F46_RS14905	3345253..3346017	-	765	WP_038219944.1	hypothetical protein	-
H8F46_RS14910	3346650..3347390	+	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

>T170334 WP_010847542.1 NZ_CP060401:c3343394-3343089 [Xenorhabdus nematophila]
MQYTVYKNTGNPDYSYLLDVQSDIIDVLETRLVIPLFLKSNFHGRIPTRLCPTLNIDGNEYLVMTHAMASIRVSMLGDEM
TNVSSHRQLIKDAMDLLFDGF

Nucleotide

• Length: 306 bp

>T170334 NZ_CP077291:153544-153930 [Citrobacter farmeri]
ATGCACAAGAAACCCGTGCTGTTCGATACCAATATCCTGATTGATTTATTTAGCGGTCACCAGGAAGCGCAGCGAGCACT
GGAAGCGTTTCCGCCGCAGAATGCTATCAGCCTGATCACCTGGATGGAAGTGATGGTGGGAGCAAAAAAATATCATCAGG
AATATCGTACGCGCGTGGCGTTGAGTGCGTTCAATATCATCGGTGTTTCACCGGAAATTGCTGAGCGAAGCGTGAATCTC
AGGCAGGAATATAAGATGAAACTTCCGGACGCGATCATTCTGGCTACTGCGCAGATTCATCGGTTTGCGCTTGTGACGCG
CAATACCAGAGATTTTGCGGGGATCCCTGGCGTCATCACACCTTATCAGTTGCAGACCGGACGGTAA

Antitoxin

Protein

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

>AT170334 WP_187007053.1 NZ_CP060401:c3343635-3343396 [Xenorhabdus nematophila]
MTALHSRTKKTVSVTVSPELYEQAKQIGLNFSAILTQALIAELKSAAAEQWKRDNREGLEELNRVTREHGLLSDQYRTF

Nucleotide

• Length: 240 bp

>AT170334 NZ_CP077291:153305-153544 [Citrobacter farmeri]
ATGGCTGGAATGGACATGGGCAGAATATTACTCGACTTATCCGATGAGGCGATCAAACGCCTTGACGATCTCAAGCAGCT
GCGGAATCTGCCGCGTGCGGAGTTGCTGCGCGAAGCAGTGGAACAGTACCTTGAAAGGCAAGGCCAGGCTGAAACCATGA
TTTCCAATGCGCTAGGGATCTGGCAAGGCTGTGAGGAAGATGGCGTTGAGTATCAGAAGACGTTGCGCGAGGAATGGTAA

Structures

Toxin

• AlphaFold DB: N1NNP2