Detailed information of TA system TA021808

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 453006..453667
• Replicon: chromosome
• Accession: NC_008686
• Organism: Paracoccus denitrificans PD1222

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: PDEN_RS02400
• Protein ID: WP_041529753.1
• Coordinates: 453278..453667 (+)
• Length: 130 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A5P8JJZ9
• Locus tag: PDEN_RS02395
• Protein ID: WP_011746827.1
• Coordinates: 453006..453269 (+)
• Length: 88 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
PDEN_RS02375	448844..450010	+	1167	WP_011746823.1	alpha/beta hydrolase	-
PDEN_RS02380	450007..450780	+	774	WP_011746824.1	SDR family oxidoreductase	-
PDEN_RS02385	450916..452154	+	1239	WP_011746825.1	MFS transporter	-
PDEN_RS25545	452349..452684	-	336	WP_128492979.1	hypothetical protein	-
PDEN_RS02395	453006..453269	+	264	WP_011746827.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
PDEN_RS02400	453278..453667	+	390	WP_041529753.1	type II toxin-antitoxin system VapC family toxin	Toxin
PDEN_RS27305	453782..453910	+	129	Protein_491	chromosome partitioning protein ParB	-
PDEN_RS02405	454495..454833	+	339	WP_011746829.1	type II toxin-antitoxin system RelE/ParE family toxin	-
PDEN_RS02410	454830..455108	+	279	WP_041529754.1	helix-turn-helix domain-containing protein	-
PDEN_RS02415	455218..455601	+	384	WP_011746831.1	hypothetical 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

• PIN domain (1-120)

Antitoxin

• SpoVT-AbrB domain (16-53)

Sequences

Toxin

Protein

• Length: 130 a.a.
• Molecular weight: 13626.62 Da
• Isoelectric Point: 5.1700

>T21808 WP_041529753.1 NC_008686:453278-453667 [Paracoccus denitrificans PD1222]
MLDTNIVSDLLRHPDGSAAKRIAEVGPDAICVSIITAAELRYGCARKGSAKLLAHVEAILENVQVLALDVPADAEYGGIR
AELEAAGKPIGPNDLLIAAHAYAAGAILVTDNTGEFSRVRGLRVENWIR

Nucleotide

• Length: 390 bp

>T21808 NC_008686:453278-453667 [Paracoccus denitrificans PD1222]
ATGCTCGACACCAATATCGTCTCCGATCTGCTGCGACATCCTGACGGCAGCGCGGCAAAGCGCATTGCCGAGGTCGGCCC
GGATGCGATCTGCGTGAGCATCATCACAGCCGCAGAGCTGCGATATGGGTGCGCCAGGAAAGGGTCTGCGAAACTCCTGG
CGCATGTCGAGGCGATACTGGAAAATGTGCAGGTTCTGGCGCTCGATGTGCCTGCTGACGCGGAGTATGGCGGCATTCGT
GCCGAGCTTGAGGCCGCTGGCAAGCCCATTGGTCCAAACGATCTGTTGATCGCAGCTCATGCCTACGCCGCAGGCGCAAT
CCTCGTGACTGACAACACGGGCGAGTTTTCCCGCGTTCGCGGCCTGCGGGTTGAAAACTGGATCAGGTAG

Antitoxin

Protein

• Length: 88 a.a.
• Molecular weight: 9842.23 Da
• Isoelectric Point: 4.8232

>AT21808 WP_011746827.1 NC_008686:453006-453269 [Paracoccus denitrificans PD1222]
MPHPQPSSGPREAKLFRNNKSQAVRIPADFEMPGDRVNIYRDGNRLIIEPLRRKNLLEVLAGLDPLGPEDQFPDVDETLL
PAKEIDL

Nucleotide

• Length: 264 bp

>AT21808 NC_008686:453006-453269 [Paracoccus denitrificans PD1222]
ATGCCGCATCCGCAGCCATCTTCAGGGCCTCGTGAAGCCAAGCTCTTCCGCAACAACAAGAGCCAGGCCGTCCGCATCCC
GGCTGACTTCGAGATGCCGGGGGATCGGGTGAACATCTATCGTGACGGGAACCGGCTTATCATCGAGCCGCTGCGCCGCA
AGAACCTGCTTGAAGTGCTGGCCGGACTAGACCCGCTTGGGCCAGAGGATCAGTTTCCTGATGTGGACGAGACGCTTCTC
CCGGCCAAGGAAATCGACCTTTGA

Structures

Antitoxin

• AlphaFold DB: A0A5P8JJZ9