Detailed information of TA system TA030000

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): ParE-CopA/ParE-RHH
• Location: 349010..349608
• Replicon: chromosome
• Accession: NC_022247
• Organism: Variovorax paradoxus B4

Toxin (Protein)

• Gene name: parE
• Uniprot ID: -
• Locus tag: VAPA_RS01605
• Protein ID: WP_041945975.1
• Coordinates: 349285..349608 (+)
• Length: 108 a.a.

Antitoxin (Protein)

• Gene name: copA
• Uniprot ID: T1X4C2
• Locus tag: VAPA_RS01600
• Protein ID: WP_021005018.1
• Coordinates: 349010..349297 (+)
• Length: 96 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
VAPA_RS01580	345015..346400	-	1386	WP_041945973.1	MFS transporter	-
VAPA_RS01585	346459..347322	+	864	WP_021005016.1	M48 family metallopeptidase	-
VAPA_RS01590	347856..348212	+	357	WP_041945974.1	hypothetical protein	-
VAPA_RS01595	348268..348540	+	273	WP_021005017.1	tyrosine-type recombinase/integrase	-
VAPA_RS01600	349010..349297	+	288	WP_021005018.1	CopG family ribbon-helix-helix protein	Antitoxin
VAPA_RS01605	349285..349608	+	324	WP_041945975.1	type II toxin-antitoxin system RelE/ParE family toxin	Toxin
VAPA_RS01610	349979..351694	+	1716	WP_021005019.1	allophanate hydrolase	-
VAPA_RS01615	351712..352713	+	1002	WP_021005020.1	ABC transporter substrate-binding protein	-
VAPA_RS01620	352716..353546	+	831	WP_021005021.1	ABC transporter permease	-
VAPA_RS01625	353543..354376	+	834	WP_021005022.1	ABC transporter ATP-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-antitoxin system, RelE/ParE toxin family (4-96)

Antitoxin

• Ribbon-helix-helix protein, CopG (10-45)

Sequences

Toxin

Protein

• Length: 108 a.a.
• Molecular weight: 12019.78 Da
• Isoelectric Point: 9.4502

>T30000 WP_041945975.1 NC_022247:349285-349608 [Variovorax paradoxus B4]
MPQVRFAPAALRELQRLREFLRPKNPAAARRAAETIIKAVQVLRQQPMVGRPVEDLPLEYREWVIDFGASGYVALYRYAG
EGDEVTVLALRHQREVGYEPGSTAPGS

Nucleotide

• Length: 324 bp

>T30000 NC_022247:349285-349608 [Variovorax paradoxus B4]
ATGCCACAAGTGAGGTTCGCGCCGGCGGCGCTGCGCGAACTGCAGCGGCTGCGTGAGTTCTTGCGCCCGAAGAACCCGGC
GGCCGCCCGACGTGCTGCTGAGACGATCATCAAGGCCGTTCAGGTCCTGCGTCAGCAGCCGATGGTGGGGCGGCCGGTGG
AAGATCTGCCACTTGAATACCGCGAGTGGGTGATCGACTTCGGCGCCAGCGGCTACGTGGCGTTGTATCGTTACGCTGGC
GAGGGCGATGAGGTCACGGTGCTGGCCCTGCGCCATCAGCGTGAGGTTGGCTACGAGCCGGGTTCAACCGCTCCAGGCAG
CTGA

Antitoxin

Protein

• Length: 96 a.a.
• Molecular weight: 10898.37 Da
• Isoelectric Point: 6.3280

>AT30000 WP_021005018.1 NC_022247:349010-349297 [Variovorax paradoxus B4]
MTTAISPTPVKLDPELKVRLKRLATARHRAPHWLMREAIAQYVDREEKRQSLHQDAVAAWEEFEETGLHVSGNEVMAWLE
TWGTDNELPAPACHK

Nucleotide

• Length: 288 bp

>AT30000 NC_022247:349010-349297 [Variovorax paradoxus B4]
ATGACTACCGCCATCAGCCCGACGCCCGTCAAGCTCGATCCTGAACTCAAGGTGCGCCTGAAGCGCCTGGCGACGGCGCG
CCACCGGGCGCCTCACTGGCTGATGCGTGAGGCCATTGCCCAGTACGTTGATCGCGAAGAAAAGCGCCAGTCCCTGCACC
AGGACGCCGTGGCGGCGTGGGAGGAGTTCGAGGAAACGGGCCTGCACGTCTCGGGCAACGAGGTGATGGCCTGGCTGGAG
ACCTGGGGCACTGACAACGAGCTGCCAGCGCCTGCATGCCACAAGTGA

Structures

Antitoxin

• AlphaFold DB: T1X4C2