Detailed information of TA system TA025415

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 2110913..2111571
• Replicon: chromosome
• Accession: NC_015723
• Organism: Cupriavidus necator N-1

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: F8GRP6
• Locus tag: CNE_RS27630
• Protein ID: WP_013953593.1
• Coordinates: 2110913..2111323 (-)
• Length: 137 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: CNE_RS27635
• Protein ID: WP_041228698.1
• Coordinates: 2111320..2111571 (-)
• Length: 84 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
CNE_RS27610	2106531..2107505	-	975	WP_013953589.1	LysR family transcriptional regulator	-
CNE_RS27615	2107595..2108824	+	1230	WP_013953590.1	CoA transferase	-
CNE_RS27620	2108821..2109831	+	1011	WP_013953591.1	NADPH:quinone oxidoreductase family protein	-
CNE_RS27625	2109828..2110832	+	1005	WP_013953592.1	tripartite tricarboxylate transporter substrate binding protein	-
CNE_RS27630	2110913..2111323	-	411	WP_013953593.1	type II toxin-antitoxin system VapC family toxin	Toxin
CNE_RS27635	2111320..2111571	-	252	WP_041228698.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
CNE_RS27640	2111930..2113105	+	1176	WP_013953595.1	branched-chain amino acid ABC transporter substrate-binding protein	-
CNE_RS27645	2113187..2114116	+	930	WP_013953596.1	branched-chain amino acid ABC transporter permease	-
CNE_RS27650	2114184..2115314	+	1131	WP_041228931.1	branched-chain amino acid ABC transporter permease	-
CNE_RS27655	2115311..2116093	+	783	WP_013953598.1	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

• PIN domain (4-123)

Antitoxin

• SpoVT-AbrB domain (8-55)

Sequences

Toxin

Protein

• Length: 137 a.a.
• Molecular weight: 14472.86 Da
• Isoelectric Point: 7.2774

>T25415 WP_013953593.1 NC_015723:c2111323-2110913 [Cupriavidus necator N-1]
MTRYMLDTNIVSHLLRAHPAVVARVTAAPMAALCLSAITGAELMYGLAKRPGAARLARAVDELLRRVEVLPWTPSVMAGY
GETRAALESQGQPMGALDLLIAAHALETGAVLVTNDQAFRRVPGLVVEDWSVPTGN

Nucleotide

• Length: 411 bp

>T25415 NC_015723:c2111323-2110913 [Cupriavidus necator N-1]
ATGACGCGCTACATGCTCGACACCAATATCGTGAGCCACCTGCTGCGGGCACATCCGGCAGTCGTGGCACGCGTGACGGC
CGCGCCGATGGCGGCGCTGTGCCTGTCAGCCATCACCGGCGCGGAACTGATGTACGGGCTGGCCAAACGCCCCGGTGCAG
CGCGCCTCGCGCGCGCAGTCGACGAACTGCTGCGCAGGGTCGAGGTGTTGCCCTGGACCCCTTCAGTAATGGCCGGCTAT
GGTGAGACCCGCGCTGCGCTGGAATCCCAAGGACAGCCAATGGGGGCACTGGACTTGCTGATTGCCGCGCACGCGCTGGA
GACTGGTGCGGTGCTGGTGACCAATGACCAGGCGTTCCGGCGCGTTCCTGGCCTGGTGGTGGAGGACTGGTCGGTTCCGA
CCGGAAACTGA

Antitoxin

Protein

• Length: 84 a.a.
• Molecular weight: 9164.27 Da
• Isoelectric Point: 6.3139

>AT25415 WP_041228698.1 NC_015723:c2111571-2111320 [Cupriavidus necator N-1]
VSTTAKIFTTGRSQAVRLPQEFRFAEREVYIRRDPSTGDVILSRRPESWDGFLAAIKDSAVPADFLAGRAQGEQARDPLA
GLE

Nucleotide

• Length: 252 bp

>AT25415 NC_015723:c2111571-2111320 [Cupriavidus necator N-1]
GTGAGCACCACTGCCAAAATTTTCACCACTGGCCGCAGCCAGGCGGTACGGCTGCCGCAGGAATTCCGCTTCGCCGAGCG
CGAGGTATATATACGCCGCGACCCGTCCACCGGCGACGTGATCCTGTCGCGCCGGCCGGAGAGTTGGGACGGCTTCCTGG
CAGCCATCAAGGACAGCGCCGTGCCGGCAGACTTCCTGGCCGGCCGCGCGCAGGGCGAACAAGCCAGGGATCCGCTGGCG
GGCCTCGAATGA

Structures

Toxin

• AlphaFold DB: F8GRP6