Detailed information of TA system TA022773

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 3253395..3254052
• Replicon: chromosome
• Accession: NC_010524
• Organism: Leptothrix cholodnii SP-6

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: LCHO_RS14765
• Protein ID: WP_012347970.1
• Coordinates: 3253395..3253805 (-)
• Length: 137 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: B1XYH2
• Locus tag: LCHO_RS14770
• Protein ID: WP_012347971.1
• Coordinates: 3253819..3254052 (-)
• Length: 78 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LCHO_RS14745	3249435..3249737	+	303	WP_012347965.1	N-acetyltransferase	-
LCHO_RS14750	3249754..3250878	-	1125	WP_012347966.1	trypsin-like peptidase domain-containing protein	-
LCHO_RS14755	3251121..3252008	+	888	WP_012347968.1	EamA family transporter RarD	-
LCHO_RS14760	3252040..3253377	+	1338	WP_012347969.1	ABC transporter substrate-binding protein	-
LCHO_RS14765	3253395..3253805	-	411	WP_012347970.1	type II toxin-antitoxin system VapC family toxin	Toxin
LCHO_RS14770	3253819..3254052	-	234	WP_012347971.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
LCHO_RS14775	3254045..3254323	+	279	WP_043704348.1	hypothetical protein	-
LCHO_RS23425	3254528..3255202	-	675	WP_012347972.1	hypothetical protein	-
LCHO_RS22820	3255202..3256251	-	1050	WP_012347973.1	DUF262 domain-containing protein	-
LCHO_RS14780	3256555..3257034	-	480	WP_012347974.1	VOC family protein	-
LCHO_RS14785	3257259..3257849	+	591	WP_012347975.1	CBS domain-containing protein	-
LCHO_RS14790	3257925..3258560	+	636	WP_012347976.1	glutathione S-transferase family 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 (7-55)

Sequences

Toxin

Protein

• Length: 137 a.a.
• Molecular weight: 14847.14 Da
• Isoelectric Point: 6.8809

>T22773 WP_012347970.1 NC_010524:c3253805-3253395 [Leptothrix cholodnii SP-6]
MLKYLLDTNIVIYVIKRRPIEVMGVFNENAGRMAISAITLSELYHGAEKSAKVAQNLAVVEEFSSLLEVLPYTAKAASHY
GAIRTALEKAGQPIGLNDLHIAAHARSEGLTLVTNNLGEFERVPGLLVENWVGSRT

Nucleotide

• Length: 411 bp

>T22773 NC_010524:c3253805-3253395 [Leptothrix cholodnii SP-6]
ATGCTCAAGTACCTGCTCGATACCAACATCGTCATCTACGTCATCAAGCGTCGGCCGATCGAGGTGATGGGTGTCTTCAA
CGAAAACGCCGGCCGCATGGCCATCTCGGCCATCACCCTGAGCGAGCTCTACCACGGGGCCGAGAAGAGCGCCAAGGTCG
CGCAGAACCTGGCGGTGGTGGAAGAGTTCTCCAGCCTGCTCGAAGTGCTGCCCTACACCGCGAAGGCCGCGTCCCACTAC
GGCGCCATCCGCACGGCGCTGGAGAAGGCAGGGCAACCCATCGGGCTGAACGACCTGCACATCGCGGCCCATGCCCGCAG
CGAGGGGCTCACCCTGGTCACCAACAACCTCGGTGAGTTCGAGCGGGTGCCCGGCTTGCTGGTGGAGAACTGGGTCGGCA
GCCGGACCTGA

Antitoxin

Protein

• Length: 78 a.a.
• Molecular weight: 8589.67 Da
• Isoelectric Point: 9.0010

>AT22773 WP_012347971.1 NC_010524:c3254052-3253819 [Leptothrix cholodnii SP-6]
MSITSVFTNNRSQAVRLPADLRLPEGVKKVQVRARGLDRIISPVGHTWDSFFLGGPQASEDFMAERASQQQADREAF

Nucleotide

• Length: 234 bp

>AT22773 NC_010524:c3254052-3253819 [Leptothrix cholodnii SP-6]
ATGAGCATCACATCGGTCTTCACGAACAACCGATCGCAGGCCGTGCGCCTGCCGGCGGATTTGCGACTGCCGGAAGGCGT
CAAGAAGGTGCAGGTGCGCGCCCGCGGCCTGGACCGCATCATCTCGCCGGTGGGTCACACCTGGGACTCGTTCTTCCTGG
GCGGACCGCAGGCCTCCGAGGACTTCATGGCCGAGCGGGCCTCGCAGCAGCAAGCCGACCGCGAGGCCTTCTGA

Structures

Antitoxin

• AlphaFold DB: B1XYH2