Detailed information of TA system TA022772

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VapB
• Location: 677323..677906
• Replicon: chromosome
• Accession: NC_010524
• Organism: Leptothrix cholodnii SP-6

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: B1XZQ9
• Locus tag: LCHO_RS03165
• Protein ID: WP_012345667.1
• Coordinates: 677323..677703 (-)
• Length: 127 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: B1XZR0
• Locus tag: LCHO_RS03170
• Protein ID: WP_012345668.1
• Coordinates: 677700..677906 (-)
• Length: 69 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LCHO_RS03140	672652..673578	+	927	WP_012345661.1	GDP-L-fucose synthase	-
LCHO_RS03145	673587..673814	+	228	WP_012345662.1	hypothetical protein	-
LCHO_RS22530	673811..674074	+	264	WP_012345663.1	PIN domain-containing protein	-
LCHO_RS03150	674216..675340	+	1125	WP_012345664.1	GDP-mannose 4,6-dehydratase	-
LCHO_RS03155	675375..675965	-	591	WP_012345665.1	Uma2 family endonuclease	-
LCHO_RS03160	676061..677287	+	1227	WP_012345666.1	glycosyltransferase family 4 protein	-
LCHO_RS03165	677323..677703	-	381	WP_012345667.1	type II toxin-antitoxin system VapC family toxin	Toxin
LCHO_RS03170	677700..677906	-	207	WP_012345668.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
LCHO_RS23260	678225..682472	+	4248	WP_012345669.1	Na-Ca exchanger/integrin-beta4	-

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 (3-114)

Antitoxin

• Bacterial antitoxin of type II TA system, VapB (1-43)

Sequences

Toxin

Protein

• Length: 127 a.a.
• Molecular weight: 13924.23 Da
• Isoelectric Point: 5.1780

>T22772 WP_012345667.1 NC_010524:c677703-677323 [Leptothrix cholodnii SP-6]
MNVLVDTSVWVGHFKQRNERLVALLEAGLVVCHPYVVVEIACGTPPGWQSIIEMLAELESVPVAAPDELRALIERRALFG
RGCGFVDVSLLASALLKDQTRIWTLDKRLEAVAAELDRAYRPALQS

Nucleotide

• Length: 381 bp

>T22772 NC_010524:c677703-677323 [Leptothrix cholodnii SP-6]
ATGAACGTGCTCGTCGACACCTCCGTATGGGTCGGGCACTTCAAGCAGCGCAACGAGCGGCTCGTGGCGCTGCTTGAAGC
AGGCCTGGTCGTGTGCCACCCGTACGTCGTGGTGGAAATCGCTTGCGGGACACCCCCTGGCTGGCAATCCATCATCGAGA
TGCTGGCTGAGCTTGAAAGCGTGCCGGTCGCGGCGCCCGACGAACTGCGGGCCCTGATTGAGCGCCGAGCGCTCTTCGGC
CGCGGGTGTGGTTTCGTCGACGTCAGCCTGCTGGCCTCCGCACTGCTCAAGGACCAGACCCGGATCTGGACCTTGGACAA
ACGGCTTGAGGCGGTGGCCGCCGAGTTGGATCGGGCCTACCGTCCAGCGCTGCAGTCCTGA

Antitoxin

Protein

• Length: 69 a.a.
• Molecular weight: 7424.52 Da
• Isoelectric Point: 6.2525

>AT22772 WP_012345668.1 NC_010524:c677906-677700 [Leptothrix cholodnii SP-6]
MRTTLTIDDELFAKAVSLAAPGIEKSELLKECVKAFIQQQTARRLAALGGQAPDIDLAPRRRDETPTS

Nucleotide

• Length: 207 bp

>AT22772 NC_010524:c677906-677700 [Leptothrix cholodnii SP-6]
ATGCGGACCACACTCACGATTGATGACGAACTCTTTGCCAAGGCTGTTTCGCTGGCAGCGCCCGGGATCGAGAAGTCCGA
GTTGCTGAAGGAGTGCGTCAAGGCCTTCATCCAGCAGCAGACCGCTCGGCGCCTGGCAGCCCTGGGTGGCCAGGCCCCGG
ACATCGACCTTGCTCCGCGCCGGCGCGACGAAACACCGACCTCATGA

Structures

Toxin

• AlphaFold DB: B1XZQ9

Antitoxin

• AlphaFold DB: B1XZR0