Detailed information of TA system TA023632

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/PIN(toxin)
• Location: 2826952..2827589
• Replicon: chromosome
• Accession: NC_012207
• Organism: Mycobacterium bovis BCG str. Tokyo 172

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: P0DMV7
• Locus tag: JTY_RS13260
• Protein ID: WP_003413180.1
• Coordinates: 2826952..2827347 (-)
• Length: 132 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: P9WJ44
• Locus tag: JTY_RS13265
• Protein ID: WP_003413183.1
• Coordinates: 2827344..2827589 (-)
• Length: 82 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
JTY_RS13220	2823037..2823696	+	660	WP_003900846.1	LppA family lipoprotein	-
JTY_RS13225	2823693..2824352	+	660	WP_003900847.1	hypothetical protein	-
JTY_RS13230	2824349..2825011	+	663	WP_003900848.1	hypothetical protein	-
JTY_RS13235	2825008..2825286	+	279	WP_003901422.1	type II toxin-antitoxin system VapB family antitoxin	-
JTY_RS13240	2825379..2825792	+	414	WP_003413164.1	PIN domain nuclease	-
JTY_RS13245	2825831..2826088	+	258	WP_003413167.1	ribbon-helix-helix domain-containing protein	-
JTY_RS13250	2826085..2826462	+	378	WP_003413174.1	type II toxin-antitoxin system VapC family toxin	-
JTY_RS13255	2826478..2826852	-	375	WP_003413177.1	hypothetical protein	-
JTY_RS13260	2826952..2827347	-	396	WP_003413180.1	type II toxin-antitoxin system toxin 23S rRNA-specific endonuclease VapC20	Toxin
JTY_RS13265	2827344..2827589	-	246	WP_003413183.1	type II toxin-antitoxin system antitoxin VapB20	Antitoxin
JTY_RS13270	2828000..2828419	-	420	WP_003413190.1	A24 family peptidase	-
JTY_RS13275	2828431..2829258	-	828	WP_010950736.1	shikimate dehydrogenase	-
JTY_RS13280	2829236..2830489	-	1254	WP_003413196.1	endolytic transglycosylase MltG	-
JTY_RS13285	2830482..2830994	-	513	WP_003413197.1	Holliday junction resolvase RuvX	-

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

• Endonuclease VapC20-like (1-129)

Antitoxin

• Ribbon-helix-helix protein, CopG (11-49)

Sequences

Toxin

Protein

• Length: 132 a.a.
• Molecular weight: 14619.53 Da
• Isoelectric Point: 6.9794

>T23632 WP_003413180.1 NC_012207:c2827347-2826952 [Mycobacterium tuberculosis variant bovis BCG str. Tokyo 172]
MIFVDTSFWAALGNAGDARHGTAKRLWASKPPVVMTSNHVLGETWTLLNRRCGHRAAVAAAAIRLSTVVRVEHVTADLEE
QAWEWLVRHDEREYSFVDATSFAVMRKKGIQNAYAFDGDFSAAGFVEVRPE

Nucleotide

• Length: 396 bp

>T23632 NC_012207:c2827347-2826952 [Mycobacterium tuberculosis variant bovis BCG str. Tokyo 172]
ATGATCTTCGTCGACACGTCCTTCTGGGCTGCACTTGGCAACGCCGGCGACGCTCGGCACGGCACCGCGAAGAGGTTGTG
GGCCAGCAAACCGCCCGTGGTGATGACCTCCAACCATGTCCTGGGCGAGACCTGGACGCTGCTCAACCGGCGCTGCGGTC
ACCGCGCGGCGGTTGCCGCCGCTGCAATCCGCTTGAGCACCGTCGTTCGCGTCGAGCACGTAACAGCCGACCTGGAAGAG
CAGGCATGGGAATGGCTTGTACGCCACGACGAGCGAGAGTACTCGTTCGTCGATGCCACGAGCTTCGCGGTGATGCGAAA
GAAAGGCATCCAAAATGCGTATGCCTTCGATGGTGACTTCAGCGCGGCCGGATTTGTCGAGGTAAGACCCGAGTAG

Antitoxin

Protein

• Length: 82 a.a.
• Molecular weight: 9098.33 Da
• Isoelectric Point: 5.6007

>AT23632 WP_003413183.1 NC_012207:c2827589-2827344 [Mycobacterium tuberculosis variant bovis BCG str. Tokyo 172]
MLVAYICHVKRLQIYIDEDVDRALAVEARRRRTSKAALIREYVAEHLRQPGPDPVDAFVGSFVGEADLSASVDDVVYGKH
E

Nucleotide

• Length: 246 bp

>AT23632 NC_012207:c2827589-2827344 [Mycobacterium tuberculosis variant bovis BCG str. Tokyo 172]
ATGCTAGTGGCGTATATTTGCCATGTGAAAAGGCTGCAGATCTACATCGACGAAGACGTTGACCGAGCGCTTGCTGTTGA
AGCGCGACGGCGGCGGACGTCGAAGGCGGCGCTGATCCGGGAGTACGTCGCTGAGCACCTCCGGCAGCCGGGCCCAGATC
CGGTCGATGCCTTCGTCGGATCGTTCGTGGGGGAAGCCGACTTGTCCGCGTCCGTCGACGACGTGGTTTACGGAAAGCAC
GAATGA

Structures

Toxin

• PDB: 5WZ4
• PDB: 5WZF

Antitoxin

• AlphaFold DB: A0A7U4BW31