Detailed information of TA system TA022178

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/PIN(toxin)
• Location: 2881695..2882332
• Replicon: chromosome
• Accession: NC_009525
• Organism: Mycobacterium tuberculosis H37Ra

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: P0DMV7
• Locus tag: MRA_RS13595
• Protein ID: WP_003413180.1
• Coordinates: 2881695..2882090 (-)
• Length: 132 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: P9WJ44
• Locus tag: MRA_RS13600
• Protein ID: WP_003413183.1
• Coordinates: 2882087..2882332 (-)
• Length: 82 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
MRA_RS13555	2877098..2878309	+	1212	WP_009936235.1	alpha/beta hydrolase family protein	-
MRA_RS13560	2878436..2879095	+	660	WP_003900846.1	LppA family lipoprotein	-
MRA_RS13565	2879092..2879754	+	663	WP_003900848.1	hypothetical protein	-
MRA_RS13570	2879751..2880029	+	279	WP_003901422.1	type II toxin-antitoxin system VapB family antitoxin	-
MRA_RS13575	2880122..2880535	+	414	WP_003413164.1	PIN domain nuclease	-
MRA_RS13580	2880574..2880831	+	258	WP_003413167.1	ribbon-helix-helix domain-containing protein	-
MRA_RS13585	2880828..2881205	+	378	WP_003413174.1	type II toxin-antitoxin system VapC family toxin	-
MRA_RS13590	2881221..2881595	-	375	WP_003413177.1	hypothetical protein	-
MRA_RS13595	2881695..2882090	-	396	WP_003413180.1	type II toxin-antitoxin system toxin 23S rRNA-specific endonuclease VapC20	Toxin
MRA_RS13600	2882087..2882332	-	246	WP_003413183.1	type II toxin-antitoxin system antitoxin VapB20	Antitoxin
MRA_RS13605	2882743..2883162	-	420	WP_003413190.1	A24 family peptidase	-
MRA_RS13610	2883174..2883983	-	810	WP_003413193.1	shikimate dehydrogenase	-
MRA_RS13615	2883980..2885233	-	1254	WP_003413196.1	endolytic transglycosylase MltG	-
MRA_RS13620	2885226..2885738	-	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

>T22178 WP_003413180.1 NC_009525:c2882090-2881695 [Mycobacterium tuberculosis H37Ra]
MIFVDTSFWAALGNAGDARHGTAKRLWASKPPVVMTSNHVLGETWTLLNRRCGHRAAVAAAAIRLSTVVRVEHVTADLEE
QAWEWLVRHDEREYSFVDATSFAVMRKKGIQNAYAFDGDFSAAGFVEVRPE

Nucleotide

• Length: 396 bp

>T22178 NC_009525:c2882090-2881695 [Mycobacterium tuberculosis H37Ra]
ATGATCTTCGTCGACACGTCCTTCTGGGCTGCACTTGGCAACGCCGGCGACGCTCGGCACGGCACCGCGAAGAGGTTGTG
GGCCAGCAAACCGCCCGTGGTGATGACCTCCAACCATGTCCTGGGCGAGACCTGGACGCTGCTCAACCGGCGCTGCGGTC
ACCGCGCGGCGGTTGCCGCCGCTGCAATCCGCTTGAGCACCGTCGTTCGCGTCGAGCACGTAACAGCCGACCTGGAAGAG
CAGGCATGGGAATGGCTTGTACGCCACGACGAGCGAGAGTACTCGTTCGTCGATGCCACGAGCTTCGCGGTGATGCGAAA
GAAAGGCATCCAAAATGCGTATGCCTTCGATGGTGACTTCAGCGCGGCCGGATTTGTCGAGGTAAGACCCGAGTAG

Antitoxin

Protein

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

>AT22178 WP_003413183.1 NC_009525:c2882332-2882087 [Mycobacterium tuberculosis H37Ra]
MLVAYICHVKRLQIYIDEDVDRALAVEARRRRTSKAALIREYVAEHLRQPGPDPVDAFVGSFVGEADLSASVDDVVYGKH
E

Nucleotide

• Length: 246 bp

>AT22178 NC_009525:c2882332-2882087 [Mycobacterium tuberculosis H37Ra]
ATGCTAGTGGCGTATATTTGCCATGTGAAAAGGCTGCAGATCTACATCGACGAAGACGTTGACCGAGCGCTTGCTGTTGA
AGCGCGACGGCGGCGGACGTCGAAGGCGGCGCTGATCCGGGAGTACGTCGCTGAGCACCTCCGGCAGCCGGGCCCAGATC
CGGTCGATGCCTTCGTCGGATCGTTCGTGGGGGAAGCCGACTTGTCCGCGTCCGTCGACGACGTGGTTTACGGAAAGCAC
GAATGA

Structures

Toxin

• PDB: 5WZ4
• PDB: 5WZF

Antitoxin

• AlphaFold DB: A0A7U4BW31