Detailed information of TA system TA228948

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/PIN(toxin)
• Location: 2861771..2862408
• Replicon: chromosome
• Accession: NZ_CP089776
• Organism: Mycobacterium tuberculosis strain 02-R1896

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: P0DMV7
• Locus tag: LVJ71_RS13465
• Protein ID: WP_003413180.1
• Coordinates: 2861771..2862166 (-)
• Length: 132 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: P9WJ44
• Locus tag: LVJ71_RS13470
• Protein ID: WP_003413183.1
• Coordinates: 2862163..2862408 (-)
• Length: 82 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LVJ71_RS13425 (LVJ71_13425)	2857174..2858385	+	1212	WP_003900845.1	alpha/beta hydrolase family protein	-
LVJ71_RS13430 (LVJ71_13430)	2858512..2859171	+	660	WP_003900846.1	LppA family lipoprotein	-
LVJ71_RS13435 (LVJ71_13435)	2859168..2859830	+	663	WP_003900848.1	LppA family lipoprotein	-
LVJ71_RS13440 (LVJ71_13440)	2859827..2860105	+	279	WP_003901422.1	type II toxin-antitoxin system VapB family antitoxin	-
LVJ71_RS13445 (LVJ71_13445)	2860198..2860611	+	414	WP_003912787.1	PIN domain nuclease	-
LVJ71_RS13450 (LVJ71_13450)	2860650..2860907	+	258	WP_003413167.1	CopG family transcriptional regulator	-
LVJ71_RS13455 (LVJ71_13455)	2860904..2861281	+	378	WP_003413174.1	type II toxin-antitoxin system VapC family toxin	-
LVJ71_RS13460 (LVJ71_13460)	2861297..2861671	-	375	WP_003413177.1	hypothetical protein	-
LVJ71_RS13465 (LVJ71_13465)	2861771..2862166	-	396	WP_003413180.1	type II toxin-antitoxin system toxin 23S rRNA-specific endonuclease VapC20	Toxin
LVJ71_RS13470 (LVJ71_13470)	2862163..2862408	-	246	WP_003413183.1	type II toxin-antitoxin system antitoxin VapB20	Antitoxin
LVJ71_RS13475 (LVJ71_13475)	2862819..2863238	-	420	WP_003413190.1	A24 family peptidase	-
LVJ71_RS13480 (LVJ71_13480)	2863250..2864059	-	810	WP_003413193.1	shikimate dehydrogenase	-
LVJ71_RS13485 (LVJ71_13485)	2864056..2865309	-	1254	WP_003413196.1	endolytic transglycosylase MltG	-
LVJ71_RS13490 (LVJ71_13490)	2865302..2865814	-	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

>T228948 WP_003413180.1 NZ_CP089776:c2862166-2861771 [Mycobacterium tuberculosis]
MIFVDTSFWAALGNAGDARHGTAKRLWASKPPVVMTSNHVLGETWTLLNRRCGHRAAVAAAAIRLSTVVRVEHVTADLEE
QAWEWLVRHDEREYSFVDATSFAVMRKKGIQNAYAFDGDFSAAGFVEVRPE

Nucleotide

• Length: 396 bp

>T228948 NZ_CP124357:2958941-2959219 [Escherichia coli]
ATGTTACCCGTGTTATGGCTTGAAAGCGCAGATACCGACCTAGATGATATAACTAGTTATATTGCTCGTTTCGACATAGA
TGCGGCTGAACGCTTATGGCAGCGATTAAGGGGTTGTGTGCTGCCGTTATCCGAACATCCGTATTTATACCCACCAAGCG
ACAGAGTACCTGGCTTGCGTGAGATTGTAGCCCACCCTAACTATATAATTCTATACCGCGTAACAACATCAAGCGTTGAA
GTAGTAAACGTGATCCACGCAAGACGCCAGTTTCCCTAA

Antitoxin

Protein

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

>AT228948 WP_003413183.1 NZ_CP089776:c2862408-2862163 [Mycobacterium tuberculosis]
MLVAYICHVKRLQIYIDEDVDRALAVEARRRRTSKAALIREYVAEHLRQPGPDPVDAFVGSFVGEADLSASVDDVVYGKH
E

Nucleotide

• Length: 246 bp

>AT228948 NZ_CP124357:2958748-2958939 [Escherichia coli]
ATGAATAGAGCCCTTTCACCAATGGTTTCTGAATTTGAAACCATTGAACAAGAAAACAGTTACAACGAATGGCTGCGTGC
GAAAGTAGCAACGAGCCTTGCAGATCCGCGCCCAGCAATTCCCCATGACGAAGTTGAGCGCAGAATGGCAGAACGCTTTG
CTAAGATGCGTAAGGAACGGAGCAAGCAGTAA

Structures

Toxin

• PDB: 5WZ4
• PDB: 5WZF

Antitoxin

• AlphaFold DB: A0A7U4BW31