Detailed information of TA system TA228839

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/PIN-PHD
• Location: 3796226..3796893
• Replicon: chromosome
• Accession: NZ_CP089774
• Organism: Mycobacterium tuberculosis strain 02-R0894

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: O50411
• Locus tag: LVJ69_RS17880
• Protein ID: WP_003417916.1
• Coordinates: 3796226..3796618 (-)
• Length: 131 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A0E8U8S7
• Locus tag: LVJ69_RS17885
• Protein ID: WP_003912214.1
• Coordinates: 3796618..3796893 (-)
• Length: 92 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LVJ69_RS17860	3791598..3793208	-	1611	WP_003417910.1	1-deoxy-D-xylulose-5-phosphate synthase N-terminal domain-containing protein	-
LVJ69_RS17865	3793153..3793434	-	282	WP_003914149.1	1-deoxy-D-xylulose-5-phosphate synthase N-terminal domain-containing protein	-
LVJ69_RS17870 (LVJ69_17870)	3793431..3794420	-	990	WP_003417912.1	4-hydroxy-3-methylbut-2-enyl diphosphate reductase	-
LVJ69_RS17875 (LVJ69_17875)	3794420..3795472	-	1053	WP_003900678.1	polyprenyl synthetase family protein	-
LVJ69_RS17880 (LVJ69_17880)	3796226..3796618	-	393	WP_003417916.1	type II toxin-antitoxin system VapC family toxin	Toxin
LVJ69_RS17885 (LVJ69_17885)	3796618..3796893	-	276	WP_003912214.1	type II toxin-antitoxin system Phd/YefM family antitoxin	Antitoxin
LVJ69_RS17890 (LVJ69_17890)	3797075..3798446	+	1372	Protein_3534	ISNCY family transposase	-
LVJ69_RS17895 (LVJ69_17895)	3798636..3800833	+	2198	Protein_3535	PE family protein	-
LVJ69_RS17900 (LVJ69_17900)	3800904..3801776	-	873	WP_003417929.1	3-hydroxyacyl-thioester dehydratase HtdY	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	flank	IS/Tn	-	-	3797769..3798446	677

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 (4-120)

Antitoxin

• Type II toxin-antitoxin system, antitoxin Phd/YefM (1-53)

Sequences

Toxin

Protein

• Length: 131 a.a.
• Molecular weight: 14316.74 Da
• Isoelectric Point: 10.7249

>T228839 WP_003417916.1 NZ_CP089774:c3796618-3796226 [Mycobacterium tuberculosis]
MAAIYLDSSAIVKLAVREPESDALRRYLRTRHPRVSSALARAEVMRALLDKGESARKAGRRALAHLDLLRVDKRVLDLAG
GLLPFELRTLDAIHLATAQRLGVDLGRLCTYDDRMRDAAKTLGMAVIAPS

Nucleotide

• Length: 393 bp

>T228839 NZ_CP124349:2242407-2242871 [Escherichia coli]
ATGGATTTTCCACAAAGGGTTAATGGTTGGGCGCTATATGCTCATCCCTGTTTTCAGGAAACCTACGATGCTTTAGTTGC
CGAAGTCGAGGCATTAAAGGGAAAAGATCCTGAAAATTATCAGAGAAAAGCTGCCACAAAGTTATTGGCGGTGGTCCATA
AAGTGATTGAGGAGCATATCACGGTCAATCCATCATCACCGGCATTCCGTCATGGCAAGTCGTTAGGCTCTGGGAAAAAT
AAAGACTGGTCACGGGTAAAATTTGGTGCTGGTCGCTATCGTCTCTTCTTTCGTTACAGTGAAAAAGAGAAAGTCATCAT
TCTGGGATGGATGAACGATGAAAACACGCTGCGCACCTACGGTAAAAAAACAGATGCCTATACCGTATTCAGTAAAATGT
TAAAAAGAGGACATCCTCCTGCCGACTGGGAAAGCCTCACCCAAGAGACAGAAGAAAACCATTGA

Antitoxin

Protein

• Length: 92 a.a.
• Molecular weight: 9966.35 Da
• Isoelectric Point: 4.5332

>AT228839 WP_003912214.1 NZ_CP089774:c3796893-3796618 [Mycobacterium tuberculosis]
MTSVGVRALRQRASELLRRVEAGETIEITDRGRPVALLSPLPQGGPYEQLLASGEIERATLDVVDLPEPLDLDAGVELPS
VTLARLREHER

Nucleotide

• Length: 276 bp

>AT228839 NZ_CP124349:2242072-2242407 [Escherichia coli]
ATGCCCGCTAATGCTCGCTCTAACGCTGTACTGACCACTGAATCAAAGGTCACTATACGCGGACAAACAACTATCCCCGC
GCCAGTGCGTGAGGCCTTAAAACTGAAGCCAGGCCTGGACAGCATTCATTACGAAATTCTGCCTGGTGGGCAAGTATTTA
TGTGCCGACTGGGAGATGAACAGGAGGATCATACTATGAATGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAAT
CCGCAAAAAACTCGTCCATTCGACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCAACATTGACGATGAGAT
TGGCGACGACGAATAA

Structures

Toxin

• AlphaFold DB: A0A7U4BXS8

Antitoxin

• AlphaFold DB: A0A0E8U8S7