Detailed information of TA system TA056575

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VapB
• Location: 2247533..2248159
• Replicon: chromosome
• Accession: NZ_CP012506
• Organism: Mycobacterium tuberculosis strain SCAID 187.0

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: P64926
• Locus tag: AFL40_RS10505
• Protein ID: WP_003410075.1
• Coordinates: 2247761..2248159 (+)
• Length: 133 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A806JLL8
• Locus tag: AFL40_RS10500
• Protein ID: WP_003911750.1
• Coordinates: 2247533..2247760 (+)
• Length: 76 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
AFL40_RS10490	2245572..2245916	-	345	WP_003410065.1	ferredoxin family protein	-
AFL40_RS10495	2246105..2247274	-	1170	WP_003899126.1	ATP-binding protein	-
AFL40_RS10500	2247533..2247760	+	228	WP_003911750.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
AFL40_RS10505	2247761..2248159	+	399	WP_003410075.1	PIN domain nuclease	Toxin
AFL40_RS10510	2248342..2248773	-	432	WP_003410078.1	MarR family winged helix-turn-helix transcriptional regulator	-
AFL40_RS10515	2248874..2249308	+	435	WP_003914358.1	DUF1398 domain-containing protein	-
AFL40_RS21290	2249745..2249924	-	180	Protein_2063	hypothetical protein	-
AFL40_RS10520	2249985..2250632	+	648	WP_071854215.1	transposase	-
AFL40_RS10525	2250586..2251176	+	591	WP_003899131.1	IS110 family transposase	-
AFL40_RS10530	2251304..2252560	-	1257	WP_003902247.1	HNH endonuclease	-
AFL40_RS10535	2252914..2253114	+	201	Protein_2067	hypothetical protein	-

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 (1-120)

Antitoxin

• Bacterial antitoxin of type II TA system, VapB (2-43)

Sequences

Toxin

Protein

• Length: 133 a.a.
• Molecular weight: 14731.02 Da
• Isoelectric Point: 6.7067

>T56575 WP_003410075.1 NZ_CP012506:2247761-2248159 [Mycobacterium tuberculosis]
MIVDTSVWIAYLSTSESLASRWLADRIAADSTVIVPEVVMMELLIGKTDEDTAALRRRLLQRFAIEPLAPVRDAEDAAAI
HRRCRRGGDTVRSLIDCQVAAMALRIGVAVAHRDRDYEAIRTHCGLRTEPLF

Nucleotide

• Length: 399 bp

>T56575 NZ_CP012506:2247761-2248159 [Mycobacterium tuberculosis]
ATGATCGTCGACACCTCGGTCTGGATCGCATATCTCTCCACGTCAGAGTCGTTGGCCAGTCGCTGGCTAGCCGATCGCAT
TGCCGCTGACTCGACGGTGATCGTGCCCGAGGTGGTGATGATGGAGCTGCTGATCGGTAAGACCGATGAGGACACCGCCG
CACTGCGCCGACGGCTCCTGCAGCGATTCGCTATCGAACCGCTGGCCCCGGTCCGCGACGCGGAAGATGCCGCCGCCATT
CACCGGCGCTGTCGTCGCGGCGGCGACACCGTACGCAGCCTGATCGATTGCCAGGTGGCCGCGATGGCGTTGCGGATCGG
GGTCGCCGTGGCGCATCGTGATCGCGACTACGAGGCGATCCGCACACATTGCGGACTACGCACCGAGCCGTTGTTCTGA

Antitoxin

Protein

• Length: 76 a.a.
• Molecular weight: 8346.16 Da
• Isoelectric Point: 4.1621

>AT56575 WP_003911750.1 NZ_CP012506:2247533-2247760 [Mycobacterium tuberculosis]
VSRTNIEIDDELVAAAQRMYRLDSKRSAVDLALRRLVGEPLGRDEALALQGSGFDFSNDEIESFSDTDRKLADES

Nucleotide

• Length: 228 bp

>AT56575 NZ_CP012506:2247533-2247760 [Mycobacterium tuberculosis]
GTGTCACGGACCAACATCGAGATCGACGACGAACTCGTGGCCGCCGCACAGCGGATGTACCGACTCGATTCCAAGCGAAG
TGCCGTCGACCTCGCGCTGCGCCGGCTCGTGGGTGAACCGTTGGGCCGCGATGAGGCTTTGGCGCTGCAGGGCAGCGGTT
TCGACTTCAGCAACGATGAGATCGAATCGTTCTCGGATACGGACCGCAAGCTCGCCGACGAGTCGTAG

Structures

Toxin

• PDB: 4CHG

Antitoxin

• AlphaFold DB: A0A806JLL8