Detailed information of TA system TA028692

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/PHD(antitoxin)
• Location: 53612..54276
• Replicon: plasmid pMYCSM03
• Accession: NC_019959
• Organism: Mycobacterium smegmatis JS623

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: L0J7T1
• Locus tag: MYCSM_RS34530
• Protein ID: WP_015298185.1
• Coordinates: 53612..54016 (-)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: MYCSM_RS34535
• Protein ID: WP_041316263.1
• Coordinates: 54013..54276 (-)
• Length: 88 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
MYCSM_RS37645	49591..49773	+	183	WP_157681644.1	hypothetical protein	-
MYCSM_RS34510	49782..50840	-	1059	WP_198345153.1	non-homologous end-joining DNA ligase	-
MYCSM_RS34515	51096..52097	-	1002	WP_015298182.1	cell division protein FtsK	-
MYCSM_RS34520	52306..53226	-	921	WP_015298183.1	discoidin domain-containing protein	-
MYCSM_RS34525	53229..53615	-	387	WP_015298184.1	hypothetical protein	-
MYCSM_RS34530	53612..54016	-	405	WP_015298185.1	PIN domain-containing protein	Toxin
MYCSM_RS34535	54013..54276	-	264	WP_041316263.1	type II toxin-antitoxin system prevent-host-death family antitoxin	Antitoxin
MYCSM_RS34540	54863..55174	-	312	WP_015298187.1	hypothetical protein	-
MYCSM_RS34545	55227..56585	-	1359	WP_015298188.1	cutinase family protein	-
MYCSM_RS34550	56582..57298	-	717	WP_015298189.1	hypothetical protein	-
MYCSM_RS34555	57890..58090	+	201	WP_015298190.1	hypothetical protein	-
MYCSM_RS34560	58084..59097	+	1014	WP_015298191.1	conjugal transfer protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	-	1..164114	164114

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 (2-119)

Antitoxin

• Type II toxin-antitoxin system, antitoxin Phd/YefM (1-51)

Sequences

Toxin

Protein

• Length: 135 a.a.
• Molecular weight: 14074.11 Da
• Isoelectric Point: 6.6014

>T28692 WP_015298185.1 NC_019959:c54016-53612 [Mycobacterium sp. JS623]
VIYLDATAMIRLIAQTPETPALTAYLSAHTDTRWISCALTRADLLRMTAGLPTEATEHAHHVLAGIDAVGVTDRLLDAAI
ALRPAPARTVDALHIAAALSAGPRLRTLVTYDPELASAAAGHHITTVSPGRESP

Nucleotide

• Length: 405 bp

>T28692 NC_019959:c54016-53612 [Mycobacterium sp. JS623]
GTGATCTACCTCGACGCCACCGCCATGATCAGACTCATCGCCCAGACACCAGAAACCCCGGCGCTGACCGCCTACCTCAG
CGCGCACACCGACACCCGGTGGATCAGCTGCGCACTGACCCGCGCCGACCTGCTGCGAATGACAGCCGGCCTCCCCACCG
AGGCCACCGAGCACGCCCACCACGTCCTGGCCGGCATCGACGCGGTGGGAGTCACCGATCGTCTCCTCGACGCCGCCATC
GCCCTGCGCCCCGCGCCGGCACGCACTGTCGACGCCCTGCACATCGCCGCCGCGCTGAGCGCCGGGCCGCGCCTGCGCAC
CCTCGTCACCTACGACCCAGAGCTGGCCAGCGCCGCCGCCGGCCACCACATCACCACCGTCAGCCCAGGAAGGGAGTCAC
CGTGA

Antitoxin

Protein

• Length: 88 a.a.
• Molecular weight: 9522.83 Da
• Isoelectric Point: 10.1540

>AT28692 WP_041316263.1 NC_019959:c54276-54013 [Mycobacterium sp. JS623]
MKRYGVRDLRQNASMLLRQVAAGETIEITNNGQPVAQLIPAVYDSWAALVASKEVTPARTSVTDILARPARPYRLPAAST
TEQQGDR

Nucleotide

• Length: 264 bp

>AT28692 NC_019959:c54276-54013 [Mycobacterium sp. JS623]
ATGAAACGTTACGGTGTCCGCGACCTGCGCCAGAATGCAAGCATGCTTCTGCGCCAGGTCGCCGCCGGGGAGACCATCGA
AATCACCAACAACGGCCAACCCGTCGCCCAGCTGATCCCCGCCGTCTACGACTCCTGGGCAGCACTGGTCGCCAGCAAGG
AAGTCACCCCCGCCCGCACCAGCGTCACCGACATCCTCGCCCGTCCCGCCCGCCCCTACCGGCTCCCCGCTGCATCCACC
ACCGAGCAGCAGGGCGACCGGTGA

Structures

Toxin

• AlphaFold DB: L0J7T1