Detailed information of TA system TA141788

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-StbC
• Location: 2516255..2516928
• Replicon: chromosome
• Accession: NZ_CP045434
• Organism: Sphingomonas ginsengisoli An et al. 2013 strain KACC 16858

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: GCU42_RS12310
• Protein ID: WP_056878439.1
• Coordinates: 2516255..2516677 (-)
• Length: 141 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A0Q8EX55
• Locus tag: GCU42_RS12315
• Protein ID: WP_056878440.1
• Coordinates: 2516674..2516928 (-)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
GCU42_RS12290	2511670..2512872	-	1203	Protein_2441	IS701 family transposase	-
GCU42_RS12295	2513283..2514452	-	1170	WP_056878436.1	IS91 family transposase	-
GCU42_RS12300	2514462..2515334	-	873	WP_056878437.1	tyrosine-type recombinase/integrase	-
GCU42_RS12305	2515923..2516213	-	291	WP_056878438.1	antibiotic biosynthesis monooxygenase	-
GCU42_RS12310	2516255..2516677	-	423	WP_056878439.1	type II toxin-antitoxin system VapC family toxin	Toxin
GCU42_RS12315	2516674..2516928	-	255	WP_056878440.1	hypothetical protein	Antitoxin
GCU42_RS12320	2517024..2517440	-	417	WP_056878441.1	hypothetical protein	-
GCU42_RS12325	2517578..2519623	-	2046	WP_056878442.1	ParB/RepB/Spo0J family partition protein	-
GCU42_RS12330	2520101..2520589	+	489	WP_056878443.1	TIR domain-containing protein	-
GCU42_RS12335	2520598..2521758	+	1161	WP_114229175.1	toll/interleukin-1 receptor domain-containing protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Integrative and Conjugative Element	-	-	2479414..2564147	84733
	-	flank	IS/Tn	-	-	2511556..2512872	1316

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 (2-124)

Antitoxin

No domain identified.

Sequences

Toxin

Protein

• Length: 141 a.a.
• Molecular weight: 14705.78 Da
• Isoelectric Point: 4.8435

>T141788 WP_056878439.1 NZ_CP045434:c2516677-2516255 [Sphingomonas ginsengisoli An et al. 2013]
MIVLDTNVVSEAMKPEPAPAVRDWLDEQAAETLYLSSVTVAELLFGIGALPDGQRKRKLAATLDGLLGLFDGRILPFDTD
AARRYADLAVAARNAGKGFPTPDGYIAAIATAHGFAVATRDASAFKAAGVPIIDPWTAGH

Nucleotide

• Length: 423 bp

>T141788 NZ_CP060088:c2018991-2018704 [Vibrio parahaemolyticus]
ATGAAAGTAGTTTGGTCTCCATTAGCGCTTCAAAAGTTAGGCGATGCAGCGGAGTTCATTTCTTTGGATAACCCATCTGC
GGCAGAAAAGTGGGTAAACGAAGTTTTTGATAAAACTGAACTACTTGGAAGTATGCCTGAGATGGGGCGCTTTGTTCCTG
AAATGCCTCATACGAATTATCGTGAAATTATTTTTGGTCACTATCGTATTATCTACAGCTTAAGTCATGAAATCCGCGTG
CTAACAGTTCGTAATTGTCGTCAAATGTTGTCGGAAGATGATGTGTAA

Antitoxin

Protein

• Length: 85 a.a.
• Molecular weight: 9250.42 Da
• Isoelectric Point: 6.7270

>AT141788 WP_056878440.1 NZ_CP045434:c2516928-2516674 [Sphingomonas ginsengisoli An et al. 2013]
MPAVTIRNLSDEAHRALKVRAAHHGRSTEAEIRDILEEAVRPANRLRIGSAMAALSREAGLTNADFEALEQSRDRTPAVP
MSFE

Nucleotide

• Length: 255 bp

>AT141788 NZ_CP060088:c2019269-2018988 [Vibrio parahaemolyticus]
ATGAGTCGTATTCATTTCGATCAAGACATTCAGCCGTTGTCTGAGTTTCGCGCAGGTGTAGCTTCTTACATCAAACAAAT
CAATGAGACTCGCCGTCCATTGGTAATTACTCAACGTGGCAAAGGTGTTGCTGTTGTCCTTGACGTTGCTGAGTATGAAG
CAATGCAAGAGAAAATCGAATTACTGGAAGAAATGCGGACAGCGGAAGCTCAATTAGCTTCAGGTCTTGGCGTTTCCAAT
GATGATGCGCGTGCTCAAGTTTTGGGGCGCATTAAAAAATGA

Structures

Antitoxin

• AlphaFold DB: A0A0Q8EX55