Detailed information of TA system TA075056

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC(toxin)
• Location: 9008..9642
• Replicon: plasmid pSHV2
• Accession: NZ_CP020541
• Organism: Sphingobium herbicidovorans strain MH

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: T0GCG3
• Locus tag: B6S01_RS20575
• Protein ID: WP_007682494.1
• Coordinates: 9253..9642 (+)
• Length: 130 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: T0GE84
• Locus tag: B6S01_RS20570
• Protein ID: WP_007682496.1
• Coordinates: 9008..9256 (+)
• Length: 83 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
B6S01_RS20545	4752..5363	-	612	WP_051908308.1	isochorismatase family protein	-
B6S01_RS20550	5587..5880	-	294	Protein_5	hypothetical protein	-
B6S01_RS20555	6063..6359	+	297	WP_037466905.1	WGR domain-containing protein	-
B6S01_RS20560	6377..7606	-	1230	WP_081570634.1	cobyric acid synthase	-
B6S01_RS20565	8418..8747	+	330	WP_037466903.1	hypothetical protein	-
B6S01_RS20570	9008..9256	+	249	WP_007682496.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
B6S01_RS20575	9253..9642	+	390	WP_007682494.1	type II toxin-antitoxin system VapC family toxin	Toxin
B6S01_RS20580	9642..9947	+	306	WP_007682492.1	hypothetical protein	-
B6S01_RS20585	9944..10342	+	399	WP_037466900.1	hypothetical protein	-
B6S01_RS20590	10389..11303	+	915	WP_081570639.1	tyrosine-type recombinase/integrase	-
B6S01_RS20595	11367..12463	+	1097	Protein_14	IS630 family transposase	-
B6S01_RS20600	12509..13810	-	1302	WP_169802873.1	IS701 family transposase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Mobilizable plasmid	-	-	1..39633	39633

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 (1-123)

Antitoxin

• Antitoxin VapB-like (1-81)

Sequences

Toxin

Protein

• Length: 130 a.a.
• Molecular weight: 14083.02 Da
• Isoelectric Point: 4.5934

>T75056 WP_007682494.1 NZ_CP020541:9253-9642 [Sphingobium herbicidovorans]
MILDTSALVAILYREPEAATFAQAIHDADACRISVASYVELSMVIERQLGPEGMRQTEAFFRRAGITIEPVTLDHGELAR
QAFLDFGKGRHKAGLNFGDCFSYALAKATDEPLLFKGNDFALTDIEAAA

Nucleotide

• Length: 390 bp

>T75056 NZ_CP020541:9253-9642 [Sphingobium herbicidovorans]
ATGATCCTCGACACCTCGGCCCTGGTCGCGATCCTCTATCGCGAACCCGAAGCGGCGACCTTCGCACAAGCCATCCATGA
TGCCGATGCCTGCCGCATCAGCGTCGCCAGCTATGTCGAGCTGTCGATGGTCATCGAACGCCAGCTCGGTCCCGAAGGGA
TGCGCCAGACCGAAGCTTTCTTTCGCCGCGCCGGCATCACGATCGAACCGGTGACGCTCGATCATGGCGAACTGGCGCGA
CAGGCGTTTCTCGATTTCGGCAAGGGCCGCCACAAAGCGGGCCTGAACTTTGGCGACTGCTTTTCCTATGCGCTGGCCAA
GGCGACCGACGAGCCGCTGTTGTTCAAGGGCAATGATTTTGCCCTGACGGACATAGAGGCGGCGGCATAA

Antitoxin

Protein

• Length: 83 a.a.
• Molecular weight: 9203.47 Da
• Isoelectric Point: 9.7320

>AT75056 WP_007682496.1 NZ_CP020541:9008-9256 [Sphingobium herbicidovorans]
MSLNVKDPEAHRLAQAIAQATGQSMTRVVTEALRERFARIERQKSKASVAELLTIADRAATHVKRPYVDHAELFYDDNGL
PK

Nucleotide

• Length: 249 bp

>AT75056 NZ_CP020541:9008-9256 [Sphingobium herbicidovorans]
ATGAGCCTCAATGTTAAAGACCCTGAAGCCCATCGGCTTGCGCAGGCCATCGCCCAAGCGACCGGCCAGAGCATGACCCG
CGTGGTGACGGAGGCGCTGCGCGAGCGCTTCGCCAGGATCGAGCGTCAGAAAAGCAAGGCGAGCGTCGCGGAACTGCTAA
CGATCGCCGATCGCGCCGCCACGCATGTGAAGCGCCCCTATGTCGATCATGCCGAACTGTTTTATGACGATAATGGCCTG
CCGAAATGA

Structures

Toxin

• AlphaFold DB: T0GCG3

Antitoxin

• AlphaFold DB: T0GE84