Detailed information of TA system TA226562

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 526538..527178
• Replicon: plasmid pT136a
• Accession: NZ_CP088009
• Organism: Rhizobium sp. T136

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: W6S6S2
• Locus tag: LPB79_RS02440
• Protein ID: WP_024316023.1
• Coordinates: 526768..527178 (+)
• Length: 137 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: W6RNY9
• Locus tag: LPB79_RS02435
• Protein ID: WP_024316022.1
• Coordinates: 526538..526768 (+)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LPB79_RS02415 (LPB79_02415)	522609..522800	+	192	WP_024316020.1	hypothetical protein	-
LPB79_RS02420 (LPB79_02420)	522808..522957	-	150	WP_157997392.1	hypothetical protein	-
LPB79_RS02425 (LPB79_02425)	523331..525448	+	2118	WP_024316021.1	carboxy terminal-processing peptidase	-
LPB79_RS02430 (LPB79_02430)	525707..525853	-	147	WP_210163836.1	SDR family oxidoreductase	-
LPB79_RS02435 (LPB79_02435)	526538..526768	+	231	WP_024316022.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
LPB79_RS02440 (LPB79_02440)	526768..527178	+	411	WP_024316023.1	tRNA(fMet)-specific endonuclease VapC	Toxin
LPB79_RS02445 (LPB79_02445)	527311..527934	-	624	WP_024316024.1	plasmid pRiA4b ORF-3 family protein	-
LPB79_RS02450 (LPB79_02450)	528167..528712	-	546	WP_024316025.1	GNAT family N-acetyltransferase	-
LPB79_RS02455 (LPB79_02455)	528712..529020	-	309	WP_024316026.1	DUF1778 domain-containing protein	-
LPB79_RS02460 (LPB79_02460)	529428..529676	+	249	WP_024316027.1	hypothetical protein	-
LPB79_RS02465 (LPB79_02465)	529768..530820	-	1053	WP_024316028.1	ribosome small subunit-dependent GTPase A	-
LPB79_RS02470 (LPB79_02470)	530856..531032	-	177	WP_167546229.1	hypothetical protein	-
LPB79_RS02475 (LPB79_02475)	531457..531725	-	269	Protein_494	IS110 family transposase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	wbpZ	1..1987087	1987087

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 (4-124)

Antitoxin

• SpoVT-AbrB domain (7-52)

Sequences

Toxin

Protein

• Length: 137 a.a.
• Molecular weight: 15103.28 Da
• Isoelectric Point: 8.5099

>T226562 WP_024316023.1 NZ_CP088009:526768-527178 [Rhizobium sp. T136]
VLKYMLDTNICIFTVKSRPPQVREAFNRHHGQLCISSVTLMELVYGAEKSANPERNLSVVEGFAARLEVLAYDQMAASHT
GQLRAELARGGTPIGPYDQLIAGHARSRGLILVTNNRREFDRVPGLRVEDWTVSAP

Nucleotide

• Length: 411 bp

>T226562 NZ_CP122517:1344369-1344767 [Escherichia coli]
ATGCTGAAATTCATGCTGGATACCAATATCTGTATTTTCACTATTAAGAATAAACCAGTACATGTCAGAGAGCGGTTTAA
CCTGAATTCTGGCCGGATGTGTATAAGTTCTGTAACATTGATGGAGCTTATCTATGGGGCAGAAAAAAGTCAGATGCCAG
AACGCAATTTGGCGGTTATTGAAGGTTTCGTATCTCGTTTGGTAGTGCTTGATTATGATAGTGCTGCTGCGACGCATACC
GGGCAAATCAGGGCCGAGCTTGCCCGGCAGGGAAGGCCTGTTGGACCTTTTGACCAGATGATAGCGGGACATGCTCGCAG
TCGCGGTTTGATTGTGGTTACCAACAATACCCGAGAGTTTGAGCGAGTGGCGGGAATCAGACTAGAAGACTGGAGCTAA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8491.48 Da
• Isoelectric Point: 4.3867

>AT226562 WP_024316022.1 NZ_CP088009:526538-526768 [Rhizobium sp. T136]
MEQGAVFQSNRSQAVRLPKAVALPEDVKRVDIVAVGRTRIIAPAGEVWDSWFDGEGATSDFMNERDQPTLQEREAF

Nucleotide

• Length: 231 bp

>AT226562 NZ_CP122517:1344142-1344369 [Escherichia coli]
ATGGAAACTACTGTATTTTTAAGTAATCGCAGTCAGGCCGTCAGATTACCGAAAGCGGTCGCTCTGCCAGAAGACGTTAA
GAAAGTAGAAATTATTGCGATTGGTCGTACAAGAATCATCACTCCCGCCGGTGAGTCCTGGGACAGTTGGTTTGATGGCG
AAAATGTGAGTGCGGATTTTATGGATATCCGTGATCAACCCGCAATGCAGGAAAGGGAATCATTTTGA

Structures

Toxin

• AlphaFold DB: W6S6S2

Antitoxin

• AlphaFold DB: W6RNY9