Detailed information of TA system TA037140

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): yefM-yoeB (relBE)/YoeB-YefM
• Location: 2855063..2855611
• Replicon: chromosome
• Accession: NZ_AP023268
• Organism: Agrobacterium vitis strain VAR03-1

Toxin (Protein)

• Gene name: yoeB
• Uniprot ID: A0A368NJ19
• Locus tag: RvVAT039_RS13185
• Protein ID: WP_060719886.1
• Coordinates: 2855339..2855611 (+)
• Length: 91 a.a.

Antitoxin (Protein)

• Gene name: yefM
• Uniprot ID: -
• Locus tag: RvVAT039_RS13180
• Protein ID: WP_180637899.1
• Coordinates: 2855063..2855335 (+)
• Length: 91 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
RvVAT039_RS13165	2850926..2851507	+	582	WP_060719882.1	ATP-dependent Clp protease proteolytic subunit	-
RvVAT039_RS13170	2851681..2852865	+	1185	WP_180637897.1	benzoate/H(+) symporter BenE family transporter	-
RvVAT039_RS13175	2853214..2854920	+	1707	WP_180637898.1	2-isopropylmalate synthase	-
RvVAT039_RS13180	2855063..2855335	+	273	WP_180637899.1	type II toxin-antitoxin system prevent-host-death family antitoxin	Antitoxin
RvVAT039_RS13185	2855339..2855611	+	273	WP_060719886.1	Txe/YoeB family addiction module toxin	Toxin
RvVAT039_RS13190	2855627..2856058	-	432	WP_180637900.1	Lrp/AsnC family transcriptional regulator	-
RvVAT039_RS13195	2856180..2857301	+	1122	WP_180637901.1	saccharopine dehydrogenase family protein	-
RvVAT039_RS13200	2857416..2857856	+	441	WP_180637902.1	hypothetical protein	-
RvVAT039_RS13205	2858060..2860201	+	2142	WP_180637903.1	type VI secretion system tip protein VgrG	-

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

• Toxin YoeB (5-88)

Antitoxin

• Type II toxin-antitoxin system, antitoxin Phd/YefM (1-73)

Sequences

Toxin

Protein

• Length: 91 a.a.
• Molecular weight: 10576.10 Da
• Isoelectric Point: 9.5183

>T37140 WP_060719886.1 NZ_AP023268:2855339-2855611 [Agrobacterium vitis]
MKLGWTENAWDDYEFWLQTDLKMVSKINDLIRNAKRTPFTGLGKPEPLKGDLAGFWSRRIAGDHRLVYCVSGSGQEQRLD
IVQCRYHYRK

Nucleotide

• Length: 273 bp

>T37140 NZ_AP023268:2855339-2855611 [Agrobacterium vitis]
ATGAAGCTGGGCTGGACAGAGAATGCCTGGGATGATTACGAATTTTGGCTCCAAACCGACCTGAAAATGGTCTCGAAAAT
CAACGACCTGATCCGCAACGCCAAGAGAACACCGTTTACCGGCCTTGGAAAGCCCGAGCCGCTGAAAGGCGATCTAGCAG
GCTTCTGGTCGAGGCGCATCGCTGGCGATCATCGGCTGGTCTATTGCGTTTCGGGGTCAGGCCAGGAACAGCGGTTGGAT
ATCGTGCAATGCCGCTACCATTATAGAAAATGA

Antitoxin

Protein

• Length: 91 a.a.
• Molecular weight: 10319.36 Da
• Isoelectric Point: 4.6847

>AT37140 WP_180637899.1 NZ_AP023268:2855063-2855335 [Agrobacterium vitis]
MTNVRFTEFRQNFAHHFDSVLESRAPLLVTRQGKEAVVVIAEGEYESMQETLHLLSNPANADRLRDSIEQLRQGKVTDRD
PTEPDDHQDA

Nucleotide

• Length: 273 bp

>AT37140 NZ_AP023268:2855063-2855335 [Agrobacterium vitis]
ATGACCAATGTCCGCTTCACTGAATTTCGTCAGAATTTCGCCCATCATTTCGACAGCGTGCTGGAATCACGCGCGCCCTT
GCTGGTGACACGCCAGGGCAAGGAAGCCGTGGTGGTGATTGCCGAGGGGGAATATGAGAGCATGCAGGAAACCTTGCATC
TCCTGTCCAACCCGGCCAACGCCGACCGCCTGCGCGACAGCATCGAACAACTGCGCCAAGGCAAGGTCACTGACCGCGAT
CCAACCGAGCCGGATGACCACCAGGACGCTTGA

Structures

Toxin

• AlphaFold DB: A0A368NJ19