Detailed information of TA system TA023527

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1(toxin)
• Location: 965428..965999
• Replicon: chromosome
• Accession: NC_011989
• Organism: Agrobacterium vitis S4

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: B9JTA1
• Locus tag: AVI_RS04540
• Protein ID: WP_015915238.1
• Coordinates: 965634..965999 (+)
• Length: 122 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: B9JTA0
• Locus tag: AVI_RS04535
• Protein ID: WP_015915237.1
• Coordinates: 965428..965640 (+)
• Length: 71 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
AVI_RS04520	961465..962430	+	966	WP_015915234.1	flagellin	-
AVI_RS04525	962434..963756	-	1323	WP_015915235.1	chloride channel protein	-
AVI_RS04530	964066..965355	+	1290	WP_015915236.1	DUF2156 domain-containing protein	-
AVI_RS04535	965428..965640	+	213	WP_015915237.1	ribbon-helix-helix domain-containing protein	Antitoxin
AVI_RS04540	965634..965999	+	366	WP_015915238.1	type II toxin-antitoxin system VapC family toxin	Toxin
AVI_RS04545	966004..967659	-	1656	WP_015915239.1	choline dehydrogenase	-
AVI_RS04550	967662..967976	-	315	WP_041696305.1	hypothetical protein	-
AVI_RS04555	968092..969555	-	1464	WP_041697651.1	betaine-aldehyde dehydrogenase	-
AVI_RS04560	969555..970196	-	642	WP_015915242.1	glutathione S-transferase family protein	-

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

• PIN domain (5-106)

Antitoxin

• Ribbon-helix-helix protein, CopG (5-40)

Sequences

Toxin

Protein

• Length: 122 a.a.
• Molecular weight: 13576.79 Da
• Isoelectric Point: 7.2785

>T23527 WP_015915238.1 NC_011989:965634-965999 [Agrobacterium vitis S4]
MVKALFDTNILIDFLNGKEPARQELSLYEEKAISMVTWMEVMVGASDENGQATAAFLRSFRCIAIDQTVAERAVALRRAH
RLKLPDAIVWASALAHDMLLVTRDTKDLPGNHPGIRIPYRL

Nucleotide

• Length: 366 bp

>T23527 NC_011989:965634-965999 [Agrobacterium vitis S4]
ATGGTAAAAGCGCTGTTCGATACCAATATCCTGATCGATTTTCTGAACGGCAAGGAACCAGCCAGGCAGGAGCTTTCGCT
TTACGAGGAAAAGGCGATCAGCATGGTGACCTGGATGGAGGTCATGGTTGGCGCATCCGATGAGAACGGGCAAGCGACCG
CTGCTTTTCTTCGCAGTTTTCGCTGCATTGCTATCGATCAGACCGTGGCCGAGCGTGCAGTTGCGTTGAGGCGTGCGCAT
CGGCTGAAACTGCCTGACGCGATTGTCTGGGCAAGTGCTCTGGCCCATGACATGCTGCTGGTAACCCGGGATACCAAGGA
TTTGCCGGGCAATCATCCCGGCATCCGCATTCCCTATCGGCTGTGA

Antitoxin

Protein

• Length: 71 a.a.
• Molecular weight: 8101.19 Da
• Isoelectric Point: 5.0477

>AT23527 WP_015915237.1 NC_011989:965428-965640 [Agrobacterium vitis S4]
MRTLIDLDDDAVVKLDRIARQEKISRAALIRQAVASLLEERQKPDLDHGFGLWKNQPDGLAYQQALRDEW

Nucleotide

• Length: 213 bp

>AT23527 NC_011989:965428-965640 [Agrobacterium vitis S4]
ATGAGAACATTGATCGACCTTGATGACGATGCCGTGGTGAAACTGGACCGGATTGCCCGCCAGGAAAAAATTTCCCGGGC
AGCGTTGATCCGGCAGGCCGTGGCATCGTTGCTGGAAGAACGGCAGAAGCCTGATTTGGATCACGGCTTTGGTCTCTGGA
AAAACCAACCGGATGGCCTTGCCTATCAGCAGGCCCTGCGCGACGAATGGTAA

Structures

Toxin

• AlphaFold DB: B9JTA1

Antitoxin

• AlphaFold DB: B9JTA0