Detailed information of TA system TA049893

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-VagC
• Location: 2111826..2112499
• Replicon: chromosome
• Accession: NZ_CP009826
• Organism: Xylella fastidiosa strain Pr8x

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: XFPR_RS09640
• Protein ID: WP_023906525.1
• Coordinates: 2112107..2112499 (+)
• Length: 131 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A1S0V7A9
• Locus tag: XFPR_RS09635
• Protein ID: WP_023906524.1
• Coordinates: 2111826..2112098 (+)
• Length: 91 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
XFPR_RS09600	2106968..2107528	-	561	WP_023907963.1	DUF2612 domain-containing protein	-
XFPR_RS09605	2107525..2108670	-	1146	WP_023907964.1	baseplate J/gp47 family protein	-
XFPR_RS09610	2108763..2109116	-	354	WP_023906519.1	hypothetical protein	-
XFPR_RS09615	2109113..2109754	-	642	WP_023907965.1	hypothetical protein	-
XFPR_RS09620	2109751..2110581	-	831	WP_060870491.1	hypothetical protein	-
XFPR_RS09625	2110578..2110895	-	318	WP_023906522.1	hypothetical protein	-
XFPR_RS09630	2110895..2111665	-	771	WP_023906523.1	hypothetical protein	-
XFPR_RS09635	2111826..2112098	+	273	WP_023906524.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
XFPR_RS09640	2112107..2112499	+	393	WP_023906525.1	type II toxin-antitoxin system VapC family toxin	Toxin
XFPR_RS09645	2112518..2114407	-	1890	WP_088572706.1	hypothetical protein	-
XFPR_RS09650	2114555..2114977	-	423	WP_023907971.1	hypothetical protein	-
XFPR_RS09655	2114974..2115411	-	438	WP_023907683.1	DUF3277 family protein	-
XFPR_RS09660	2115421..2116918	-	1498	Protein_1888	DUF3383 domain-containing protein	-
XFPR_RS09665	2116919..2117452	-	534	WP_196432182.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Prophage	-	-	2102564..2167206	64642

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 (1-120)

Antitoxin

• SpoVT-AbrB domain (16-54)

Sequences

Toxin

Protein

• Length: 131 a.a.
• Molecular weight: 14157.38 Da
• Isoelectric Point: 5.6881

>T49893 WP_023906525.1 NZ_CP009826:2112107-2112499 [Xylella fastidiosa]
MLDTNIISDIIRNPSGAVACRIEHVGYPNICTSVIVAAELRYGCTKNGSVKLLGRVQDILKTLPILPLDIPVDTTYGSIR
AELEAAGQLIGANDLLIAAHAYVLGLTLVTDNTREFSRIRGLDVQNWLER

Nucleotide

• Length: 393 bp

>T49893 NZ_CP009826:2112107-2112499 [Xylella fastidiosa]
ATGCTCGACACGAATATCATCAGCGATATCATTCGTAACCCATCCGGGGCGGTGGCTTGCCGTATTGAACACGTTGGGTA
TCCGAACATTTGCACGAGCGTTATCGTGGCGGCTGAACTTCGCTATGGATGCACGAAAAATGGCTCGGTAAAGCTGCTGG
GCAGGGTACAGGACATTCTTAAAACGCTGCCGATCCTGCCTTTGGACATACCTGTTGACACAACATATGGCAGTATCCGT
GCTGAGCTGGAGGCTGCGGGTCAGCTGATCGGCGCTAATGATCTATTGATTGCTGCGCATGCTTACGTACTCGGGCTGAC
TTTGGTCACGGACAACACCCGCGAGTTCAGCCGGATTCGCGGCTTGGATGTGCAGAACTGGCTAGAGAGGTAA

Antitoxin

Protein

• Length: 91 a.a.
• Molecular weight: 10422.91 Da
• Isoelectric Point: 4.8782

>AT49893 WP_023906524.1 NZ_CP009826:2111826-2112098 [Xylella fastidiosa]
MPISSPSSRTKEAKLFRNNRSQAVRIPVEFELPGDRVLIHREGSKLIIEPITRPTNIVELLHEWRRETPLGPEDQFPDID
DMPIQPEDIL

Nucleotide

• Length: 273 bp

>AT49893 NZ_CP009826:2111826-2112098 [Xylella fastidiosa]
ATGCCAATTTCATCTCCGTCATCACGTACCAAGGAAGCGAAGCTATTCCGAAATAATCGTAGCCAGGCAGTACGAATTCC
CGTTGAATTCGAGTTGCCGGGTGATCGTGTTCTGATCCATCGTGAGGGGAGCAAGCTCATTATTGAGCCGATCACCAGGC
CAACCAATATTGTTGAATTACTGCACGAGTGGCGAAGAGAAACACCACTCGGCCCAGAGGATCAATTCCCTGATATTGAT
GACATGCCCATTCAGCCAGAGGATATTCTGTGA

Structures

Antitoxin

• AlphaFold DB: A0A1S0V7A9