Detailed information of TA system TA230945

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-VagC
• Location: 1156237..1156925
• Replicon: chromosome
• Accession: NZ_CP090508
• Organism: Xylella fastidiosa subsp. morus strain Riv11

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: LZ758_RS05345
• Protein ID: WP_038230656.1
• Coordinates: 1156237..1156641 (-)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: LZ758_RS05350
• Protein ID: WP_230577702.1
• Coordinates: 1156638..1156925 (-)
• Length: 96 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LZ758_RS05295 (LZ758_05295)	1151377..1151950	+	574	Protein_1042	IS607 family transposase	-
LZ758_RS05300 (LZ758_05300)	1151944..1152105	+	162	WP_014607806.1	helix-turn-helix domain-containing protein	-
LZ758_RS05305 (LZ758_05305)	1152270..1153013	+	744	WP_230577707.1	transposase	-
LZ758_RS05310 (LZ758_05310)	1152917..1153150	+	234	WP_230577706.1	transposase	-
LZ758_RS05315 (LZ758_05315)	1153167..1153400	+	234	WP_038230061.1	DUF3383 family protein	-
LZ758_RS05320 (LZ758_05320)	1153410..1153847	+	438	WP_234056347.1	DUF3277 family protein	-
LZ758_RS05325 (LZ758_05325)	1153844..1154266	+	423	WP_234056346.1	putative phage tail assembly chaperone	-
LZ758_RS05330 (LZ758_05330)	1154293..1154457	+	165	WP_196242993.1	hypothetical protein	-
LZ758_RS05335 (LZ758_05335)	1154516..1155502	+	987	WP_234056345.1	phage tail tape measure protein	-
LZ758_RS05340 (LZ758_05340)	1155499..1156218	+	720	WP_230577703.1	hypothetical protein	-
LZ758_RS05345 (LZ758_05345)	1156237..1156641	-	405	WP_038230656.1	type II toxin-antitoxin system VapC family toxin	Toxin
LZ758_RS05350 (LZ758_05350)	1156638..1156925	-	288	WP_230577702.1	antitoxin	Antitoxin
LZ758_RS05355 (LZ758_05355)	1157070..1157375	+	306	WP_230577600.1	hypothetical protein	-
LZ758_RS05360 (LZ758_05360)	1157519..1157839	+	321	WP_234509108.1	hypothetical protein	-
LZ758_RS05365 (LZ758_05365)	1157839..1158156	+	318	WP_012382585.1	hypothetical protein	-
LZ758_RS05370 (LZ758_05370)	1158153..1158983	+	831	WP_038230303.1	hypothetical protein	-
LZ758_RS05375 (LZ758_05375)	1158980..1159621	+	642	WP_012382583.1	Gp138 family membrane-puncturing spike protein	-
LZ758_RS05380 (LZ758_05380)	1159618..1159971	+	354	WP_040123185.1	hypothetical protein	-
LZ758_RS05385 (LZ758_05385)	1160109..1160348	+	240	WP_011097871.1	antitoxin	-
LZ758_RS05390 (LZ758_05390)	1160357..1160665	+	309	WP_004089386.1	type II toxin-antitoxin system RelE/ParE family toxin	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Integrative and Conjugative Element	-	-	1147226..1166423	19197

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 (21-59)

Sequences

Toxin

Protein

• Length: 135 a.a.
• Molecular weight: 14667.97 Da
• Isoelectric Point: 5.6955

>T230945 WP_038230656.1 NZ_CP090508:c1156641-1156237 [Xylella fastidiosa subsp. morus]
VSGYMLDTNIISDIIRNPFGAVACRIEHVGYPNICTSVIVAAELRYGCTKNGSVKLLSRVQDILKTLPLLPLEIPVDTTY
GSIRAELEAAGQLIGANDLLIAAHAYVLGLTLVTDNTREFSRIRGLDVQNWLER

Nucleotide

• Length: 405 bp

>T230945 NZ_CP125731:2705929-2706036 [Escherichia coli]
ATGACGCTCGCGCAGTTTGCCATGATTTTCTGGCACGACCTGGCAGCACCGATCCTGGCGGGAATTATTACCGCAGCGAT
TGTCAGCTGGTGGCGTAACCGGAAGTAA

Antitoxin

Protein

• Length: 96 a.a.
• Molecular weight: 11006.61 Da
• Isoelectric Point: 4.5716

>AT230945 WP_230577702.1 NZ_CP090508:c1156925-1156638 [Xylella fastidiosa subsp. morus]
MDAVPMPISSPLSRTKEAKLFRNNRSQAVRIPVEFELPGDRVLIHREGSKLIIEPITRPTNIVELLHEWRRETPLDPEDQ
FPDIDDMPVQPEDIL

Nucleotide

• Length: 288 bp

>AT230945 NZ_CP125731:c2705882-2705816 [Escherichia coli]
TGTCTGGTTTCAAGATTAGCCCCCGTTTTGTTGTCAGGTTTTACCTCTCAACGTGCGGGGGTTTTCT