Detailed information of TA system TA049911

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-VagC
• Location: 1252569..1253242
• Replicon: chromosome
• Accession: NZ_CP009829
• Organism: Xylella fastidiosa strain 3124

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: XFC3_RS05580
• Protein ID: WP_023906525.1
• Coordinates: 1252850..1253242 (+)
• Length: 131 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A1S0V7A9
• Locus tag: XFC3_RS05575
• Protein ID: WP_023906524.1
• Coordinates: 1252569..1252841 (+)
• Length: 91 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
XFC3_RS05540	1247711..1248271	-	561	WP_023906517.1	DUF2612 domain-containing protein	-
XFC3_RS05545	1248268..1249413	-	1146	WP_023906518.1	baseplate J/gp47 family protein	-
XFC3_RS05550	1249506..1249859	-	354	WP_023906519.1	hypothetical protein	-
XFC3_RS05555	1249856..1250497	-	642	WP_023906520.1	hypothetical protein	-
XFC3_RS05560	1250494..1251324	-	831	WP_023906521.1	hypothetical protein	-
XFC3_RS05565	1251321..1251638	-	318	WP_023906522.1	hypothetical protein	-
XFC3_RS05570	1251638..1252408	-	771	WP_023906523.1	hypothetical protein	-
XFC3_RS05575	1252569..1252841	+	273	WP_023906524.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
XFC3_RS05580	1252850..1253242	+	393	WP_023906525.1	type II toxin-antitoxin system VapC family toxin	Toxin
XFC3_RS05585	1253261..1255150	-	1890	WP_088572609.1	hypothetical protein	-
XFC3_RS05590	1255298..1255720	-	423	WP_023906527.1	hypothetical protein	-
XFC3_RS05595	1255717..1256154	-	438	WP_010894081.1	DUF3277 family protein	-
XFC3_RS05600	1256164..1257653	-	1490	Protein_1090	DUF3383 domain-containing protein	-
XFC3_RS05605	1257654..1258187	-	534	WP_199251127.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Prophage	-	-	1210867..1289817	78950

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

>T49911 WP_023906525.1 NZ_CP009829:1252850-1253242 [Xylella fastidiosa]
MLDTNIISDIIRNPSGAVACRIEHVGYPNICTSVIVAAELRYGCTKNGSVKLLGRVQDILKTLPILPLDIPVDTTYGSIR
AELEAAGQLIGANDLLIAAHAYVLGLTLVTDNTREFSRIRGLDVQNWLER

Nucleotide

• Length: 393 bp

>T49911 NZ_CP009829:1252850-1253242 [Xylella fastidiosa]
ATGCTCGACACGAATATCATCAGCGATATCATTCGTAACCCATCCGGGGCGGTGGCTTGCCGTATTGAACACGTTGGGTA
TCCGAACATTTGCACGAGCGTTATCGTGGCGGCTGAACTTCGCTATGGATGCACGAAAAATGGCTCGGTAAAGCTGCTGG
GCAGGGTACAGGACATTCTTAAAACGCTGCCGATCCTGCCTTTGGACATACCTGTTGACACAACATATGGCAGTATCCGT
GCTGAGCTGGAGGCTGCGGGTCAGCTGATCGGCGCTAATGATCTATTGATTGCTGCGCATGCTTACGTACTCGGGCTGAC
TTTGGTCACGGACAACACCCGCGAGTTCAGCCGGATTCGCGGCTTGGATGTGCAGAACTGGCTAGAGAGGTAA

Antitoxin

Protein

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

>AT49911 WP_023906524.1 NZ_CP009829:1252569-1252841 [Xylella fastidiosa]
MPISSPSSRTKEAKLFRNNRSQAVRIPVEFELPGDRVLIHREGSKLIIEPITRPTNIVELLHEWRRETPLGPEDQFPDID
DMPIQPEDIL

Nucleotide

• Length: 273 bp

>AT49911 NZ_CP009829:1252569-1252841 [Xylella fastidiosa]
ATGCCAATTTCATCTCCGTCATCACGTACCAAGGAAGCGAAGCTATTCCGAAATAATCGTAGCCAGGCAGTACGAATTCC
CGTTGAATTCGAGTTGCCGGGTGATCGTGTTCTGATCCATCGTGAGGGGAGCAAGCTCATTATTGAGCCGATCACCAGGC
CAACCAATATTGTTGAATTACTGCACGAGTGGCGAAGAGAAACACCACTCGGCCCAGAGGATCAATTCCCTGATATTGAT
GACATGCCCATTCAGCCAGAGGATATTCTGTGA

Structures

Antitoxin

• AlphaFold DB: A0A1S0V7A9