Detailed information of TA system TA048118

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 28936..29594
• Replicon: plasmid pXCAW58
• Accession: NZ_CP009030
• Organism: Xanthomonas citri pv. citri strain AW13

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: Q8PRH3
• Locus tag: AMD09_RS00225
• Protein ID: WP_011053002.1
• Coordinates: 29193..29594 (+)
• Length: 134 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q3C002
• Locus tag: AMD09_RS00220
• Protein ID: WP_005917852.1
• Coordinates: 28936..29196 (+)
• Length: 87 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
AMD09_RS00210	27554..28142	+	589	Protein_24	IS3 family transposase	-
AMD09_RS00215	28173..28745	-	573	WP_011053004.1	recombinase family protein	-
AMD09_RS00220	28936..29196	+	261	WP_005917852.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
AMD09_RS00225	29193..29594	+	402	WP_011053002.1	type II toxin-antitoxin system VapC family toxin	Toxin
AMD09_RS00230	29619..29882	+	264	WP_005917846.1	hypothetical protein	-
AMD09_RS00235	29889..31076	+	1188	WP_011053001.1	zeta toxin family protein	-
AMD09_RS00240	31356..32582	+	1227	WP_015472949.1	plasmid replication initiator protein	-
AMD09_RS00245	33308..34075	+	768	WP_040237366.1	ParA family protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	-	1..58317	58317

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 (4-122)

Antitoxin

• SpoVT-AbrB domain (8-52)

Sequences

Toxin

Protein

• Length: 134 a.a.
• Molecular weight: 14627.05 Da
• Isoelectric Point: 7.2785

>T48118 WP_011053002.1 NZ_CP009030:29193-29594 [Xanthomonas citri pv. citri]
MKRYMLDTNTVSHLVKSHPAVSRRVIEVPMTALCMSAITGGELMFGLAKVPDAKRLQQAVMELLRRVDVLPWDGAVMERY
GSVRADLEKQGKALGSLDMLIAAHALETDSVLVTNDAAFSRVVGLTVEDWTRS

Nucleotide

• Length: 402 bp

>T48118 NZ_CP009030:29193-29594 [Xanthomonas citri pv. citri]
ATGAAGCGGTACATGCTTGATACCAACACCGTGAGCCATCTCGTCAAGAGCCATCCGGCTGTCTCTCGACGGGTCATTGA
AGTGCCTATGACTGCGCTATGTATGTCCGCAATTACCGGTGGGGAGCTGATGTTCGGCTTGGCTAAGGTGCCAGACGCCA
AACGCCTTCAGCAAGCCGTCATGGAACTCCTGCGGCGCGTGGATGTGCTGCCTTGGGATGGCGCGGTAATGGAGCGTTAC
GGAAGCGTAAGAGCGGACCTAGAAAAGCAAGGTAAAGCGCTTGGGTCGCTCGACATGCTTATCGCAGCACATGCACTGGA
AACGGATTCTGTCCTCGTTACCAATGACGCCGCATTTAGTCGTGTTGTTGGTTTGACCGTGGAAGATTGGACACGCAGCT
AA

Antitoxin

Protein

• Length: 87 a.a.
• Molecular weight: 9770.95 Da
• Isoelectric Point: 5.0941

>AT48118 WP_005917852.1 NZ_CP009030:28936-29196 [Xanthomonas citri pv. citri]
VSQVAKLFINGRSQAVRLPAAYRFTEKEVFIRQDPETGDVILSRKPATWEDFFIALKSADVPANFLDAAERNQGTQDRDP
FAGWRE

Nucleotide

• Length: 261 bp

>AT48118 NZ_CP009030:28936-29196 [Xanthomonas citri pv. citri]
GTGAGCCAAGTTGCCAAGCTGTTCATCAATGGCCGCAGCCAGGCAGTCCGCTTGCCTGCCGCCTATCGCTTTACCGAGAA
AGAGGTTTTCATTCGCCAAGACCCGGAGACCGGTGACGTCATCCTGTCTCGGAAGCCTGCAACGTGGGAGGACTTCTTTA
TCGCACTCAAGAGCGCAGATGTGCCTGCTAATTTTCTAGATGCCGCCGAGCGCAATCAGGGCACGCAGGACCGTGATCCT
TTTGCGGGATGGCGCGAATGA

Structures

Toxin

• AlphaFold DB: Q8PRH3

Antitoxin

• AlphaFold DB: Q3C002