Detailed information of TA system TA231213

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 68259..68917
• Replicon: plasmid pCFBP2530-87
• Accession: NZ_CP090563
• Organism: Xanthomonas citri pv. malvacearum strain CFBP 2530

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: Q8PRH3
• Locus tag: LGM68_RS23245
• Protein ID: WP_011053002.1
• Coordinates: 68259..68660 (-)
• Length: 134 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q3C002
• Locus tag: LGM68_RS23250
• Protein ID: WP_005917852.1
• Coordinates: 68657..68917 (-)
• Length: 87 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LGM68_RS23220 (LGM68_23235)	63605..64405	+	801	WP_017154874.1	IS21-like element helper ATPase IstB	-
LGM68_RS23225 (LGM68_23240)	64436..64615	-	180	Protein_65	transposase	-
LGM68_RS23230 (LGM68_23245)	65271..66497	-	1227	WP_269338311.1	replication protein RepA	-
LGM68_RS23235 (LGM68_23250)	66777..67964	-	1188	WP_269357793.1	zeta toxin family protein	-
LGM68_RS23240 (LGM68_23255)	67971..68234	-	264	WP_005917846.1	hypothetical protein	-
LGM68_RS23245 (LGM68_23260)	68259..68660	-	402	WP_011053002.1	type II toxin-antitoxin system VapC family toxin	Toxin
LGM68_RS23250 (LGM68_23265)	68657..68917	-	261	WP_005917852.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
LGM68_RS23255 (LGM68_23270)	69267..72860	+	3594	WP_269338322.1	type III secretion system effector avirulence protein AvrBs3	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	-	1..87422	87422

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

>T231213 WP_011053002.1 NZ_CP090563:c68660-68259 [Xanthomonas citri pv. malvacearum]
MKRYMLDTNTVSHLVKSHPAVSRRVIEVPMTALCMSAITGGELMFGLAKVPDAKRLQQAVMELLRRVDVLPWDGAVMERY
GSVRADLEKQGKALGSLDMLIAAHALETDSVLVTNDAAFSRVVGLTVEDWTRS

Nucleotide

• Length: 402 bp

>T231213 NZ_CP126140:200443-200928 [Salmonella enterica subsp. enterica serovar Enteritidis]
GTGGGACGTGTAACAGCACCAGAACCTTTGTCCGCTTTTCATCAGGTAGCTGAGTTCGTCAGCGGTGAAGCTGTGCTCGA
TGACTGGTTGAAGCAAAAGGGCCTCAAAAACCAGGCTCTCGGAGCGGCCAGAACATTTGTGGTGTGCAAGAAAGACACGA
AGCAAGTAGCCGGTTTTTACTCTCTGGCCACCGGTAGCGTCAACCATACAGAAGTGACAGGCAACCTTCGGCGTAACATG
CCAGATCCCATCCCTGTCATTATACTTGCCCGTCTTGCTGTCGATCTCTCATTCCATGGAAAAGGGCTTGGTGCTGATTT
ACTTCATGATGCAGTGCTTCGTTGCTATCGGGTTGCCGAGAATATTGGTGTACGTGCAATCATGGTTCATGCACTTACCG
AAGAAGCCAAAAATTTCTACATTCACCATGGTTTCAAATCATCACAAACTCAGCAGCGAACATTGTTCCTTAGGCTCCCT
CAATAG

Antitoxin

Protein

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

>AT231213 WP_005917852.1 NZ_CP090563:c68917-68657 [Xanthomonas citri pv. malvacearum]
VSQVAKLFINGRSQAVRLPAAYRFTEKEVFIRQDPETGDVILSRKPATWEDFFIALKSADVPANFLDAAERNQGTQDRDP
FAGWRE

Nucleotide

• Length: 261 bp

>AT231213 NZ_CP126140:200168-200455 [Salmonella enterica subsp. enterica serovar Enteritidis]
ATGCTATACAAGGGGTGTCTCATGAAATCAGATGTTCAACTTAACCTTAGAGCTAAGGAATCGCAGCGGGCGCTCATTGA
TGCAGCTGCGGAAATCCTTCACAAGTCACGTACAGATTTCATTCTGGAAACGGCCTGCCAGGCTGCCGAGAAAGTGATCC
TTGACCGCCGTGTATTTAACTTTAACGATGAGCAATATGAGGAGTTCATCAATCTGCTTGATGCACCAGTCGCAGATGAT
CCCGTTATCGAAAAACTGCTGGCAAGGAAACCTCAGTGGGACGTGTAA

Structures

Toxin

• AlphaFold DB: Q8PRH3

Antitoxin

• AlphaFold DB: Q3C002