Detailed information of TA system TA170422

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 31794..32452
• Replicon: plasmid pXAS56
• Accession: NZ_CP060448
• Organism: Xanthomonas citri pv. citri strain DAR72029

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: Q8PRH3
• Locus tag: H8Z73_RS23375
• Protein ID: WP_011053002.1
• Coordinates: 32051..32452 (+)
• Length: 134 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q3C002
• Locus tag: H8Z73_RS23370
• Protein ID: WP_005917852.1
• Coordinates: 31794..32054 (+)
• Length: 87 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
H8Z73_RS23360	30412..31000	+	589	Protein_30	IS3 family transposase	-
H8Z73_RS23365	31031..31603	-	573	WP_011053004.1	recombinase family protein	-
H8Z73_RS23370	31794..32054	+	261	WP_005917852.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
H8Z73_RS23375	32051..32452	+	402	WP_011053002.1	type II toxin-antitoxin system VapC family toxin	Toxin
H8Z73_RS23380	32477..32740	+	264	WP_005917846.1	hypothetical protein	-
H8Z73_RS23385	32747..33934	+	1188	WP_040150073.1	zeta toxin family protein	-
H8Z73_RS23390	34214..35440	+	1227	WP_015472949.1	plasmid replication initiator protein	-
H8Z73_RS23395	36245..37012	+	768	WP_011052998.1	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..56053	56053

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

>T170422 WP_011053002.1 NZ_CP060448:32051-32452 [Xanthomonas citri pv. citri]
MKRYMLDTNTVSHLVKSHPAVSRRVIEVPMTALCMSAITGGELMFGLAKVPDAKRLQQAVMELLRRVDVLPWDGAVMERY
GSVRADLEKQGKALGSLDMLIAAHALETDSVLVTNDAAFSRVVGLTVEDWTRS

Nucleotide

• Length: 402 bp

>T170422 NZ_CP077366:255777-256130 [Pantoea agglomerans]
ATGTGGACCGTACTCCTGAGCCCGCGCTTTGAAAGCTGGCTAAGTGAGCAGGAAGAAGCCCTGCAGGAAAAAATGTTAGC
GGATCTGGGAAAGTTAAAAGTATACGGCCCTGATTTGCCTCGCCCTTATGCTGATACTCTCAAGGGCTCGCAGTACAGGA
ATATGAAAGAACTCCGCGTACAGTTTTCAGGAAAGCCAATTCGGGCATTTTATGCATTTGACCCTGTCCGCCAGGCTATT
GTGTTATGTGCCGGAGATAAGAGTCATGACAAACGTTTTTATATCCGAATGATACGCATCGCTGACGATGAATTTTCAGC
CTGGCTGGCTGAACAGGAGAAGGGAAATAATTAA

Antitoxin

Protein

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

>AT170422 WP_005917852.1 NZ_CP060448:31794-32054 [Xanthomonas citri pv. citri]
VSQVAKLFINGRSQAVRLPAAYRFTEKEVFIRQDPETGDVILSRKPATWEDFFIALKSADVPANFLDAAERNQGTQDRDP
FAGWRE

Nucleotide

• Length: 261 bp

>AT170422 NZ_CP077366:256130-256429 [Pantoea agglomerans]
ATGAGAACCCTGGATGATGTTATCGCCGACTTCTCCCCTGAGACTCAGGCGCGAATCAAAAAAATGTCTGATGAAATGAT
TCTGGAAGTCGGGCTTCAGATGATTCGCGAAGAGCTTCAGTTATCACAAAAGACGCTCGCCGAGGCCATGGGCGTGCGTC
AGCCTGCCGTTGCTCAGATTGAGCAACGCGGAAATGAGATTAAGGTTGCCACGCTGAAACGCTATGTCGAAGCAATGGGC
GGAAAACTCAGTCTTGATGTGGAACTTCCGACCGGAAAAAGAGTGGCCTTTCGCATCTGA

Structures

Toxin

• AlphaFold DB: Q8PRH3

Antitoxin

• AlphaFold DB: Q3C002