Detailed information of TA system TA169680

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 39997..40655
• Replicon: plasmid pSN3-3
• Accession: NZ_CP060003
• Organism: Xanthomonas citri pv. citri strain SN3-3

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: Q8PRH3
• Locus tag: HZS91_RS22325
• Protein ID: WP_011053002.1
• Coordinates: 40254..40655 (+)
• Length: 134 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: M4U2L0
• Locus tag: HZS91_RS22320
• Protein ID: WP_011053003.1
• Coordinates: 39997..40257 (+)
• Length: 87 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
HZS91_RS22310 (HZS91_05045)	38616..39203	+	588	Protein_37	IS3-like element ISXac3 family transposase	-
HZS91_RS22315 (HZS91_05046)	39234..39806	-	573	WP_011053004.1	recombinase family protein	-
HZS91_RS22320 (HZS91_05048)	39997..40257	+	261	WP_011053003.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
HZS91_RS22325 (HZS91_05049)	40254..40655	+	402	WP_011053002.1	type II toxin-antitoxin system VapC family toxin	Toxin
HZS91_RS22330 (HZS91_05050)	40680..40943	+	264	WP_005917846.1	hypothetical protein	-
HZS91_RS22335 (HZS91_05051)	40950..42137	+	1188	WP_011053001.1	zeta toxin family protein	-
HZS91_RS22340 (HZS91_05052)	42417..43643	+	1227	WP_015472949.1	replication protein RepA	-
HZS91_RS22345 (HZS91_05054)	44448..45215	+	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..63921	63921

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 (8-46)

Sequences

Toxin

Protein

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

>T169680 WP_011053002.1 NZ_CP060003:40254-40655 [Xanthomonas citri pv. citri]
MKRYMLDTNTVSHLVKSHPAVSRRVIEVPMTALCMSAITGGELMFGLAKVPDAKRLQQAVMELLRRVDVLPWDGAVMERY
GSVRADLEKQGKALGSLDMLIAAHALETDSVLVTNDAAFSRVVGLTVEDWTRS

Nucleotide

• Length: 402 bp

>T169680 NZ_CP060003:40254-40655 [Xanthomonas citri pv. citri]
ATGAAGCGGTACATGCTTGATACCAACACCGTGAGCCATCTCGTCAAGAGCCATCCGGCTGTCTCTCGACGGGTCATTGA
AGTGCCTATGACTGCGCTATGTATGTCCGCAATTACCGGTGGGGAGCTGATGTTCGGCTTGGCTAAGGTGCCAGACGCCA
AACGCCTTCAGCAAGCCGTCATGGAACTCCTGCGGCGCGTGGATGTGCTGCCTTGGGATGGCGCGGTAATGGAGCGTTAC
GGAAGCGTAAGAGCGGACCTAGAAAAGCAAGGTAAAGCGCTTGGGTCGCTCGACATGCTTATCGCAGCACATGCACTGGA
AACGGATTCTGTCCTCGTTACCAATGACGCCGCATTTAGTCGTGTTGTTGGTTTGACCGTGGAAGATTGGACACGCAGCT
AA

Antitoxin

Protein

• Length: 87 a.a.
• Molecular weight: 9799.00 Da
• Isoelectric Point: 5.0941

>AT169680 WP_011053003.1 NZ_CP060003:39997-40257 [Xanthomonas citri pv. citri]
VSQVAKLFINGRSQAVRLPAAYRFTEKEVFIRQDPETGDVILSRKPATWEDFFIVLKSADVPANFLDAAERNQGTQDRDP
FAGWRE

Nucleotide

• Length: 261 bp

>AT169680 NZ_CP060003:39997-40257 [Xanthomonas citri pv. citri]
GTGAGCCAAGTTGCCAAGCTGTTCATCAATGGCCGCAGCCAGGCAGTCCGCTTGCCTGCCGCCTATCGCTTTACCGAGAA
AGAGGTTTTCATTCGCCAAGACCCGGAGACCGGTGACGTCATCCTGTCTCGGAAGCCTGCAACGTGGGAGGACTTCTTTA
TCGTACTCAAGAGCGCAGATGTGCCTGCTAATTTTCTAGATGCCGCCGAGCGCAATCAGGGCACGCAGGACCGTGATCCT
TTTGCGGGATGGCGCGAATGA

Structures

Toxin

• AlphaFold DB: Q8PRH3

Antitoxin

• AlphaFold DB: M4U2L0