Detailed information of TA system TA048039

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 50428..51086
• Replicon: plasmid pXAC64
• Accession: NZ_CP009000
• Organism: Xanthomonas citri pv. citri strain MN11

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: Q8PRH3
• Locus tag: AMD15_RS00435
• Protein ID: WP_011053002.1
• Coordinates: 50428..50829 (-)
• Length: 134 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: M4U2L0
• Locus tag: AMD15_RS00440
• Protein ID: WP_011053003.1
• Coordinates: 50826..51086 (-)
• Length: 87 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
AMD15_RS00415	45868..46635	-	768	WP_011052998.1	ParA family protein	-
AMD15_RS00420	47440..48666	-	1227	WP_015472949.1	plasmid replication initiator protein	-
AMD15_RS00425	48946..50133	-	1188	WP_011053001.1	zeta toxin family protein	-
AMD15_RS00430	50140..50403	-	264	WP_005917846.1	hypothetical protein	-
AMD15_RS00435	50428..50829	-	402	WP_011053002.1	type II toxin-antitoxin system VapC family toxin	Toxin
AMD15_RS00440	50826..51086	-	261	WP_011053003.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
AMD15_RS00445	51277..51849	+	573	WP_011053004.1	recombinase family protein	-
AMD15_RS00450	51880..52468	-	589	Protein_59	IS3 family transposase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	-	1..63721	63721

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

>T48039 WP_011053002.1 NZ_CP009000:c50829-50428 [Xanthomonas citri pv. citri]
MKRYMLDTNTVSHLVKSHPAVSRRVIEVPMTALCMSAITGGELMFGLAKVPDAKRLQQAVMELLRRVDVLPWDGAVMERY
GSVRADLEKQGKALGSLDMLIAAHALETDSVLVTNDAAFSRVVGLTVEDWTRS

Nucleotide

• Length: 402 bp

>T48039 NZ_CP009000:c50829-50428 [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

>AT48039 WP_011053003.1 NZ_CP009000:c51086-50826 [Xanthomonas citri pv. citri]
VSQVAKLFINGRSQAVRLPAAYRFTEKEVFIRQDPETGDVILSRKPATWEDFFIVLKSADVPANFLDAAERNQGTQDRDP
FAGWRE

Nucleotide

• Length: 261 bp

>AT48039 NZ_CP009000:c51086-50826 [Xanthomonas citri pv. citri]
GTGAGCCAAGTTGCCAAGCTGTTCATCAATGGCCGCAGCCAGGCAGTCCGCTTGCCTGCCGCCTATCGCTTTACCGAGAA
AGAGGTTTTCATTCGCCAAGACCCGGAGACCGGTGACGTCATCCTGTCTCGGAAGCCTGCAACGTGGGAGGACTTCTTTA
TCGTACTCAAGAGCGCAGATGTGCCTGCTAATTTTCTAGATGCCGCCGAGCGCAATCAGGGCACGCAGGACCGTGATCCT
TTTGCGGGATGGCGCGAATGA

Structures

Toxin

• AlphaFold DB: Q8PRH3

Antitoxin

• AlphaFold DB: M4U2L0