Detailed information of TA system TA057694

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 10564..11222
• Replicon: plasmid pXcmN
• Accession: NZ_CP013007
• Organism: Xanthomonas citri pv. malvacearum strain XcmN1003

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: Q8PRH3
• Locus tag: APY30_RS23440
• Protein ID: WP_011053002.1
• Coordinates: 10821..11222 (+)
• Length: 134 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q3C002
• Locus tag: APY30_RS23435
• Protein ID: WP_005917852.1
• Coordinates: 10564..10824 (+)
• Length: 87 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
APY30_RS23400	6050..6496	+	447	WP_029220486.1	avidin/streptavidin family protein	-
APY30_RS23405	6709..7308	-	600	WP_033836462.1	hypothetical protein	-
APY30_RS23410	7541..8164	+	624	WP_033836461.1	hypothetical protein	-
APY30_RS23415	8161..8655	-	495	WP_033836460.1	hypothetical protein	-
APY30_RS23420	8795..9445	-	651	WP_033836459.1	recombinase family protein	-
APY30_RS23425	9990..10373	-	384	Protein_12	recombinase family protein	-
APY30_RS23435	10564..10824	+	261	WP_005917852.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
APY30_RS23440	10821..11222	+	402	WP_011053002.1	type II toxin-antitoxin system VapC family toxin	Toxin
APY30_RS23445	11247..11510	+	264	WP_005917846.1	hypothetical protein	-
APY30_RS23450	11517..12704	+	1188	WP_033836458.1	zeta toxin family protein	-
APY30_RS23455	12984..14210	+	1227	WP_033836457.1	replication protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	-	1..59644	59644
	-	inside	IScluster/Tn	-	-	9921..25951	16030

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

>T57694 WP_011053002.1 NZ_CP013007:10821-11222 [Xanthomonas citri pv. malvacearum]
MKRYMLDTNTVSHLVKSHPAVSRRVIEVPMTALCMSAITGGELMFGLAKVPDAKRLQQAVMELLRRVDVLPWDGAVMERY
GSVRADLEKQGKALGSLDMLIAAHALETDSVLVTNDAAFSRVVGLTVEDWTRS

Nucleotide

• Length: 402 bp

>T57694 NZ_CP013007:10821-11222 [Xanthomonas citri pv. malvacearum]
ATGAAGCGGTACATGCTTGATACCAACACCGTGAGCCATCTCGTCAAAAGCCATCCGGCTGTCTCTCGACGGGTCATTGA
AGTGCCTATGACTGCGCTATGTATGTCCGCAATTACCGGTGGGGAGCTGATGTTCGGCTTGGCTAAGGTGCCAGACGCCA
AACGCCTTCAGCAAGCCGTCATGGAACTCCTGCGGCGCGTGGATGTGCTGCCTTGGGATGGCGCGGTAATGGAGCGTTAC
GGAAGCGTAAGAGCGGACCTAGAAAAGCAAGGTAAAGCGCTTGGGTCGCTCGACATGCTTATCGCAGCACATGCACTGGA
AACGGATTCTGTCCTCGTTACCAATGACGCCGCATTTAGTCGTGTTGTTGGTTTGACCGTGGAAGATTGGACACGCAGCT
AA

Antitoxin

Protein

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

>AT57694 WP_005917852.1 NZ_CP013007:10564-10824 [Xanthomonas citri pv. malvacearum]
VSQVAKLFINGRSQAVRLPAAYRFTEKEVFIRQDPETGDVILSRKPATWEDFFIALKSADVPANFLDAAERNQGTQDRDP
FAGWRE

Nucleotide

• Length: 261 bp

>AT57694 NZ_CP013007:10564-10824 [Xanthomonas citri pv. malvacearum]
GTGAGCCAAGTTGCCAAGCTGTTCATCAATGGCCGCAGCCAGGCAGTCCGCTTGCCTGCCGCCTATCGCTTTACCGAGAA
AGAGGTTTTCATTCGCCAAGACCCGGAGACCGGTGACGTCATCCTGTCTCGGAAGCCTGCAACGTGGGAGGACTTCTTTA
TCGCACTCAAGAGCGCAGATGTGCCTGCTAATTTTCTAGATGCCGCCGAGCGCAATCAGGGCACGCAGGACCGTGATCCT
TTTGCGGGATGGCGCGAATGA

Structures

Toxin

• AlphaFold DB: Q8PRH3

Antitoxin

• AlphaFold DB: Q3C002