Detailed information of TA system TA075677

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-StbC
• Location: 333052..333749
• Replicon: plasmid pRetNXC12c
• Accession: NZ_CP020909
• Organism: Rhizobium etli strain NXC12

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: S5STF9
• Locus tag: NXC12_RS24760
• Protein ID: WP_011428150.1
• Coordinates: 333052..333498 (-)
• Length: 149 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: NXC12_RS24765
• Protein ID: WP_086083456.1
• Coordinates: 333495..333749 (-)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
NXC12_RS24740	328854..330146	+	1293	WP_011428146.1	L-rhamnose catabolism isomerase	-
NXC12_RS24745	330212..330670	-	459	WP_020923145.1	carboxymuconolactone decarboxylase family protein	-
NXC12_RS24750	330779..331648	+	870	WP_086083454.1	sigma-70 family RNA polymerase sigma factor	-
NXC12_RS24755	331822..333030	+	1209	WP_011428149.1	amidohydrolase/deacetylase family metallohydrolase	-
NXC12_RS24760	333052..333498	-	447	WP_011428150.1	type II toxin-antitoxin system VapC family toxin	Toxin
NXC12_RS24765	333495..333749	-	255	WP_086083456.1	plasmid stabilization protein	Antitoxin
NXC12_RS24770	333820..334659	-	840	WP_020923148.1	IclR family transcriptional regulator	-
NXC12_RS24775	334810..335667	+	858	WP_020923149.1	SDR family oxidoreductase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	-	1..505136	505136

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 (2-121)

Antitoxin

No domain identified.

Sequences

Toxin

Protein

• Length: 149 a.a.
• Molecular weight: 15986.25 Da
• Isoelectric Point: 6.8809

>T75677 WP_011428150.1 NZ_CP020909:c333498-333052 [Rhizobium etli]
MIVLDTNVLSEAMKPTPHSAVRSWLNEQVAETLYLSSVTLAELLFGIGALPDGRRKTALTETLGGVLELFRARVLSFDAE
AARHYADLAIRARAGGKGFPTPDGYIAAIASSKGFMVATRDVSPFEAAGLTVVNPWNHQTPHAFRTDF

Nucleotide

• Length: 447 bp

>T75677 NZ_CP020909:c333498-333052 [Rhizobium etli]
ATGATCGTTCTGGATACGAACGTTCTTTCCGAGGCGATGAAACCAACCCCTCATTCGGCTGTGCGGTCATGGCTGAACGA
GCAGGTCGCCGAGACCTTGTATTTGTCGAGTGTGACGTTGGCCGAGCTGCTGTTTGGCATCGGCGCGCTGCCGGACGGTC
GGCGCAAGACGGCTCTAACCGAAACACTCGGCGGCGTACTCGAACTGTTCCGGGCTCGCGTGTTGTCGTTCGACGCGGAA
GCGGCCCGACATTATGCCGATCTTGCCATCAGGGCTCGTGCGGGCGGCAAAGGATTTCCAACTCCGGACGGATATATCGC
CGCCATCGCTTCTTCGAAGGGTTTTATGGTCGCAACACGTGACGTCAGCCCTTTTGAAGCCGCGGGACTTACTGTCGTAA
ATCCCTGGAACCACCAAACACCTCATGCCTTTCGGACGGATTTCTGA

Antitoxin

Protein

• Length: 85 a.a.
• Molecular weight: 9413.71 Da
• Isoelectric Point: 6.4714

>AT75677 WP_086083456.1 NZ_CP020909:c333749-333495 [Rhizobium etli]
MAILTVRNVPDEVHRALRLRAAIHGRSTEAEVRDILENAVKPEQRIRMGDALAEIGRQSGLSNADFEGLDQLRVRAPAEP
LRFE

Nucleotide

• Length: 255 bp

>AT75677 NZ_CP020909:c333749-333495 [Rhizobium etli]
ATGGCCATTCTGACAGTTCGAAATGTGCCCGATGAGGTGCATCGCGCGTTGCGTCTGCGCGCGGCGATACACGGCCGCAG
CACCGAGGCGGAGGTCCGTGACATCCTGGAAAATGCGGTGAAACCCGAGCAACGTATCCGCATGGGGGATGCCTTGGCCG
AAATCGGTCGACAGTCAGGGCTGTCCAATGCTGATTTCGAAGGGCTCGACCAGCTGCGCGTTAGGGCGCCGGCGGAGCCA
TTGAGGTTTGAATGA

Structures

Toxin

• AlphaFold DB: S5STF9