Detailed information of TA system TA021409

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-StbC
• Location: 332617..333314
• Replicon: plasmid p42e
• Accession: NC_007765
• Organism: Rhizobium etli CFN 42

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: S5STF9
• Locus tag: RHE_RS25570
• Protein ID: WP_011428150.1
• Coordinates: 332617..333063 (-)
• Length: 149 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: S5S4P1
• Locus tag: RHE_RS25575
• Protein ID: WP_011428151.1
• Coordinates: 333060..333314 (-)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
RHE_RS25550	328419..329711	+	1293	WP_011428146.1	L-rhamnose catabolism isomerase	-
RHE_RS25555	329777..330235	-	459	WP_011428147.1	carboxymuconolactone decarboxylase family protein	-
RHE_RS25560	330344..331213	+	870	WP_011428148.1	sigma-70 family RNA polymerase sigma factor	-
RHE_RS25565	331387..332595	+	1209	WP_011428149.1	amidohydrolase/deacetylase family metallohydrolase	-
RHE_RS25570	332617..333063	-	447	WP_011428150.1	type II toxin-antitoxin system VapC family toxin	Toxin
RHE_RS25575	333060..333314	-	255	WP_011428151.1	plasmid stabilization protein	Antitoxin
RHE_RS25580	333385..334224	-	840	WP_011428152.1	IclR family transcriptional regulator	-
RHE_RS25585	334375..335232	+	858	WP_011428153.1	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..505334	505334

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

>T21409 WP_011428150.1 NC_007765:c333063-332617 [Rhizobium etli CFN 42]
MIVLDTNVLSEAMKPTPHSAVRSWLNEQVAETLYLSSVTLAELLFGIGALPDGRRKTALTETLGGVLELFRARVLSFDAE
AARHYADLAIRARAGGKGFPTPDGYIAAIASSKGFMVATRDVSPFEAAGLTVVNPWNHQTPHAFRTDF

Nucleotide

• Length: 447 bp

>T21409 NC_007765:c333063-332617 [Rhizobium etli CFN 42]
ATGATCGTTCTCGATACGAACGTTCTTTCCGAGGCGATGAAACCAACCCCTCATTCGGCTGTGCGGTCATGGCTGAACGA
GCAGGTCGCCGAGACCTTGTATTTGTCGAGTGTGACGTTGGCCGAGCTGCTGTTTGGCATCGGCGCGCTGCCGGACGGTC
GGCGCAAGACGGCTCTAACAGAAACACTCGGCGGCGTACTCGAACTGTTCCGGGCTCGCGTGTTGTCGTTCGACGCGGAA
GCGGCCCGACATTATGCCGATCTTGCCATCAGGGCTCGTGCGGGCGGCAAAGGATTTCCAACTCCGGACGGATATATCGC
CGCCATCGCTTCTTCGAAGGGGTTTATGGTCGCAACACGTGACGTCAGCCCTTTTGAAGCCGCGGGACTTACTGTCGTAA
ATCCCTGGAACCACCAAACACCTCATGCCTTTCGGACGGATTTCTGA

Antitoxin

Protein

• Length: 85 a.a.
• Molecular weight: 9429.67 Da
• Isoelectric Point: 5.7252

>AT21409 WP_011428151.1 NC_007765:c333314-333060 [Rhizobium etli CFN 42]
MAILTVRNVPDEVHRALRLRAAIHGRSTEAEVRDILENAVKPEQRIRMGDALAEIGRQSGLSNADFEGLDQLRDRAPAEP
LRFE

Nucleotide

• Length: 255 bp

>AT21409 NC_007765:c333314-333060 [Rhizobium etli CFN 42]
ATGGCCATTCTGACAGTTCGAAATGTGCCCGATGAGGTGCATCGCGCGTTGCGTCTGCGCGCGGCGATACACGGCCGCAG
CACCGAGGCGGAGGTCCGTGACATCCTGGAAAATGCGGTGAAACCCGAGCAACGTATCCGCATGGGGGATGCCTTGGCCG
AAATCGGTCGACAGTCAGGGCTGTCCAATGCTGATTTCGAAGGGCTCGACCAGCTGCGCGATAGGGCGCCGGCGGAGCCA
TTGAGGTTTGAATGA

Structures

Toxin

• AlphaFold DB: S5STF9

Antitoxin

• AlphaFold DB: S5S4P1