Detailed information of TA system TA021706

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagD-vapB/VapC-VagC
• Location: 23967..24616
• Replicon: plasmid pTB1
• Accession: NC_008386
• Organism: Roseobacter denitrificans OCh 114

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: -
• Locus tag: RD1_RS19605
• Protein ID: WP_011655384.1
• Coordinates: 24194..24616 (+)
• Length: 141 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q07GS2
• Locus tag: RD1_RS19600
• Protein ID: WP_011655383.1
• Coordinates: 23967..24197 (+)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
RD1_RS19580	19199..19765	+	567	WP_044033563.1	hypothetical protein	-
RD1_RS19585	19963..21318	+	1356	WP_011655380.1	AAA family ATPase	-
RD1_RS19590	21315..22337	+	1023	WP_011655381.1	ParB N-terminal domain-containing protein	-
RD1_RS19595	22578..23891	+	1314	WP_011655382.1	replication protein C	-
RD1_RS19600	23967..24197	+	231	WP_011655383.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
RD1_RS19605	24194..24616	+	423	WP_011655384.1	type II toxin-antitoxin system VapC family toxin	Toxin
RD1_RS19610	24822..25127	-	306	WP_011655385.1	hypothetical protein	-
RD1_RS19615	25181..26395	-	1215	WP_011655387.1	tyrosine-type recombinase/integrase	-
RD1_RS19620	26520..27482	+	963	WP_011655388.1	DUF1403 family protein	-
RD1_RS19625	27479..28108	+	630	WP_011655389.1	SMC-Scp complex subunit ScpB	-
RD1_RS20525	28311..28910	+	600	WP_050759150.1	DUF433 domain-containing protein	-
RD1_RS19635	28920..29300	+	381	WP_044033566.1	DUF5615 family PIN-like protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	-	1..106469	106469

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 (4-128)

Antitoxin

• SpoVT-AbrB domain (8-52)

Sequences

Toxin

Protein

• Length: 141 a.a.
• Molecular weight: 15527.57 Da
• Isoelectric Point: 4.4225

>T21706 WP_011655384.1 NC_008386:24194-24616 [Roseobacter denitrificans OCh 114]
MTLYMLDTDICSYLMREHPAAVLRAMEKQVEAGEDICISVITYSELRLGAARSQARAKYDGLIDALSDRLDFIADWSTKE
ADRFADVQSHLLGQGAPIGANDTMIAAHALSLGAVLVTNNQRHFSKIEELVLENWLDQSD

Nucleotide

• Length: 423 bp

>T21706 NC_008386:24194-24616 [Roseobacter denitrificans OCh 114]
TTGACGCTCTACATGCTCGATACGGACATTTGCAGCTATCTGATGCGTGAGCATCCGGCGGCGGTGTTACGAGCAATGGA
AAAGCAGGTCGAGGCGGGGGAGGATATCTGCATTTCCGTGATTACTTACTCGGAACTGCGCCTCGGGGCGGCCCGGTCTC
AGGCGCGTGCTAAATATGACGGTTTGATCGATGCGCTGTCTGACCGGCTCGACTTCATCGCGGATTGGTCGACGAAAGAA
GCTGATCGGTTTGCAGACGTTCAGTCCCATTTGCTGGGGCAAGGGGCCCCGATTGGTGCCAATGACACGATGATCGCCGC
CCATGCTCTGTCGCTGGGGGCAGTCTTGGTCACGAATAACCAACGTCATTTTTCTAAGATCGAAGAACTGGTGCTGGAAA
ACTGGCTGGACCAATCTGATTAG

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8554.88 Da
• Isoelectric Point: 8.7696

>AT21706 WP_011655383.1 NC_008386:23967-24197 [Roseobacter denitrificans OCh 114]
MTAIAKLFTNGRSQAVRIPKDFAFHGIDEVSVRKIGNKLVLEPIRKTWTSLADEEPAAADFMAERPDLLNPDRVKF

Nucleotide

• Length: 231 bp

>AT21706 NC_008386:23967-24197 [Roseobacter denitrificans OCh 114]
ATGACCGCAATCGCAAAACTGTTCACCAATGGACGCAGCCAAGCCGTGCGGATTCCGAAGGATTTCGCCTTTCACGGTAT
CGATGAGGTTTCGGTCCGTAAGATCGGGAACAAGCTGGTGTTGGAACCGATCCGCAAGACATGGACCAGCCTGGCCGACG
AAGAGCCCGCGGCGGCGGATTTCATGGCGGAGCGTCCCGACTTGCTGAACCCAGACAGAGTCAAGTTTTGA

Structures

Antitoxin

• AlphaFold DB: Q07GS2