Detailed information of TA system TA236174

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 648455..649098
• Replicon: chromosome
• Accession: NZ_CP092458
• Organism: Dickeya fangzhongdai strain 643b

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: -
• Locus tag: MJO48_RS03015
• Protein ID: WP_024109782.1
• Coordinates: 648682..649098 (+)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: A0A2K8QHR2
• Locus tag: MJO48_RS03010
• Protein ID: WP_024109781.1
• Coordinates: 648455..648685 (+)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
MJO48_RS02985 (MJO48_02985)	643492..644424	+	933	WP_239788471.1	TIGR03756 family integrating conjugative element protein	-
MJO48_RS02990 (MJO48_02990)	644475..645857	+	1383	WP_239789144.1	integrating conjugative element protein	-
MJO48_RS02995 (MJO48_02995)	645869..646246	+	378	WP_239788472.1	hypothetical protein	-
MJO48_RS03000 (MJO48_03000)	646243..647787	+	1545	WP_239788473.1	conjugal transfer protein TraG N-terminal domain-containing protein	-
MJO48_RS03005 (MJO48_03005)	647844..648254	-	411	WP_239788474.1	hypothetical protein	-
MJO48_RS03010 (MJO48_03010)	648455..648685	+	231	WP_024109781.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
MJO48_RS03015 (MJO48_03015)	648682..649098	+	417	WP_024109782.1	type II toxin-antitoxin system VapC family toxin	Toxin
MJO48_RS03020 (MJO48_03020)	649435..649698	+	264	WP_239788475.1	hypothetical protein	-
MJO48_RS03025 (MJO48_03025)	649830..650441	+	612	WP_239788476.1	DUF2726 domain-containing protein	-
MJO48_RS03030 (MJO48_03030)	651470..652384	+	915	WP_239788477.1	integrase domain-containing protein	-
MJO48_RS03035 (MJO48_03035)	652450..652749	-	300	WP_239788478.1	chromosome segregation protein ParM	-
MJO48_RS03040 (MJO48_03040)	653169..653438	+	270	WP_239788479.1	hypothetical protein	-
MJO48_RS03045 (MJO48_03045)	653519..653851	+	333	WP_239788480.1	hypothetical protein	-
MJO48_RS03050 (MJO48_03050)	653865..654098	+	234	WP_239788481.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Integrative and Conjugative Element	-	-	593101..667878	74777

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 (5-129)

Antitoxin

• SpoVT-AbrB domain (7-55)

Sequences

Toxin

Protein

• Length: 139 a.a.
• Molecular weight: 15010.45 Da
• Isoelectric Point: 7.7037

>T236174 WP_024109782.1 NZ_CP092458:648682-649098 [Dickeya fangzhongdai]
MSKTYMLDTCICSFIMREQPEAVLKRLEQAVLRRHRIVVSAITYAEMRFGAIGKKASPRHALLVDAFCARLDTVLPWDRA
AVDATTDIKVTLAAAGTPIGNNDAAIAGHAIAADAILVTNNVKEFARVPGLNIEDWSC

Nucleotide

• Length: 417 bp

>T236174 NZ_LR135474:451191-451532 [Enterococcus faecium]
GTGTCAGAAGAAAGAATTTATATTCCTAAAAAAGGTGATATTGTATGGATTGATTTTGATCCCTCAGTAGGAAAAGAAAT
TCAAAAAAGACGACCAGGACTAGTCGTCTCTCGTTATGAATTTAACCGTAAAACAATGTTTTCGGTCATATGTCCAATTA
CTTCCACTATAAAGAATTTACCGACACGTTACTCATTACCTGAAGAGCTAGATATAAAAGGACAAGTAATTATTACACAA
TTAAAATCTCTTGATTTTAAGGAACGAAAACTCAAAAAAATAGAAAACTTACCATTGCAAGACATGGCTAAAATTGATCA
GATTATACAGTATATGTTTTAA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8824.88 Da
• Isoelectric Point: 4.2917

>AT236174 WP_024109781.1 NZ_CP092458:648455-648685 [Dickeya fangzhongdai]
MRTVSVFKNGNNRAIRLPRDLDFEGVNELEIVREGDTIILRPVKPTWSSFLQEEKADSDFLIEREDVVSDEGRFDL

Nucleotide

• Length: 231 bp

>AT236174 NZ_LR135474:450961-451191 [Enterococcus faecium]
ATGCTTGTTACAAAATCTAGATTACAAGGAAGTTCTGTAGTGGTAACTTTACCTTCTGATAACGGAAAGAAACCTTCAGA
AAACCAAGAATATATCGTTGTGTATTCTGATGATGGAACAATTACGTTAGTTCCAAAAATTGAAGATCCATTTAGTGGTG
GGGAAGAGGCCGAGTATTATGAGAAAGACGAATGGGAAGATTTAACTCCTGAAGGGAGAGAAATTTTATAG

Structures

Antitoxin

• AlphaFold DB: A0A2K8QHR2