Detailed information of TA system TA023969

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 4172124..4172758
• Replicon: chromosome
• Accession: NC_012912
• Organism: Dickeya zeae Ech1591

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: DD1591_RS18300
• Protein ID: WP_015848003.1
• Coordinates: 4172124..4172528 (-)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: C6CLI6
• Locus tag: DD1591_RS18305
• Protein ID: WP_015848004.1
• Coordinates: 4172528..4172758 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
DD1591_RS18275	4167429..4168823	-	1395	WP_015847998.1	hypothetical protein	-
DD1591_RS18280	4168829..4169677	-	849	WP_015847999.1	pirin family protein	-
DD1591_RS18285	4170009..4170866	-	858	WP_015848000.1	DMT family transporter	-
DD1591_RS18290	4170899..4171084	+	186	WP_027713278.1	hypothetical protein	-
DD1591_RS18295	4171095..4172015	+	921	WP_015848002.1	LysR family transcriptional regulator	-
DD1591_RS18300	4172124..4172528	-	405	WP_015848003.1	tRNA(fMet)-specific endonuclease VapC	Toxin
DD1591_RS18305	4172528..4172758	-	231	WP_015848004.1	antitoxin	Antitoxin
DD1591_RS18310	4173238..4174311	-	1074	WP_015848005.1	patatin-like phospholipase family protein	-
DD1591_RS18315	4174308..4175213	-	906	WP_015848006.1	hypothetical protein	-
DD1591_RS18320	4175210..4177594	-	2385	WP_015848007.1	dynamin family protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	flank	IS/Tn	-	-	4177729..4177929	200

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 (4-124)

Antitoxin

• SpoVT-AbrB domain (7-53)

Sequences

Toxin

Protein

• Length: 135 a.a.
• Molecular weight: 15048.36 Da
• Isoelectric Point: 7.9968

>T23969 WP_015848003.1 NC_012912:c4172528-4172124 [Dickeya chrysanthemi Ech1591]
MLKYLLDTNMCIYTIKNKPQEVREAFQRYYGQFAISTITLMELIYGAEKSANPEKNLAVIEGFSARLEIQPYGFDAAVHT
GQIRAELAKKGTPIGPYDAMLAGHARSAGLILVTNNVREFERVPGLRVENWLNP

Nucleotide

• Length: 405 bp

>T23969 NC_012912:c4172528-4172124 [Dickeya chrysanthemi Ech1591]
ATGTTGAAATACCTGCTTGATACCAACATGTGCATTTACACCATAAAGAACAAGCCGCAAGAGGTCAGAGAGGCGTTCCA
GCGTTATTACGGGCAATTTGCGATAAGCACCATCACGTTGATGGAGCTTATCTATGGCGCGGAAAAGTCGGCCAATCCAG
AAAAGAATCTGGCGGTAATAGAAGGATTTTCCGCACGTCTGGAAATCCAGCCCTATGGGTTTGATGCCGCCGTGCATACC
GGCCAAATCCGTGCCGAGCTGGCAAAAAAGGGAACGCCGATTGGCCCGTATGATGCGATGCTGGCAGGCCATGCGCGCTC
GGCAGGCTTGATATTGGTGACGAACAATGTCCGTGAGTTTGAGCGCGTGCCGGGGCTGCGTGTGGAGAACTGGCTTAACC
CATAA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8603.60 Da
• Isoelectric Point: 4.5437

>AT23969 WP_015848004.1 NC_012912:c4172758-4172528 [Dickeya chrysanthemi Ech1591]
MEKATVFKSNRSQAVRLPKAVALPDDVRHVDIVAIGRTRIITPAGESWDSWFDDAGVTPDFMSTREQPDEQIRDDF

Nucleotide

• Length: 231 bp

>AT23969 NC_012912:c4172758-4172528 [Dickeya chrysanthemi Ech1591]
ATGGAAAAAGCCACGGTATTTAAAAGCAACCGGAGCCAAGCAGTACGGCTCCCTAAAGCTGTTGCGTTACCCGATGATGT
TAGGCATGTCGATATTGTCGCCATTGGCCGCACGCGTATCATTACTCCGGCAGGCGAAAGCTGGGACAGTTGGTTTGATG
ACGCGGGCGTGACACCGGATTTCATGAGCACCAGAGAGCAACCGGATGAACAGATCAGGGACGATTTTTGA

Structures

Antitoxin

• AlphaFold DB: C6CLI6