Detailed information of TA system TA123001

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): itaRT/DUF1778(antitoxin)
• Location: 1417453..1418281
• Replicon: chromosome
• Accession: NZ_CP038499
• Organism: Dickeya dianthicola strain LAR.16.03.LID

Toxin (Protein)

• Gene name: itaT
• Uniprot ID: A0A3A4CQM7
• Locus tag: E4659_RS06610
• Protein ID: WP_024105035.1
• Coordinates: 1417453..1417989 (-)
• Length: 179 a.a.

Antitoxin (Protein)

• Gene name: itaR
• Uniprot ID: -
• Locus tag: E4659_RS06615
• Protein ID: WP_024105036.1
• Coordinates: 1417970..1418281 (-)
• Length: 104 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
E4659_RS06590 (E4659_06715)	1412818..1413786	+	969	WP_024105031.1	o-succinylbenzoate synthase	-
E4659_RS06595 (E4659_06720)	1413774..1415144	+	1371	WP_024108474.1	o-succinylbenzoate--CoA ligase	-
E4659_RS06600 (E4659_06725)	1415351..1415896	+	546	WP_024105033.1	YfaZ family outer membrane protein	-
E4659_RS06605 (E4659_06730)	1416099..1417292	+	1194	WP_024105034.1	nicotinamide mononucleotide deamidase-related protein YfaY	-
E4659_RS06610 (E4659_06735)	1417453..1417989	-	537	WP_024105035.1	GNAT family N-acetyltransferase	Toxin
E4659_RS06615 (E4659_06740)	1417970..1418281	-	312	WP_024105036.1	DUF1778 domain-containing protein	Antitoxin
E4659_RS06620 (E4659_06745)	1418580..1418875	-	296	Protein_1298	IS4 family transposase	-
E4659_RS06625 (E4659_06750)	1418978..1419838	-	861	WP_024105037.1	co-chaperone YbbN	-
E4659_RS06630 (E4659_06755)	1419901..1420677	-	777	WP_024105038.1	SDR family oxidoreductase	-
E4659_RS06635 (E4659_06760)	1420823..1421464	-	642	WP_119875342.1	multifunctional acyl-CoA thioesterase I/protease I/lysophospholipase L1	-
E4659_RS06640 (E4659_06765)	1421432..1422118	+	687	WP_024107942.1	putative ABC transporter ATP-binding protein YbbA	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)

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

• GNAT domain (66-154)

Antitoxin

• Vibrio phage ICP1, Orf50 (18-96)

Sequences

Toxin

Protein

• Length: 179 a.a.
• Molecular weight: 19327.27 Da
• Isoelectric Point: 6.7055

>T123001 WP_024105035.1 NZ_CP038499:c1417989-1417453 [Dickeya dianthicola]
MVDTQSESNGVVVYAYQADTTYPGSKSFDCGNTVINSFVRSSLKKSVRDGNCAAKVLVKDETKELLGFCTFAAYSLEKSK
LAGVVSGSLPHELGVVRLIMLGVATKEQNKGYGQELLLEFFKQVKTIHESLPVKGVYLDADPAAIDFYIRLGFVQLNEPP
NAFGAVPMFLAIQHILAA

Nucleotide

• Length: 537 bp

>T123001 NZ_CP038499:c1417989-1417453 [Dickeya dianthicola]
ATGGTAGATACTCAAAGTGAAAGTAATGGTGTAGTGGTATACGCGTATCAGGCAGATACCACATACCCTGGGAGTAAGAG
TTTCGATTGCGGAAATACCGTAATCAACTCTTTTGTGCGTAGCTCCCTCAAGAAAAGCGTCAGAGATGGGAATTGTGCAG
CTAAAGTATTGGTTAAAGATGAAACAAAAGAGCTGTTGGGTTTCTGTACTTTTGCTGCTTACTCTCTTGAAAAAAGTAAG
TTGGCGGGGGTGGTTTCAGGTTCATTGCCTCACGAATTAGGGGTTGTTCGGCTAATTATGCTGGGGGTAGCCACGAAAGA
ACAGAATAAAGGCTATGGACAAGAACTGCTTTTAGAATTCTTTAAACAGGTTAAAACCATCCACGAATCGCTACCTGTTA
AAGGCGTGTATTTGGATGCGGATCCGGCAGCAATTGACTTCTATATCCGGTTAGGTTTCGTTCAACTTAATGAACCACCG
AATGCTTTTGGTGCGGTGCCCATGTTTTTGGCCATTCAACATATCCTTGCTGCGTAG

Antitoxin

Protein

• Length: 104 a.a.
• Molecular weight: 11448.09 Da
• Isoelectric Point: 10.7931

>AT123001 WP_024105036.1 NZ_CP038499:c1418281-1417970 [Dickeya dianthicola]
MSNVSVFPNDIRVTKNARVELKTSPDLKDVLREAATAAGLDLSAFILNAALERAESVLDNQRRRQLSAASWQQLNQLLSE
PAAPTLALQALMRRKKQDGRYSK

Nucleotide

• Length: 312 bp

>AT123001 NZ_CP038499:c1418281-1417970 [Dickeya dianthicola]
ATGTCTAATGTATCAGTGTTTCCCAATGATATTCGCGTCACGAAGAACGCGCGGGTGGAGTTAAAAACTAGCCCTGACCT
TAAAGATGTGCTTCGTGAAGCAGCTACGGCTGCAGGTTTAGATTTGAGTGCGTTTATTCTTAATGCCGCCCTGGAGCGAG
CAGAAAGCGTCCTGGATAACCAGCGGCGCCGACAGCTTTCAGCAGCAAGCTGGCAACAATTAAACCAACTCTTGTCTGAA
CCTGCTGCACCGACGCTGGCTTTACAGGCGTTAATGCGGAGGAAGAAACAAGATGGTAGATACTCAAAGTGA

Structures

Toxin

• AlphaFold DB: A0A3A4CQM7