Detailed information of TA system TA062458

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): ccdAB/CcdA(antitoxin)
• Location: 4042588..4043141
• Replicon: chromosome
• Accession: NZ_CP015137
• Organism: Dickeya solani IPO 2222

Toxin (Protein)

• Gene name: ccdB
• Uniprot ID: -
• Locus tag: A4U42_RS17325
• Protein ID: WP_022633101.1
• Coordinates: 4042827..4043141 (+)
• Length: 105 a.a.

Antitoxin (Protein)

• Gene name: ccdA
• Uniprot ID: A0A2K8W593
• Locus tag: A4U42_RS17320
• Protein ID: WP_022633100.1
• Coordinates: 4042588..4042824 (+)
• Length: 79 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
A4U42_RS17305	4038164..4039813	+	1650	WP_022633097.1	hypothetical protein	-
A4U42_RS17310	4040174..4040575	-	402	WP_023637748.1	hypothetical protein	-
A4U42_RS22335	4040639..4040932	-	294	WP_146053334.1	hypothetical protein	-
A4U42_RS17315	4041323..4042267	+	945	WP_022633099.1	DUF1738 domain-containing protein	-
A4U42_RS17320	4042588..4042824	+	237	WP_022633100.1	type II toxin-antitoxin system CcdA family antitoxin	Antitoxin
A4U42_RS17325	4042827..4043141	+	315	WP_022633101.1	CcdB family protein	Toxin
A4U42_RS17330	4043138..4043395	-	258	WP_022633102.1	hypothetical protein	-
A4U42_RS17335	4043571..4044878	-	1308	WP_022633103.1	type II toxin-antitoxin system HipA family toxin	-
A4U42_RS21440	4044878..4045285	-	408	WP_071598628.1	helix-turn-helix transcriptional regulator	-
A4U42_RS17340	4045668..4046414	-	747	WP_022633104.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Integrative and Conjugative Element	-	hcp	4033605..4081983	48378

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

• Toxin CcdB (2-103)

Antitoxin

• Post-segregation antitoxin CcdA (9-78)

Sequences

Toxin

Protein

• Length: 105 a.a.
• Molecular weight: 11459.38 Da
• Isoelectric Point: 7.9859

>T62458 WP_022633101.1 NZ_CP015137:4042827-4043141 [Dickeya solani IPO 2222]
MQFTVYGNTGKSAVYPLLLDVTSDIIGQLNRRIVIPLLPVEKYPAGRRPDRLVPVVRLTDGKEYAVMTHELASIPVQALG
AVFCDASQYRTQVKAAIDFLIDGI

Nucleotide

• Length: 315 bp

>T62458 NZ_CP015137:4042827-4043141 [Dickeya solani IPO 2222]
ATGCAATTCACCGTATACGGTAATACCGGGAAAAGCGCTGTTTACCCGCTGTTGCTCGATGTCACAAGCGATATTATTGG
GCAGTTGAATCGCCGGATAGTGATCCCGTTGCTCCCTGTTGAAAAGTATCCGGCAGGCCGCCGACCAGATCGTCTTGTCC
CCGTCGTCAGGCTGACGGACGGCAAAGAGTACGCCGTAATGACGCACGAGCTGGCAAGTATCCCTGTGCAGGCACTGGGG
GCGGTGTTTTGTGATGCGTCTCAGTATCGTACTCAGGTAAAGGCCGCAATAGATTTCCTCATCGACGGCATTTAG

Antitoxin

Protein

• Length: 79 a.a.
• Molecular weight: 9020.06 Da
• Isoelectric Point: 6.2206

>AT62458 WP_022633100.1 NZ_CP015137:4042588-4042824 [Dickeya solani IPO 2222]
MTAKQRNTQSVTMTVERALLVRAREAGINLSAILTTALDAELRHHEAKKWQEENREAIDALNRFHDENGCFSDEYRTF

Nucleotide

• Length: 237 bp

>AT62458 NZ_CP015137:4042588-4042824 [Dickeya solani IPO 2222]
ATGACCGCGAAACAACGCAACACGCAAAGCGTGACCATGACGGTGGAGCGTGCCTTACTGGTCCGGGCGCGTGAAGCGGG
CATTAACCTGAGTGCCATCCTGACAACCGCCCTGGATGCAGAGCTTCGCCACCATGAAGCAAAAAAATGGCAGGAAGAGA
ACAGGGAAGCCATCGACGCATTAAACCGTTTTCATGATGAAAATGGCTGTTTCAGTGATGAATACAGGACGTTTTAA

Structures

Antitoxin

• AlphaFold DB: A0A2K8W593