Detailed information of TA system TA024892

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): ccdAB/CcdA(antitoxin)
• Location: 592071..592597
• Replicon: chromosome
• Accession: NC_014500
• Organism: Dickeya dadantii 3937

Toxin (Protein)

• Gene name: ccdB
• Uniprot ID: E0SK20
• Locus tag: DDA3937_RS02665
• Protein ID: WP_013316247.1
• Coordinates: 592071..592376 (-)
• Length: 102 a.a.

Antitoxin (Protein)

• Gene name: ccdA
• Uniprot ID: E0SK21
• Locus tag: DDA3937_RS02670
• Protein ID: WP_012773205.1
• Coordinates: 592379..592597 (-)
• Length: 73 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
DDA3937_RS02645 (Dda3937_02704)	587253..587546	+	294	WP_013316243.1	DUF1778 domain-containing protein	-
DDA3937_RS02650 (Dda3937_02705)	587543..588031	+	489	WP_033111579.1	GNAT family N-acetyltransferase	-
DDA3937_RS02655 (Dda3937_02706)	588528..590570	-	2043	WP_013316245.1	RNA-directed DNA polymerase	-
DDA3937_RS02660 (Dda3937_02707)	590563..591906	-	1344	WP_013316246.1	RNA-directed DNA polymerase	-
DDA3937_RS02665 (Dda3937_02708)	592071..592376	-	306	WP_013316247.1	type II toxin-antitoxin system toxin CcdB	Toxin
DDA3937_RS02670 (Dda3937_02709)	592379..592597	-	219	WP_012773205.1	type II toxin-antitoxin system antitoxin CcdA	Antitoxin
DDA3937_RS02675 (Dda3937_02710)	592656..593399	-	744	WP_013316248.1	hypothetical protein	-
DDA3937_RS02680 (Dda3937_02712)	594300..594650	-	351	WP_013316250.1	hypothetical protein	-
DDA3937_RS02685	594773..594961	+	189	WP_033111580.1	hypothetical protein	-
DDA3937_RS02690 (Dda3937_02713)	595102..596361	-	1260	WP_013316251.1	integrase arm-type DNA-binding domain-containing protein	-
DDA3937_RS02700 (Dda3937_02714)	596761..597336	-	576	WP_013316252.1	transcriptional regulator	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Integrative and Conjugative Element	-	-	586837..596539	9702

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 (2-100)

Antitoxin

• Post-segregation antitoxin CcdA (2-72)

Sequences

Toxin

Protein

• Length: 102 a.a.
• Molecular weight: 11791.63 Da
• Isoelectric Point: 4.6873

>T24892 WP_013316247.1 NC_014500:c592376-592071 [Dickeya dadantii 3937]
MQFIVYEYKRASHYKMFVDVQSDIVDTPKRRMVIPLIETHHLSEKVNKTLFPQIRIEGEDYRLMTTELSSVPVEVIGEVI
ADLGDYADEIKDAINLMFWGI

Nucleotide

• Length: 306 bp

>T24892 NC_014500:c592376-592071 [Dickeya dadantii 3937]
ATGCAATTCATTGTTTATGAATACAAAAGAGCCAGTCACTACAAAATGTTTGTTGATGTGCAAAGCGATATTGTCGACAC
ACCAAAGCGGCGCATGGTCATTCCGCTTATCGAAACACATCACCTGTCTGAGAAAGTGAATAAAACGCTGTTCCCTCAGA
TCCGCATCGAAGGCGAAGATTATCGACTGATGACCACTGAGCTATCGAGCGTCCCCGTTGAAGTCATTGGTGAAGTAATT
GCGGATCTTGGCGACTACGCGGATGAGATTAAGGATGCTATCAATCTTATGTTTTGGGGGATTTGA

Antitoxin

Protein

• Length: 73 a.a.
• Molecular weight: 8201.16 Da
• Isoelectric Point: 7.2038

>AT24892 WP_012773205.1 NC_014500:c592597-592379 [Dickeya dadantii 3937]
MKHRVSVTVDKDNYQVLSAAGVNISGLVNDAIGKEARRIKAEEWKKENREGMEEVARFIAQHGSFADENRNW

Nucleotide

• Length: 219 bp

>AT24892 NC_014500:c592597-592379 [Dickeya dadantii 3937]
ATGAAACACCGCGTCAGCGTTACCGTGGACAAAGATAATTATCAGGTTCTGAGTGCTGCCGGAGTCAATATTTCCGGGCT
GGTGAATGACGCCATTGGCAAAGAAGCCCGCCGCATCAAGGCTGAGGAGTGGAAGAAGGAAAACCGCGAAGGGATGGAAG
AAGTCGCCCGATTTATCGCGCAGCATGGCTCCTTTGCGGATGAAAACAGGAACTGGTGA

Structures

Toxin

• AlphaFold DB: E0SK20

Antitoxin

• AlphaFold DB: E0SK21