Detailed information of TA system TA024521

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): ccdAB/CcdA(antitoxin)
• Location: 34837..35362
• Replicon: plasmid pCROD1
• Accession: NC_013717
• Organism: Citrobacter rodentium ICC168

Toxin (Protein)

• Gene name: ccdB
• Uniprot ID: D2TV56
• Locus tag: ROD_RS25175
• Protein ID: WP_012908930.1
• Coordinates: 35057..35362 (+)
• Length: 102 a.a.

Antitoxin (Protein)

• Gene name: ccdA
• Uniprot ID: D2TV55
• Locus tag: ROD_RS25170
• Protein ID: WP_012908929.1
• Coordinates: 34837..35055 (+)
• Length: 73 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
ROD_RS25155	30578..31048	+	471	WP_012908923.1	hypothetical protein	-
ROD_RS27870	31572..32285	+	714	WP_148222154.1	hypothetical protein	-
ROD_RS28565	32617..32847	-	231	WP_148222155.1	hypothetical protein	-
ROD_RS25160	33519..33941	-	423	WP_012908926.1	type II toxin-antitoxin system VapC family toxin	-
ROD_RS25165	33938..34168	-	231	WP_012908927.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	-
ROD_RS25170	34837..35055	+	219	WP_012908929.1	type II toxin-antitoxin system antitoxin CcdA	Antitoxin
ROD_RS25175	35057..35362	+	306	WP_012908930.1	type II toxin-antitoxin system toxin CcdB	Toxin
ROD_RS25180	35364..35690	+	327	WP_024133139.1	hypothetical protein	-
ROD_RS25185	35680..36471	+	792	WP_012908932.1	site-specific integrase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	pic	1..54449	54449

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: 11771.57 Da
• Isoelectric Point: 6.3372

>T24521 WP_012908930.1 NC_013717:35057-35362 [Citrobacter rodentium ICC168]
MQFKVYTYKRESRYRLFVDVQSDIIDTPGRRMVIPLVSARLLSDKVSRELYPVVYIGDESYRLMTTDMASVTATVTGDEI
ADLRRQENEIKNAINLMFWGI

Nucleotide

• Length: 306 bp

>T24521 NC_013717:35057-35362 [Citrobacter rodentium ICC168]
ATGCAGTTTAAGGTTTACACCTATAAAAGAGAGAGCCGTTATCGTCTGTTTGTCGATGTGCAGAGTGACATTATCGACAC
CCCGGGACGCCGGATGGTGATCCCTCTGGTCAGCGCCCGTCTGCTGTCCGATAAAGTATCACGCGAGCTATACCCGGTCG
TGTATATTGGCGACGAAAGTTACCGTCTGATGACCACGGATATGGCCAGCGTCACGGCAACTGTCACAGGCGATGAGATC
GCCGATCTCAGGCGCCAGGAAAATGAAATCAAAAATGCGATCAACCTGATGTTCTGGGGGATCTGA

Antitoxin

Protein

• Length: 73 a.a.
• Molecular weight: 8297.15 Da
• Isoelectric Point: 4.5702

>AT24521 WP_012908929.1 NC_013717:34837-35055 [Citrobacter rodentium ICC168]
VKQRITVTVDSDSYKLLKAYDVNISGLVSTTMQNEARRLRAERWQEENREGMAEVASFIEANGSFADENRDW

Nucleotide

• Length: 219 bp

>AT24521 NC_013717:34837-35055 [Citrobacter rodentium ICC168]
GTGAAGCAGCGCATTACGGTGACAGTTGACAGTGACAGCTATAAGTTGCTCAAGGCATACGACGTGAATATATCCGGTCT
GGTCAGTACGACCATGCAGAACGAAGCCCGCCGTCTGCGTGCCGAACGCTGGCAGGAGGAAAACCGGGAGGGTATGGCTG
AGGTAGCCAGCTTTATTGAGGCTAACGGATCGTTTGCTGACGAAAACAGGGACTGGTGA

Structures

Toxin

• AlphaFold DB: D2TV56

Antitoxin

• AlphaFold DB: D2TV55