Detailed information of TA system TA096292

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): ccdAB/CcdA(antitoxin)
• Location: 484143..484660
• Replicon: chromosome
• Accession: NZ_CP026831
• Organism: Shigella dysenteriae strain ATCC 12039

Toxin (Protein)

• Gene name: ccdB
• Uniprot ID: -
• Locus tag: C1P71_RS03685
• Protein ID: WP_106906324.1
• Coordinates: 484379..484660 (+)
• Length: 94 a.a.

Antitoxin (Protein)

• Gene name: ccdA
• Uniprot ID: S1NMQ0
• Locus tag: C1P71_RS03680
• Protein ID: WP_000125568.1
• Coordinates: 484143..484376 (+)
• Length: 78 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
C1P71_RS03665 (479526)	479526..482744	+	3219	WP_128879919.1	carbamoyl-phosphate synthase large subunit	-
C1P71_RS03670 (483005)	483005..483193	+	189	Protein_471	CaiF/GrlA family transcriptional regulator	-
C1P71_RS03675 (483255)	483255..484099	+	845	WP_128879749.1	IS5-like element ISSfl7 family transposase	-
C1P71_RS03680 (484143)	484143..484376	+	234	WP_000125568.1	type II toxin-antitoxin system CcdA family antitoxin	Antitoxin
C1P71_RS03685 (484379)	484379..484660	+	282	WP_106906324.1	CcdB family protein	Toxin
C1P71_RS03690 (484690)	484690..485538	-	849	WP_021556397.1	bis(5'-nucleosyl)-tetraphosphatase (symmetrical) ApaH	-
C1P71_RS03695 (485545)	485545..485922	-	378	WP_000610901.1	Co2+/Mg2+ efflux protein ApaG	-
C1P71_RS03700 (485925)	485925..486746	-	822	WP_001065381.1	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))- dimethyltransferase RsmA	-
C1P71_RS03705 (486743)	486743..487732	-	990	WP_128879920.1	4-hydroxythreonine-4-phosphate dehydrogenase PdxA	-
C1P71_RS03710 (487732)	487732..489018	-	1287	WP_128879921.1	peptidylprolyl isomerase SurA	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	flank	IS/Tn	-	-	483584..484099	515

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 (2-93)

Antitoxin

• Post-segregation antitoxin CcdA (8-77)

Sequences

Toxin

Protein

• Length: 94 a.a.
• Molecular weight: 10550.34 Da
• Isoelectric Point: 9.9120

>T96292 WP_106906324.1 NZ_CP026831:484379-484660 [Shigella dysenteriae]
MQFTVYRSRGRNAAFPFVIDVTSDIIGEINRRIVIPLTPIERFSRIRPPERLNPILLLVDGKEYVLMTHETATVPVNALG
TKFCDASAHRTLI

Nucleotide

• Length: 282 bp

>T96292 NZ_CP026831:484379-484660 [Shigella dysenteriae]
ATGCAATTTACGGTATACCGCAGTCGCGGCAGGAACGCCGCGTTTCCCTTTGTTATCGATGTTACCAGCGACATTATTGG
TGAGATTAATCGCCGTATCGTTATTCCATTAACACCTATTGAACGATTTAGCCGTATTCGCCCACCAGAACGGCTTAATC
CAATCCTTTTACTGGTAGATGGCAAAGAATATGTGCTCATGACGCATGAGACTGCAACTGTTCCAGTTAACGCGCTGGGA
ACGAAATTTTGCGATGCCAGCGCGCACCGAACGTTGATTTAA

Antitoxin

Protein

• Length: 78 a.a.
• Molecular weight: 8560.55 Da
• Isoelectric Point: 5.8062

>AT96292 WP_000125568.1 NZ_CP026831:484143-484376 [Shigella dysenteriae]
MTAKRTTQSVTVTVDRELVNRARDAGLNMSATLTVALNAELKKHAATRWREENTEAIAALNQLADETGCFSDEYRSF

Nucleotide

• Length: 234 bp

>AT96292 NZ_CP026831:484143-484376 [Shigella dysenteriae]
ATGACTGCAAAACGTACCACACAAAGTGTGACCGTCACCGTCGACCGTGAGTTAGTCAATCGCGCTCGTGATGCAGGCTT
AAATATGAGCGCCACCCTTACGGTTGCGCTCAATGCTGAACTTAAAAAACATGCAGCAACACGTTGGCGTGAAGAGAACA
CAGAAGCTATCGCTGCGTTAAATCAATTGGCTGATGAAACCGGATGTTTCTCTGATGAGTACCGGAGCTTCTAG

Structures

Antitoxin

• AlphaFold DB: A0A829GEF2