Detailed information of TA system TA087718

Bioinformatically predicted

Overview

TA module

• Type: I
• Classification (family/domain): ldrD-rdlD/Ldr(toxin)
• Location: 3241346..3241566
• Replicon: chromosome
• Accession: NZ_CP024473
• Organism: Shigella flexneri 7b strain 94-3007

Toxin (Protein)

• Gene name: ldrD
• Uniprot ID: A0A4P7TT65
• Locus tag: CPZ98_RS16350
• Protein ID: WP_000170961.1
• Coordinates: 3241346..3241453 (-)
• Length: 36 a.a.

Antitoxin (RNA)

Gene name	rdlD
Locus tag	-
Coordinates	3241500..3241566 (+)

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
CPZ98_RS16325	3237190..3238272	+	1083	WP_075332729.1	peptide chain release factor 1	-
CPZ98_RS16330	3238272..3239105	+	834	WP_000456467.1	peptide chain release factor N(5)-glutamine methyltransferase	-
CPZ98_RS16335	3239102..3239494	+	393	WP_000200378.1	invasion regulator SirB2	-
CPZ98_RS16340	3239498..3240307	+	810	WP_001257041.1	invasion regulator SirB1	-
CPZ98_RS16345	3240343..3241197	+	855	WP_000811065.1	3-deoxy-8-phosphooctulonate synthase	-
CPZ98_RS16350	3241346..3241453	-	108	WP_000170961.1	type I toxin-antitoxin system toxin Ldr family protein	Toxin
-	3241500..3241566	+	67	-	-	Antitoxin
CPZ98_RS16355	3241858..3242958	-	1101	WP_000063614.1	sodium-potassium/proton antiporter ChaA	-
CPZ98_RS16360	3243228..3243458	+	231	WP_001146444.1	putative cation transport regulator ChaB	-
CPZ98_RS16365	3243616..3244311	+	696	WP_001295621.1	glutathione-specific gamma-glutamylcyclotransferase	-
CPZ98_RS16370	3244355..3244708	-	354	WP_001169669.1	DsrE/F sulfur relay family protein YchN	-
CPZ98_RS16375	3244893..3246287	+	1395	WP_000086222.1	inverse autotransporter invasin YchO	-

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

• Type I toxin-antitoxin system, toxin Ldr (1-35)

Sequences

Toxin

Protein

• Length: 36 a.a.
• Molecular weight: 3971.74 Da
• Isoelectric Point: 11.4779

>T87718 WP_000170961.1 NZ_CP024473:c3241453-3241346 [Shigella flexneri 7b]
MTLAQFAMTFWHDLAAPILAGIIAAAIVSWWRNRK

Nucleotide

• Length: 108 bp

>T87718 NZ_CP024473:c3241453-3241346 [Shigella flexneri 7b]
ATGACGCTCGCGCAGTTTGCCATGACTTTCTGGCACGACCTGGCAGCACCGATCCTGGCGGGGATTATTGCCGCAGCGAT
TGTCAGCTGGTGGCGTAACCGGAAGTAA

Antitoxin

Nucleotide

• Length: 67 bp

>AT87718 NZ_CP024473:3241500-3241566 [Shigella flexneri 7b]
TGTCTGGTTTCAAGATTAGCCCCCGTTTTGTTGTCAGGTTTTACCTCTCAACGTGCGGGGGTTTTCT

Structures

Toxin

• AlphaFold DB: A0A4P7TT65

Antitoxin