Detailed information of TA system TA096365

Bioinformatically predicted

Overview

TA module

• Type: I
• Classification (family/domain): ldrD-rdlD/Ldr(toxin)
• Location: 640992..641212
• Replicon: chromosome
• Accession: NZ_CP026836
• Organism: Shigella boydii strain ATCC 49812

Toxin (Protein)

• Gene name: ldrD
• Uniprot ID: D3H2K1
• Locus tag: C1P56_RS03410
• Protein ID: WP_000170955.1
• Coordinates: 640992..641099 (-)
• Length: 36 a.a.

Antitoxin (RNA)

Gene name	rdlD
Locus tag	-
Coordinates	641146..641212 (+)

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
C1P56_RS03385	636836..637918	+	1083	WP_000804726.1	peptide chain release factor 1	-
C1P56_RS03390	637918..638751	+	834	WP_000386244.1	peptide chain release factor N(5)-glutamine methyltransferase	-
C1P56_RS03395	638748..639140	+	393	WP_000200378.1	invasion regulator SirB2	-
C1P56_RS03400	639144..639953	+	810	WP_001257048.1	invasion regulator SirB1	-
C1P56_RS03405	639989..640843	+	855	WP_000811065.1	3-deoxy-8-phosphooctulonate synthase	-
C1P56_RS03410	640992..641099	-	108	WP_000170955.1	type I toxin-antitoxin system toxin Ldr family protein	Toxin
-	641146..641212	+	67	-	-	Antitoxin
C1P56_RS03415	641504..642604	-	1101	WP_001295620.1	sodium-potassium/proton antiporter ChaA	-
C1P56_RS03420	642874..643104	+	231	WP_001146444.1	putative cation transport regulator ChaB	-
C1P56_RS03425	643262..643957	+	696	WP_001295621.1	glutathione-specific gamma-glutamylcyclotransferase	-
C1P56_RS03430	644001..644354	-	354	WP_119172140.1	DsrE/F sulfur relay family protein YchN	-
C1P56_RS03435	644540..645934	+	1395	WP_134796717.1	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: 4013.82 Da
• Isoelectric Point: 11.4779

>T96365 WP_000170955.1 NZ_CP026836:c641099-640992 [Shigella boydii]
MTLAQFAMIFWHDLAAPILAGIITAAIVSWWRNRK

Nucleotide

• Length: 108 bp

>T96365 NZ_CP026836:c641099-640992 [Shigella boydii]
ATGACGCTCGCGCAGTTTGCCATGATTTTCTGGCACGACCTGGCAGCACCGATCCTGGCGGGAATTATTACCGCAGCGAT
TGTCAGCTGGTGGCGTAACCGGAAGTAA

Antitoxin

Nucleotide

• Length: 67 bp

>AT96365 NZ_CP026836:641146-641212 [Shigella boydii]
TGTCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTATACCTCTCAACGTGCGGGGGTTTTCT

Structures

Toxin

• AlphaFold DB: A0A829J2A9

Antitoxin