Detailed information of TA system TA020778

Bioinformatically predicted

Overview

TA module

• Type: I
• Classification (family/domain): ldrD-rdlD/Ldr(toxin)
• Location: 1266049..1266270
• Replicon: chromosome
• Accession: NC_004337
• Organism: Shigella flexneri 2a str. 301

Toxin (Protein)

• Gene name: ldrD
• Uniprot ID: -
• Locus tag: SF1218a
• Protein ID: YP_008439243.1
• Coordinates: 1266049..1266216 (-)
• Length: 56 a.a.

Antitoxin (RNA)

Gene name	rdlD
Locus tag	-
Coordinates	1266204..1266270 (+)

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
SF1214	1261893..1262975	+	1083	NP_707120.1	peptide chain release factor 1	-
SF1215	1262975..1263808	+	834	NP_707121.1	N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase	-
SF1216	1263805..1264197	+	393	NP_707122.1	hypothetical protein	-
SF1217	1264201..1265010	+	810	NP_707123.1	hypothetical protein	-
SF1218	1265046..1265900	+	855	NP_707124.1	2-dehydro-3-deoxyphosphooctonate aldolase	-
SF1218a	1266049..1266216	-	168	YP_008439243.1	hypothetical protein	Toxin
-	1266204..1266270	+	67	-	-	Antitoxin
SF1219	1266562..1267662	-	1101	NP_707125.1	calcium/sodium:proton antiporter	-
SF1220	1267931..1268161	+	231	NP_707126.1	cation transport regulator	-
SF1221	1268298..1269014	+	717	NP_707127.2	cation transport regulator	-
SF1222	1269058..1269411	-	354	NP_707128.1	hypothetical protein	-
SF1223	1269737..1270990	+	1254	NP_707129.2	invasin	-

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 (21-55)

Sequences

Toxin

Protein

• Length: 56 a.a.
• Molecular weight: 6149.31 Da
• Isoelectric Point: 11.0888

>T20778 YP_008439243.1 NC_004337:c1266216-1266049 [Shigella flexneri 2a str. 301]
MKPDTSRIAAKMLSLQQGGYMTLAQFAMTFWHDLAAPILAGIIAAAIVSWWRNRK

Nucleotide

• Length: 168 bp

>T20778 NC_004337:c1266216-1266049 [Shigella flexneri 2a str. 301]
TTGAAACCAGACACTTCAAGAATAGCCGCAAAGATGTTGTCATTACAACAAGGCGGCTATATGACGCTCGCGCAGTTTGC
CATGACTTTCTGGCACGACCTGGCAGCACCGATCCTGGCGGGGATTATTGCCGCAGCGATTGTCAGCTGGTGGCGTAACC
GGAAGTAA

Antitoxin

Nucleotide

• Length: 67 bp

>AT20778 NC_004337:1266204-1266270 [Shigella flexneri 2a str. 301]
TGTCTGGTTTCAAGATTAGCCCCCGTTTTGTTGTCAGGTTTTACCTCTCAACGTGCGGGGGTTTTCT

Structures

Antitoxin