Detailed information of TA system TA167513

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): DinJ-YafQ (relBE)/YafQ-RelB
• Location: 3744183..3744724
• Replicon: chromosome
• Accession: NZ_CP058790
• Organism: Shigella flexneri strain STLIN_6

Toxin (Protein)

• Gene name: yafQ
• Uniprot ID: E9TC49
• Locus tag: HZT08_RS18280
• Protein ID: WP_000615982.1
• Coordinates: 3744446..3744724 (+)
• Length: 93 a.a.

Antitoxin (Protein)

• Gene name: dinJ
• Uniprot ID: S1EWQ0
• Locus tag: HZT08_RS18275
• Protein ID: WP_000729704.1
• Coordinates: 3744183..3744443 (+)
• Length: 87 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
HZT08_RS18250 (3739966)	3739966..3740751	-	786	WP_000207568.1	putative lateral flagellar export/assembly protein LafU	-
HZT08_RS18255 (3740723)	3740723..3742435	+	1713	Protein_3581	flagellar biosynthesis protein FlhA	-
HZT08_RS18260 (3742540)	3742540..3742818	+	279	WP_000598760.1	type II toxin-antitoxin system HicA family toxin	-
HZT08_RS18265 (3742811)	3742811..3743167	+	357	WP_001030484.1	type II toxin-antitoxin system HicB family antitoxin	-
HZT08_RS18270 (3743224)	3743224..3743997	-	774	WP_000543899.1	C40 family peptidase	-
HZT08_RS18275 (3744183)	3744183..3744443	+	261	WP_000729704.1	type II toxin-antitoxin system antitoxin DinJ	Antitoxin
HZT08_RS18280 (3744446)	3744446..3744724	+	279	WP_000615982.1	type II toxin-antitoxin system mRNA interferase toxin YafQ	Toxin
HZT08_RS18285 (3744880)	3744880..3745620	+	741	WP_001225679.1	peptidoglycan meso-diaminopimelic acid protein amidase	-
HZT08_RS18290 (3745591)	3745591..3746358	-	768	WP_000333380.1	class II glutamine amidotransferase	-
HZT08_RS18295 (3746564)	3746564..3747142	-	579	WP_000284050.1	D-sedoheptulose 7-phosphate isomerase	-

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

• Toxin-antitoxin system, YafQ-like toxin (1-91)

Antitoxin

• RelB antitoxin/Antitoxin DinJ (4-84)

Sequences

Toxin

Protein

• Length: 93 a.a.
• Molecular weight: 10816.59 Da
• Isoelectric Point: 10.0702

>T167513 WP_000615982.1 NZ_CP058790:3744446-3744724 [Shigella flexneri]
MIQRDIEYSGQFSKDVKVAQKRHKDMNKLKYLMTLLINNTLPLPAVYKDHPLQGSWKGYRDAHVEPDWILIYKLTDKLLR
FERTGTHAALFG

Nucleotide

• Length: 279 bp

>T167513 NZ_CP075138:c4352687-4352196 [Salmonella enterica]
ATGATCTCCGCCCCTGAGCCGCTTCATGCCGGACATATTCTTACTCCGTTTTGCTGCGGTGTGGATTCTATGGATAACTG
GCTGAAACAGCGGGCGATGAAAAATCAGACCACTGGTGCGTCCCGTACCTTTGTGTGTTGTGGCAGCGATTCGAGCGTAC
TGGCCTATTACTCGCTGGCGTCCAGCGCGGTCACGACGAATACCTCCCCCGGTCGCTTTCGTCGCAATATGCCTGACCCG
ATTCCGATTGTGGTATTGGGGCGTCTGGCGGTGGATAAATCGCTTCATGGGCAGGGCGTTGGTCGGGCGCTGGTACGCGA
CGCAGGGCTGCGGGTTATTCAAGTGGCGGAGACTATCGGCATTCGCGGGATGCTGGTTCATGCCCTGTCGGATGAAGCGC
GGGAATTTTACCAGCGGGTGGGGTTTGTACCGTCGCCGATGGATCCGATGATGTTGATGGTGACGTTGGGGGATTTGGTG
GAGAGTGTTTAA

Antitoxin

Protein

• Length: 87 a.a.
• Molecular weight: 9391.77 Da
• Isoelectric Point: 5.0758

>AT167513 WP_000729704.1 NZ_CP058790:3744183-3744443 [Shigella flexneri]
MAANAFVRARIDEDLKNQAADVLAGMGLTISDLVRITLTKVAREKALPFDLREPNQLTIQSIKNSEAGVDVHKAKDADDL
FDKLGI

Nucleotide

• Length: 261 bp

>AT167513 NZ_CP075138:c4352977-4352684 [Salmonella enterica]
ATGCCAGCCGCAAACAGTATGGCGATGAAACGCGAAACCCTGAACCTGCGTATCAAACCCGCCGAGCGCGATCTTATCGA
TCGAGCGGCGAAAGCCAGAGGGAAAAACCGCACAGACTTTGTGCTGGAAGCCGCCCGCGCTGCCGCAGAGGAAGCGCTGA
TCGAACAACGCATCATTATGGCCGATCCACAGGCTTATCAGGAATTTCTGGCTCGTTTGGATCAAACACCTTCACCTAAT
GCCGCACTGCGTAAAACCATGCAGACCCCTGCGCCGTGGGAGCAGGAAAAATGA

Structures

Antitoxin

• PDB: 4ML0
• AlphaFold DB: A0A0E0Y6Z6