Detailed information of TA system TA096433

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): DinJ-YafQ (relBE)/YafQ-RelB
• Location: 1298675..1299216
• Replicon: chromosome
• Accession: NZ_CP026846
• Organism: Shigella boydii strain 59-2708

Toxin (Protein)

• Gene name: yafQ
• Uniprot ID: -
• Locus tag: C1P57_RS06375
• Protein ID: WP_000615975.1
• Coordinates: 1298675..1298953 (-)
• Length: 93 a.a.

Antitoxin (Protein)

• Gene name: dinJ
• Uniprot ID: S1EWQ0
• Locus tag: C1P57_RS06380
• Protein ID: WP_000729704.1
• Coordinates: 1298956..1299216 (-)
• Length: 87 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
C1P57_RS06345 (1293941)	1293941..1294711	-	771	WP_001118012.1	2-oxoglutaramate amidase	-
C1P57_RS06350 (1294892)	1294892..1295338	+	447	WP_284522444.1	Ivy family C-type lysozyme inhibitor	-
C1P57_RS06355 (1295381)	1295381..1296136	-	756	Protein_1234	DUF1974 domain-containing protein	-
C1P57_RS06360 (1296257)	1296257..1296835	+	579	WP_000284050.1	D-sedoheptulose 7-phosphate isomerase	-
C1P57_RS06365 (1297041)	1297041..1297808	+	768	WP_078167336.1	class II glutamine amidotransferase	-
C1P57_RS06370 (1297779)	1297779..1298519	-	741	WP_001225684.1	peptidoglycan meso-diaminopimelic acid protein amidase	-
C1P57_RS06375 (1298675)	1298675..1298953	-	279	WP_000615975.1	type II toxin-antitoxin system mRNA interferase toxin YafQ	Toxin
C1P57_RS06380 (1298956)	1298956..1299216	-	261	WP_000729704.1	type II toxin-antitoxin system antitoxin DinJ	Antitoxin
C1P57_RS06385 (1299300)	1299300..1300456	+	1157	WP_086020980.1	IS3-like element IS600 family transposase	-
C1P57_RS06390 (1300481)	1300481..1302286	-	1806	WP_134795608.1	hypothetical protein	-
C1P57_RS06395 (1302321)	1302321..1302518	-	198	WP_001387927.1	hypothetical protein	-
C1P57_RS06400 (1302671)	1302671..1303702	-	1032	WP_000999103.1	hypothetical protein	-
C1P57_RS06405 (1303717)	1303717..1304100	-	384	WP_000013184.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Genomic island	-	gmhA/lpcA	1286218..1310434	24216

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: 10853.66 Da
• Isoelectric Point: 10.0703

>T96433 WP_000615975.1 NZ_CP026846:c1298953-1298675 [Shigella boydii]
MIQRDIEYSGQFSKDVKLAQKRHKDMNKLKYLMTLLINHTLPLPAVYKDHPLQGSWKGYRDAHVEPDWILIYKLTDKLLR
FERTGTHAALFG

Nucleotide

• Length: 279 bp

>T96433 NZ_CP026846:c1298953-1298675 [Shigella boydii]
ATGATTCAAAGGGATATTGAATACTCGGGACAATTTTCAAAGGATGTAAAACTTGCACAAAAGCGTCATAAAGATATGAA
TAAATTGAAATATCTTATGACGCTTCTTATCAATCATACTTTACCGCTTCCAGCTGTTTATAAAGACCACCCGCTGCAAG
GTTCATGGAAAGGTTATCGCGATGCTCATGTCGAACCGGACTGGATCCTGATTTACAAACTTACCGATAAACTTTTACGA
TTTGAGAGAACTGGAACTCACGCGGCGCTCTTTGGGTAA

Antitoxin

Protein

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

>AT96433 WP_000729704.1 NZ_CP026846:c1299216-1298956 [Shigella boydii]
MAANAFVRARIDEDLKNQAADVLAGMGLTISDLVRITLTKVAREKALPFDLREPNQLTIQSIKNSEAGVDVHKAKDADDL
FDKLGI

Nucleotide

• Length: 261 bp

>AT96433 NZ_CP026846:c1299216-1298956 [Shigella boydii]
ATGGCTGCTAACGCGTTTGTTCGCGCCCGAATCGATGAAGATCTGAAGAATCAGGCGGCGGACGTACTGGCCGGGATGGG
GCTGACCATCTCTGACCTGGTTCGCATAACCCTCACAAAGGTCGCGCGTGAAAAGGCATTGCCGTTTGATTTACGCGAGC
CTAATCAATTAACCATTCAATCAATCAAAAACAGCGAAGCTGGCGTTGATGTTCATAAGGCCAAAGACGCCGATGATTTA
TTTGATAAATTAGGAATTTAA

Structures

Antitoxin

• PDB: 4ML0
• AlphaFold DB: A0A0E0Y6Z6