Detailed information of TA system TA116938

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): itaRT/DUF1778(antitoxin)
• Location: 602756..603600
• Replicon: chromosome
• Accession: NZ_CP034931
• Organism: Shigella flexneri strain 2013C-3749

Toxin (Protein)

• Gene name: itaT
• Uniprot ID: -
• Locus tag: EPD86_RS02985
• Protein ID: WP_014532172.1
• Coordinates: 602756..603217 (-)
• Length: 154 a.a.

Antitoxin (Protein)

• Gene name: itaR
• Uniprot ID: A5H0K0
• Locus tag: EPD86_RS02990
• Protein ID: WP_005053053.1
• Coordinates: 603289..603600 (-)
• Length: 104 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
EPD86_RS02970 (597923)	597923..599654	-	1732	Protein_582	hypothetical protein	-
EPD86_RS02975 (599707)	599707..601860	-	2154	WP_005060811.1	SEL1-like repeat protein	-
EPD86_RS02980 (602011)	602011..602708	+	698	WP_223368647.1	IS1 family transposase	-
EPD86_RS02985 (602756)	602756..603217	-	462	WP_014532172.1	GNAT family N-acetyltransferase	Toxin
EPD86_RS02990 (603289)	603289..603600	-	312	WP_005053053.1	DUF1778 domain-containing protein	Antitoxin
EPD86_RS02995 (603784)	603784..604674	-	891	WP_000971346.1	heme o synthase	-
EPD86_RS03000 (604686)	604686..605015	-	330	WP_000019869.1	cytochrome o ubiquinol oxidase subunit IV	-
EPD86_RS03005 (605015)	605015..605629	-	615	WP_000179819.1	cytochrome o ubiquinol oxidase subunit III	-
EPD86_RS03010 (605619)	605619..607610	-	1992	Protein_590	cytochrome o ubiquinol oxidase subunit I	-
EPD86_RS03015 (607632)	607632..608129	-	498	Protein_591	COX aromatic rich motif-containing protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	Similar MGE(s) Similar MGE(s) is defined as other TA-related MGE(s) with Mash distance < 0.01 to this MGE. Detail Genome accession Organism MGE type Related TA Coordinates Mash distance View NZ_CP037923 Shigella flexneri 5a str. M90T 4168367..4168870 0.004	flank	IS/Tn	-	-	602205..602708	503

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

• GNAT domain (72-133)

Antitoxin

• Vibrio phage ICP1, Orf50 (15-97)

Sequences

Toxin

Protein

• Length: 154 a.a.
• Molecular weight: 16623.52 Da
• Isoelectric Point: 9.9538

>T116938 WP_014532172.1 NZ_CP034931:c603217-602756 [Shigella flexneri]
MIAVTLLSINLYALRASLKKSVRNSDCAAKALIDRQSGELIGICTFTAYSLERQRVSGVLQGSQPSEIGVVRLVMLGGAR
KYQKRGFGQDLLCDFFEHVKKIHPALPIKGVYLDADPAAINFYARLGFVQLSATPNAFGAVPMFLAIQHILAA

Nucleotide

• Length: 462 bp

>T116938 NZ_CP034931:c603217-602756 [Shigella flexneri]
TTGATTGCGGTAACCCTGTTATCGATAAATTTGTACGCGCTACGCGCATCGCTAAAGAAAAGTGTGCGTAATAGCGACTG
TGCGGCTAAAGCACTTATTGACAGACAAAGTGGTGAACTGATTGGCATCTGTACTTTTACGGCATATTCGCTGGAAAGAC
AACGCGTTTCTGGCGTCCTTCAGGGTTCACAACCTTCAGAAATTGGTGTTGTCAGATTAGTCATGTTGGGGGGAGCGCGG
AAGTATCAAAAGCGGGGCTTTGGTCAGGACCTACTATGTGATTTTTTTGAACATGTAAAAAAAATTCACCCGGCATTACC
AATTAAAGGGGTTTATCTTGATGCTGACCCTGCCGCCATTAACTTTTATGCTCGTCTCGGCTTTGTTCAGCTTTCAGCGA
CACCAAATGCTTTTGGTGCTGTACCTATGTTTTTGGCGATTCAGCATATTCTCGCGGCTTAG

Antitoxin

Protein

• Length: 104 a.a.
• Molecular weight: 11394.07 Da
• Isoelectric Point: 10.3388

>AT116938 WP_005053053.1 NZ_CP034931:c603600-603289 [Shigella flexneri]
MPGKTAALYDVDKTLKNARVELKTSPDAKNKLREAAQAVGVDLSAFILSAAMERAESVLDNQRRRELSNQSWELMNQLIA
EPAQPTLALKALMKRKNSDGRQA

Nucleotide

• Length: 312 bp

>AT116938 NZ_CP034931:c603600-603289 [Shigella flexneri]
ATGCCTGGAAAAACAGCCGCTCTATACGATGTCGATAAAACGCTGAAAAATGCGCGGGTCGAACTCAAAACTAGTCCCGA
CGCCAAAAACAAACTTCGTGAAGCTGCGCAAGCCGTTGGGGTAGATTTAAGCGCTTTTATTTTGAGCGCTGCTATGGAAC
GCGCCGAAAGTGTGCTTGATAACCAACGTCGCCGTGAGCTTTCGAATCAAAGCTGGGAACTGATGAACCAACTCATCGCT
GAACCTGCTCAACCGACGCTCGCCCTCAAGGCGTTAATGAAAAGGAAAAACAGCGATGGTCGACAAGCATGA

Structures

Antitoxin

• AlphaFold DB: A5H0K0