Detailed information of TA system TA055998

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): itaRT/DUF1778(antitoxin)
• Location: 398955..399799
• Replicon: chromosome
• Accession: NZ_CP012140
• Organism: Shigella flexneri 4c strain 1205

Toxin (Protein)

• Gene name: itaT
• Uniprot ID: -
• Locus tag: AD871_RS02155
• Protein ID: WP_014532172.1
• Coordinates: 398955..399416 (-)
• Length: 154 a.a.

Antitoxin (Protein)

• Gene name: itaR
• Uniprot ID: A5H0K0
• Locus tag: AD871_RS02165
• Protein ID: WP_005053053.1
• Coordinates: 399488..399799 (-)
• Length: 104 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
AD871_RS02135 (394123)	394123..395853	-	1731	WP_000645013.1	hypothetical protein	-
AD871_RS02140 (395906)	395906..398059	-	2154	WP_005060811.1	SEL1-like repeat protein	-
AD871_RS02150 (398210)	398210..398907	+	698	WP_223368647.1	IS1 family transposase	-
AD871_RS02155 (398955)	398955..399416	-	462	WP_014532172.1	GNAT family N-acetyltransferase	Toxin
AD871_RS02165 (399488)	399488..399799	-	312	WP_005053053.1	DUF1778 domain-containing protein	Antitoxin
AD871_RS02170 (399983)	399983..400873	-	891	WP_000971346.1	heme o synthase	-
AD871_RS02175 (400885)	400885..401214	-	330	WP_000019869.1	cytochrome o ubiquinol oxidase subunit IV	-
AD871_RS02180 (401214)	401214..401828	-	615	WP_000179819.1	cytochrome o ubiquinol oxidase subunit III	-
AD871_RS02185 (401818)	401818..403809	-	1992	Protein_406	cytochrome o ubiquinol oxidase subunit I	-
AD871_RS02190 (403831)	403831..404328	-	498	Protein_407	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	-	-	398404..398907	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

>T55998 WP_014532172.1 NZ_CP012140:c399416-398955 [Shigella flexneri 4c]
MIAVTLLSINLYALRASLKKSVRNSDCAAKALIDRQSGELIGICTFTAYSLERQRVSGVLQGSQPSEIGVVRLVMLGGAR
KYQKRGFGQDLLCDFFEHVKKIHPALPIKGVYLDADPAAINFYARLGFVQLSATPNAFGAVPMFLAIQHILAA

Nucleotide

• Length: 462 bp

>T55998 NZ_CP012140:c399416-398955 [Shigella flexneri 4c]
TTGATTGCGGTAACCCTGTTATCGATAAATTTGTACGCGCTACGCGCATCGCTAAAGAAAAGTGTGCGTAATAGCGACTG
TGCGGCTAAAGCACTTATTGACAGACAAAGTGGTGAACTGATTGGCATCTGTACTTTTACGGCATATTCGCTGGAAAGAC
AACGCGTTTCTGGCGTCCTTCAGGGTTCACAACCTTCAGAAATTGGTGTTGTCAGATTAGTCATGTTGGGGGGAGCGCGG
AAGTATCAAAAGCGGGGCTTTGGTCAGGACCTACTATGTGATTTTTTTGAACATGTAAAAAAAATTCACCCGGCATTACC
AATTAAAGGGGTTTATCTTGATGCTGACCCTGCCGCCATTAACTTTTATGCTCGTCTCGGCTTTGTTCAGCTTTCAGCGA
CACCAAATGCTTTTGGTGCTGTACCTATGTTTTTGGCGATTCAGCATATTCTCGCGGCTTAG

Antitoxin

Protein

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

>AT55998 WP_005053053.1 NZ_CP012140:c399799-399488 [Shigella flexneri 4c]
MPGKTAALYDVDKTLKNARVELKTSPDAKNKLREAAQAVGVDLSAFILSAAMERAESVLDNQRRRELSNQSWELMNQLIA
EPAQPTLALKALMKRKNSDGRQA

Nucleotide

• Length: 312 bp

>AT55998 NZ_CP012140:c399799-399488 [Shigella flexneri 4c]
ATGCCTGGAAAAACAGCCGCTCTATACGATGTCGATAAAACGCTGAAAAATGCGCGGGTCGAACTCAAAACTAGTCCCGA
CGCCAAAAACAAACTTCGTGAAGCTGCGCAAGCCGTTGGGGTAGATTTAAGCGCTTTTATTTTGAGCGCTGCTATGGAAC
GCGCCGAAAGTGTGCTTGATAACCAACGTCGCCGTGAGCTTTCGAATCAAAGCTGGGAACTGATGAACCAACTCATCGCT
GAACCTGCTCAACCGACGCTCGCCCTCAAGGCGTTAATGAAAAGGAAAAACAGCGATGGTCGACAAGCATGA

Structures

Antitoxin

• AlphaFold DB: A5H0K0