Detailed information of TA system TA120377

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): yafN-yafO (relBE)/YafO-YafN
• Location: 2907536..2908230
• Replicon: chromosome
• Accession: NZ_CP037923
• Organism: Shigella flexneri 5a str. M90T

Toxin (Protein)

• Gene name: yafO
• Uniprot ID: Q0T7Q5
• Locus tag: EKN05_RS15085
• Protein ID: WP_001263491.1
• Coordinates: 2907832..2908230 (+)
• Length: 133 a.a.

Antitoxin (Protein)

• Gene name: yafN
• Uniprot ID: Q0T7Q4
• Locus tag: EKN05_RS15080
• Protein ID: WP_000554759.1
• Coordinates: 2907536..2907829 (+)
• Length: 98 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
EKN05_RS15060 (EKN05_015075)	2903175..2903672	+	498	WP_000006250.1	transposase	-
EKN05_RS15065 (EKN05_015080)	2903889..2905601	-	1713	Protein_2903	flagellar biosynthesis protein FlhA	-
EKN05_RS15070 (EKN05_015085)	2905573..2906358	+	786	WP_000207560.1	putative lateral flagellar export/assembly protein LafU	-
EKN05_RS15075 (EKN05_015090)	2906429..2907484	+	1056	WP_001226172.1	DNA polymerase IV	-
EKN05_RS15080 (EKN05_015095)	2907536..2907829	+	294	WP_000554759.1	type I toxin-antitoxin system antitoxin YafN	Antitoxin
EKN05_RS15085 (EKN05_015100)	2907832..2908230	+	399	WP_001263491.1	type II toxin-antitoxin system mRNA interferase toxin YafO	Toxin
EKN05_RS15090 (EKN05_015105)	2908240..2908692	+	453	WP_001059862.1	GNAT family N-acetyltransferase	-
EKN05_RS15095 (EKN05_015110)	2908938..2909981	+	1044	WP_005060486.1	RNA ligase RtcB family protein	-
EKN05_RS15100 (EKN05_015115)	2910043..2910657	+	615	Protein_2910	peptide chain release factor H	-
EKN05_RS15105 (EKN05_015120)	2910714..2912171	-	1458	WP_001293006.1	cytosol nonspecific dipeptidase	-
EKN05_RS15110 (EKN05_015125)	2912433..2912891	+	459	WP_001291990.1	xanthine phosphoribosyltransferase	-

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

• mRNA interferase toxin YafO (27-130)

Antitoxin

No domain identified.

Sequences

Toxin

Protein

• Length: 133 a.a.
• Molecular weight: 15457.86 Da
• Isoelectric Point: 8.0949

>T120377 WP_001263491.1 NZ_CP037923:2907832-2908230 [Shigella flexneri 5a str. M90T]
MRVFKTKLIRLQLTAEELDALTADFISYKRDGVLPDIFGRDALYDDSFTWPLIKFERVAHIHLANVNNPFPPQLRQFSRT
NDEAHLVYCQGAFDEQAWLLIAILKPEPHKLARDNNQMHKIGKMAEAFRMRF

Nucleotide

• Length: 399 bp

>T120377 NZ_CP037923:2907832-2908230 [Shigella flexneri 5a str. M90T]
ATGCGGGTATTCAAAACAAAACTTATTCGCCTGCAACTTACAGCAGAGGAACTTGATGCGTTAACGGCGGATTTTATTTC
CTATAAGCGTGACGGTGTTTTGCCAGATATATTTGGTCGCGATGCACTCTACGACGACTCGTTTACCTGGCCATTAATCA
AATTTGAGCGAGTTGCTCATATTCATCTGGCAAATGTGAATAATCCATTTCCGCCACAGTTGCGCCAATTCAGCAGAACG
AATGACGAAGCGCATTTGGTATATTGTCAGGGTGCGTTTGATGAGCAAGCATGGTTGCTCATTGCCATTCTGAAGCCTGA
ACCTCATAAACTGGCTCGAGATAACAACCAAATGCATAAAATTGGAAAAATGGCAGAAGCGTTTCGCATGCGTTTTTGA

Antitoxin

Protein

• Length: 98 a.a.
• Molecular weight: 11232.82 Da
• Isoelectric Point: 7.0153

>AT120377 WP_000554759.1 NZ_CP037923:2907536-2907829 [Shigella flexneri 5a str. M90T]
MHRILAEKSVNITELRKNPAKYFIDQPVAVLSNNRPAGYLLSASAFEALMDMLAEQEEKKPIKARFRPSAARLEEITRRA
KQYLNDMTDDDFNDFKE

Nucleotide

• Length: 294 bp

>AT120377 NZ_CP037923:2907536-2907829 [Shigella flexneri 5a str. M90T]
ATGCATCGAATTCTCGCTGAAAAATCGGTCAATATCACTGAGTTACGTAAAAACCCAGCTAAATACTTTATTGATCAACC
AGTTGCGGTTCTTTCTAATAATCGCCCCGCAGGATATCTCTTAAGTGCCAGCGCATTCGAAGCGTTAATGGACATGCTTG
CTGAACAAGAGGAGAAAAAGCCCATAAAGGCGCGCTTTCGTCCAAGTGCTGCAAGATTAGAGGAAATTACACGCCGCGCT
AAACAATATCTTAATGATATGACGGATGATGATTTCAATGACTTTAAGGAATAA

Structures

Toxin

• AlphaFold DB: A0A4P7TPK7

Antitoxin

• AlphaFold DB: A0A4P7TR46