Detailed information of TA system TA167594

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): yafN-yafO (relBE)/YafO-YafN
• Location: 3714932..3715626
• Replicon: chromosome
• Accession: NZ_CP058828
• Organism: Shigella flexneri strain STLE3

Toxin (Protein)

• Gene name: yafO
• Uniprot ID: S1EXB8
• Locus tag: HZT20_RS17865
• Protein ID: WP_001263493.1
• Coordinates: 3714932..3715330 (-)
• Length: 133 a.a.

Antitoxin (Protein)

• Gene name: yafN
• Uniprot ID: S1FJN6
• Locus tag: HZT20_RS17870
• Protein ID: WP_000554757.1
• Coordinates: 3715333..3715626 (-)
• Length: 98 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
- (3710592)	3710592..3710672	-	81	NuclAT_11	-	-
- (3710592)	3710592..3710672	-	81	NuclAT_11	-	-
- (3710592)	3710592..3710672	-	81	NuclAT_11	-	-
- (3710592)	3710592..3710672	-	81	NuclAT_11	-	-
HZT20_RS17835 (3709932)	3709932..3711176	-	1245	WP_000189541.1	esterase FrsA	-
HZT20_RS17840 (3711268)	3711268..3711726	-	459	WP_001291990.1	xanthine phosphoribosyltransferase	-
HZT20_RS17845 (3711987)	3711987..3713444	+	1458	WP_001293003.1	cytosol nonspecific dipeptidase	-
HZT20_RS17850 (3713501)	3713501..3714022	-	522	Protein_3507	peptide chain release factor H	-
HZT20_RS17855 (3714021)	3714021..3714224	-	204	Protein_3508	RtcB family protein	-
HZT20_RS17860 (3714470)	3714470..3714922	-	453	WP_001059847.1	GNAT family N-acetyltransferase	-
HZT20_RS17865 (3714932)	3714932..3715330	-	399	WP_001263493.1	type II toxin-antitoxin system mRNA interferase toxin YafO	Toxin
HZT20_RS17870 (3715333)	3715333..3715626	-	294	WP_000554757.1	type I toxin-antitoxin system antitoxin YafN	Antitoxin
HZT20_RS17875 (3715678)	3715678..3716733	-	1056	WP_001226164.1	DNA polymerase IV	-
HZT20_RS17880 (3716804)	3716804..3717589	-	786	WP_000207564.1	putative lateral flagellar export/assembly protein LafU	-
HZT20_RS17885 (3717561)	3717561..3719099	+	1539	Protein_3514	flagellar biosynthesis protein FlhA	-
HZT20_RS17890 (3719323)	3719323..3719820	-	498	WP_000006255.1	REP-associated tyrosine transposase RayT	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Genomic island	-	gmhA/lpcA	3713970..3730028	16058

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: 15472.83 Da
• Isoelectric Point: 8.0949

>T167594 WP_001263493.1 NZ_CP058828:c3715330-3714932 [Shigella flexneri]
MRVFKTKLIRLQLTAEELDALTADFISYKRDGVLPDIFGRDALYDDSFTWPLIKFERVAHIHLANVNNPFPPQLRQFSRT
NDEAHLVYCQGAFDEQAWLLIAILKPEPHKQARDNNQMHKIGKMAEAFRMRF

Nucleotide

• Length: 399 bp

>T167594 NZ_CP075183:c3010738-3010421 [Hydrogenophaga taeniospiralis]
ATGCCCGAGGCGCTTGAAGAGTGGCGCAATTTGGACGGCTCCGTTCAGGCCAATCTCAAGAAGCTTCTTGCCAAACGGCT
CGACAACCCTCGCGTGCCCGGCGGCGAACTCCACGGGCCCCTTGCAGGGTGCTACAAGATTAAGCTACGGCAGCAAGGCG
TCCGGCTGGTCTACTCTGTGGAGGACGACCACTTGTTGGTCACGGTCGTGGCCGTCGACAAACGCGAGGACGGCGTGGTC
TACGAGTCCGCCATTGCACGCCTATCTGCTGCGGCCGCTGCACTCACCAAGGCGCTGCGGGAAAAGCTCAAGAAGTAG

Antitoxin

Protein

• Length: 98 a.a.
• Molecular weight: 11233.81 Da
• Isoelectric Point: 5.9050

>AT167594 WP_000554757.1 NZ_CP058828:c3715626-3715333 [Shigella flexneri]
MHRILAEKSVNITELRKNPAKYFIDQPVAVLSNNRPAGYLLSASAFEALMDMLAEQEEKKPIKARFRPSAARLEEITRRA
EKYLNDMTDDDFNDFKE

Nucleotide

• Length: 294 bp

>AT167594 NZ_CP075183:c3011024-3010773 [Hydrogenophaga taeniospiralis]
ATGGAAACTATCCTCGCTGACGTCGCGGTAAGCATGTCCGAGTTCAAAAAGAACCCGGCTGCCGTGCTTAGGGAGGCCAA
TAACCGCCCTGTCGCCGTGCTCAACCACAACCGAGCCGCCTTCTACATGGTCGAGCCGCACCTCTTCGAAGCCATGCTGG
AGGAAATCGCTGACCAGGACCTGTACCGTAAGGCGGCCAGTCGCCTGGCAGAGAAGGCACGGGCTATCGAGGTGGACATT
GACGACCTCTAA

Structures

Toxin

• AlphaFold DB: S1EXB8

Antitoxin

• AlphaFold DB: S1FJN6