Detailed information of TA system TA161460

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): yafN-yafO (relBE)/YafO-YafN
• Location: 3592762..3593456
• Replicon: chromosome
• Accession: NZ_CP055092
• Organism: Shigella flexneri strain SWHIN_110

Toxin (Protein)

• Gene name: yafO
• Uniprot ID: Q47157
• Locus tag: HUZ87_RS17395
• Protein ID: WP_001263489.1
• Coordinates: 3592762..3593160 (-)
• Length: 133 a.a.

Antitoxin (Protein)

• Gene name: yafN
• Uniprot ID: S1QAE3
• Locus tag: HUZ87_RS17400
• Protein ID: WP_000554758.1
• Coordinates: 3593163..3593456 (-)
• Length: 98 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
- (3588350)	3588350..3588430	-	81	NuclAT_11	-	-
- (3588350)	3588350..3588430	-	81	NuclAT_11	-	-
- (3588350)	3588350..3588430	-	81	NuclAT_11	-	-
- (3588350)	3588350..3588430	-	81	NuclAT_11	-	-
HUZ87_RS17370 (3589026)	3589026..3589484	-	459	WP_001291990.1	xanthine phosphoribosyltransferase	-
HUZ87_RS17375 (3589745)	3589745..3591202	+	1458	WP_001292994.1	cytosol nonspecific dipeptidase	-
HUZ87_RS17380 (3591259)	3591259..3591780	-	522	Protein_3409	peptide chain release factor H	-
HUZ87_RS17385 (3591776)	3591776..3591982	-	207	Protein_3410	RtcB family protein	-
HUZ87_RS17390 (3592300)	3592300..3592752	-	453	WP_001059892.1	GNAT family N-acetyltransferase	-
HUZ87_RS17395 (3592762)	3592762..3593160	-	399	WP_001263489.1	type II toxin-antitoxin system mRNA interferase toxin YafO	Toxin
HUZ87_RS17400 (3593163)	3593163..3593456	-	294	WP_000554758.1	type I toxin-antitoxin system antitoxin YafN	Antitoxin
HUZ87_RS17405 (3593508)	3593508..3594563	-	1056	WP_001226164.1	DNA polymerase IV	-
HUZ87_RS17410 (3594634)	3594634..3595419	-	786	WP_000207552.1	putative lateral flagellar export/assembly protein LafU	-
HUZ87_RS17415 (3595391)	3595391..3597103	+	1713	Protein_3416	flagellar biosynthesis protein FlhA	-
HUZ87_RS17420 (3597327)	3597327..3597824	-	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	3592762..3608663	15901

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: 15487.84 Da
• Isoelectric Point: 7.4215

>T161460 WP_001263489.1 NZ_CP055092:c3593160-3592762 [Shigella flexneri]
MRVFKTKLIRLQLTAEELDALTADFISYKRDGVLPDIFGRDALYDDSFTWPLIKFERVAHIHLANENNPFPPQLRQFSRT
NDEAHLVYCQGAFDEQAWLLIAILKPEPHKLARDNNQMHKIGKMAEAFRMRF

Nucleotide

• Length: 399 bp

>T161460 NZ_CP071196:c4454587-4454333 [Serratia marcescens subsp. marcescens ATCC 13880]
ATGAACAAACGACACCAAAAAACGCTGTCAGATGTGTTTGCCCGGCCTGTCAACGGTTCTATAAAGTGGTCTGATATTGA
GGCGCTTTTTACCGCATTAGGGGCGGAGATTCACGAAAGGGAAGGTTCTAGGATCGCGGTGCTGTTGAAAGGTGAAAAAA
GAGTCTTTCACCGGCCACACCCCAGACCTACCACTGACAAGGGGGCGGTTAACTCCATTCGGATCTGGTTGGATAGCTTA
GGAATAAAACCATGA

Antitoxin

Protein

• Length: 98 a.a.
• Molecular weight: 11233.76 Da
• Isoelectric Point: 5.2170

>AT161460 WP_000554758.1 NZ_CP055092:c3593456-3593163 [Shigella flexneri]
MHRILAEKSVNITELRKNPAKYFIDQPVAVLSNNRPAGYLLSASAFEALMDMLAEQEEKKPIKARFRPSAARLEEITRRA
EQYLNDMTDDDFNDFKE

Nucleotide

• Length: 294 bp

>AT161460 NZ_CP071196:c4454333-4453992 [Serratia marcescens subsp. marcescens ATCC 13880]
ATGAATAACACACTGAAAATTGACGGCCATACGGCCGTCATCAACTTCGACCCTGAAATTGAAATGTTCCGGGGCGAGTT
TGTCGGGCTGAATGGCGGCGCCGACTTCTACGCCTACAGCGTGGACGAGCTGAAGAAAGAAGGCGCGATCTCACTCGCGG
TCTTTCTCGATGAGTGCCATAAAGACGGCATCGAGCCTTACAAGTCGTACAGCGGCAAAGTAACCACCCGCCTGTCGCCG
GAACGCCATCAGGCGTTAGCCATTGCCGCACAGGCCACCGGGCAGTCGATTAATGAACTGCTGAATGAAGGTGTTGATCT
GGTTATCGAAAAGCATTCCTGA

Structures

Toxin

• AlphaFold DB: A0A090J8B1

Antitoxin

• AlphaFold DB: S1QAE3