Detailed information of TA system TA161799

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): yefM-yoeB (relBE)/YoeB-YefM
• Location: 1796062..1796564
• Replicon: chromosome
• Accession: NZ_CP055181
• Organism: Shigella flexneri strain STEFF_17

Toxin (Protein)

• Gene name: yoeB
• Uniprot ID: U9YDH0
• Locus tag: HUZ45_RS08605
• Protein ID: WP_000767829.1
• Coordinates: 1796310..1796564 (+)
• Length: 85 a.a.

Antitoxin (Protein)

• Gene name: yefM
• Uniprot ID: S1Q063
• Locus tag: HUZ45_RS08600
• Protein ID: WP_001259255.1
• Coordinates: 1796062..1796313 (+)
• Length: 84 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
HUZ45_RS08575 (1791240)	1791240..1792307	-	1068	WP_000080093.1	bifunctional histidinol-phosphatase/imidazoleglycerol-phosphate dehydratase HisB	-
HUZ45_RS08580 (1792307)	1792307..1793377	-	1071	WP_000108940.1	histidinol-phosphate transaminase	-
HUZ45_RS08585 (1793374)	1793374..1794678	-	1305	WP_029402287.1	histidinol dehydrogenase	-
HUZ45_RS08590 (1794684)	1794684..1795583	-	900	WP_000131782.1	ATP phosphoribosyltransferase	-
HUZ45_RS08595 (1795729)	1795729..1795779	-	51	WP_001364200.1	his operon leader peptide	-
HUZ45_RS08600 (1796062)	1796062..1796313	+	252	WP_001259255.1	YoeB-YefM toxin-antitoxin system antitoxin YefM	Antitoxin
HUZ45_RS08605 (1796310)	1796310..1796564	+	255	WP_000767829.1	type II toxin-antitoxin system mRNA interferase toxin YoeB	Toxin
HUZ45_RS08610 (1796647)	1796647..1797471	+	825	WP_000754758.1	SDR family oxidoreductase	-
HUZ45_RS08615 (1797517)	1797517..1798446	+	930	WP_000803351.1	LysR substrate-binding domain-containing protein	-
HUZ45_RS08620 (1798661)	1798661..1798723	+	63	WP_010723108.1	membrane protein YoeI	-
HUZ45_RS08625 (1798713)	1798713..1800071	+	1359	WP_000019197.1	putrescine/proton symporter PlaP	-
HUZ45_RS08630 (1800250)	1800250..1801308	+	1059	WP_000492340.1	thiosulfate utilization transporter TsuA/YeeE	-
HUZ45_RS08635 (1801322)	1801322..1801549	+	228	WP_000985273.1	thiosulfate utilization sulfurtransferase TsuB/YeeD	-

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

• Toxin YoeB (2-84)

Antitoxin

• Type II toxin-antitoxin system, antitoxin Phd/YefM (1-73)

Sequences

Toxin

Protein

• Length: 85 a.a.
• Molecular weight: 10183.58 Da
• Isoelectric Point: 8.0353

>T161799 WP_000767829.1 NZ_CP055181:1796310-1796564 [Shigella flexneri]
VKLIWSEESWDDYLYWQETDKRIVKKINELIKDTRRTPFEGKGKPEPLKHNLSGFWSRRITEEHRLVYAVTDDSLLIAAC
RYHY

Nucleotide

• Length: 255 bp

>T161799 NZ_CP071311:c379025-378756 [Rhizobium sp. X9]
GTGATCTGGACAATTGAGTACCACACACTTGTCCAGAAAGAGATGCGCAAGTTAAATCCGGAAATACGCCGGAGAATCCG
CGCCTTTCTCCACGAAAGATTGGCGGTGCTCGACGATCCCCGTCAGACAGGTTCCGCCCTGCAAGGCTCCGAACTCGGAA
ATTTCTGGCGCTACCGGGTGGGCGATTACCGCATCATCTGCGATATACAGGATCACAAGCTTGTCGTGCTGGTGGTCGAA
ATCGGCCATCGCCGCGAAATTTACCGTTAG

Antitoxin

Protein

• Length: 84 a.a.
• Molecular weight: 9307.58 Da
• Isoelectric Point: 4.7954

>AT161799 WP_001259255.1 NZ_CP055181:1796062-1796313 [Shigella flexneri]
MRTISYSEARQNLSATMMKAVEDHAPILITRQNGEACVLMSLEEYNSLEETAYLLRSPANARRLMDSIDSLKSGKGTEKD
IIE

Nucleotide

• Length: 252 bp

>AT161799 NZ_CP071311:c379236-379009 [Rhizobium sp. X9]
ATGAGCAAACAGACGGCCATTCGCCTGCCTGATGAGACCTATGAACGGCTGAAAGCGCTGTCCGCGCGCACCGGCCGCAC
ATCCGCTTTTTACATCCGCGAGGCGATCGAGAAACATATCGAGGATATGGAAGATCTCTATCTCGCCGAAGAGGCAGTGC
GACAAATCCAGCGTGGCGAAGCAAAGGTGATAAGCGCCGAGGAGTTCTGGCGTGATCTGGACAATTGA

Structures

Toxin

• PDB: 6NY6
• PDB: 2A6S
• PDB: 6OXA
• PDB: 2A6R
• PDB: 4V8X
• PDB: 6OTR
• PDB: 6OXI
• PDB: 2A6Q

Antitoxin

• AlphaFold DB: A0A7U9LNR0