Detailed information of TA system TA150844

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): yefM-yoeB (relBE)/YoeB-YefM
• Location: 1209546..1210048
• Replicon: chromosome
• Accession: NZ_CP049185
• Organism: Shigella sonnei strain 19.0821.3486

Toxin (Protein)

• Gene name: yoeB
• Uniprot ID: U9YDH0
• Locus tag: G6O60_RS06560
• Protein ID: WP_000767829.1
• Coordinates: 1209546..1209800 (-)
• Length: 85 a.a.

Antitoxin (Protein)

• Gene name: yefM
• Uniprot ID: S1Q063
• Locus tag: G6O60_RS06565
• Protein ID: WP_001259255.1
• Coordinates: 1209797..1210048 (-)
• Length: 84 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
G6O60_RS06530 (1204561)	1204561..1204788	-	228	WP_000985273.1	thiosulfate utilization sulfurtransferase TsuB/YeeD	-
G6O60_RS06535 (1204802)	1204802..1205860	-	1059	WP_000492295.1	thiosulfate utilization transporter TsuA/YeeE	-
G6O60_RS06540 (1206039)	1206039..1207397	-	1359	WP_000019197.1	putrescine/proton symporter PlaP	-
G6O60_RS06545 (1207387)	1207387..1207449	-	63	WP_010723108.1	membrane protein YoeI	-
G6O60_RS06550 (1207664)	1207664..1208593	-	930	WP_000811606.1	LysR substrate-binding domain-containing protein	-
G6O60_RS06555 (1208639)	1208639..1209463	-	825	WP_000754737.1	SDR family oxidoreductase	-
G6O60_RS06560 (1209546)	1209546..1209800	-	255	WP_000767829.1	type II toxin-antitoxin system mRNA interferase toxin YoeB	Toxin
G6O60_RS06565 (1209797)	1209797..1210048	-	252	WP_001259255.1	YoeB-YefM toxin-antitoxin system antitoxin YefM	Antitoxin
G6O60_RS06570 (1210331)	1210331..1210381	+	51	WP_001364200.1	his operon leader peptide	-
G6O60_RS06575 (1210527)	1210527..1211426	+	900	WP_000131782.1	ATP phosphoribosyltransferase	-
G6O60_RS06580 (1211432)	1211432..1212736	+	1305	WP_001462576.1	histidinol dehydrogenase	-
G6O60_RS06585 (1212733)	1212733..1213803	+	1071	WP_000108977.1	histidinol-phosphate transaminase	-
G6O60_RS06590 (1213803)	1213803..1214870	+	1068	WP_000080086.1	bifunctional histidinol-phosphatase/imidazoleglycerol-phosphate dehydratase HisB	-

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

>T150844 WP_000767829.1 NZ_CP049185:c1209800-1209546 [Shigella sonnei]
VKLIWSEESWDDYLYWQETDKRIVKKINELIKDTRRTPFEGKGKPEPLKHNLSGFWSRRITEEHRLVYAVTDDSLLIAAC
RYHY

Nucleotide

• Length: 255 bp

>T150844 NZ_CP065044:4411397-4411648 [Pectobacterium aroidearum]
ATGCGTACAATTAGCTACAGTGAAGCCCGACAAAATCTATCGGCGACCATGATGAAAACGGTCGAAGACCGTGCTCCCAT
TCTTATCACTCGACAGAATGGTGAAGCCTGCGTGCTCATGTCTTTGGAAGAATATAACTCTCTAGAGGAGACCGCGTATT
TACTGCGTTCACCAGCAAATGCAAAAAGACTGATGAACTCAATCGAGAGCCTTAAAGCTGGCAATGGCGAAGAAAGAGAT
ATCATTGAGTGA

Antitoxin

Protein

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

>AT150844 WP_001259255.1 NZ_CP049185:c1210048-1209797 [Shigella sonnei]
MRTISYSEARQNLSATMMKAVEDHAPILITRQNGEACVLMSLEEYNSLEETAYLLRSPANARRLMDSIDSLKSGKGTEKD
IIE

Nucleotide

• Length: 252 bp

>AT150844 NZ_CP065044:4411645-4411899 [Pectobacterium aroidearum]
GTGAAGCTAATCTGGTCAGAAGAAGCATGGGAAGACTACCTGTACTGGCAGGACATCGATAAGCGGATGGTCAAAAAGAT
CAATGAATTAATAAAAGAAACGCGTAGAACACCTTTTGAGGGAAAAGGAAAACCGGAGCCACTTAAACATAACCTCGCTG
GTTTCTGGTCGCGCCGTATAACCGAAGAGCATCGTCTGGTCTATGCCATCACCGATGACGCCATGATGATCGCTGCCTGC
CGCTACCACTATTAA

Structures

Toxin

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

Antitoxin

• PDB: 2A6Q
• AlphaFold DB: A0A7U9LNR0