Detailed information of TA system TA150690

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): yefM-yoeB (relBE)/YoeB-YefM
• Location: 2496409..2496911
• Replicon: chromosome
• Accession: NZ_CP049167
• Organism: Shigella sonnei strain 09163633

Toxin (Protein)

• Gene name: yoeB
• Uniprot ID: U9YDH0
• Locus tag: G6O57_RS12380
• Protein ID: WP_000767829.1
• Coordinates: 2496657..2496911 (+)
• Length: 85 a.a.

Antitoxin (Protein)

• Gene name: yefM
• Uniprot ID: S1Q063
• Locus tag: G6O57_RS12375
• Protein ID: WP_001259255.1
• Coordinates: 2496409..2496660 (+)
• Length: 84 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
G6O57_RS12350 (2491587)	2491587..2492654	-	1068	WP_000080086.1	bifunctional histidinol-phosphatase/imidazoleglycerol-phosphate dehydratase HisB	-
G6O57_RS12355 (2492654)	2492654..2493724	-	1071	WP_000108977.1	histidinol-phosphate transaminase	-
G6O57_RS12360 (2493721)	2493721..2495025	-	1305	WP_001462576.1	histidinol dehydrogenase	-
G6O57_RS12365 (2495031)	2495031..2495930	-	900	WP_000131782.1	ATP phosphoribosyltransferase	-
G6O57_RS12370 (2496076)	2496076..2496126	-	51	WP_001364200.1	his operon leader peptide	-
G6O57_RS12375 (2496409)	2496409..2496660	+	252	WP_001259255.1	YoeB-YefM toxin-antitoxin system antitoxin YefM	Antitoxin
G6O57_RS12380 (2496657)	2496657..2496911	+	255	WP_000767829.1	type II toxin-antitoxin system mRNA interferase toxin YoeB	Toxin
G6O57_RS12385 (2496994)	2496994..2497818	+	825	WP_000754737.1	SDR family oxidoreductase	-
G6O57_RS12390 (2497864)	2497864..2498793	+	930	WP_000811606.1	LysR substrate-binding domain-containing protein	-
G6O57_RS12395 (2499008)	2499008..2499070	+	63	WP_010723108.1	membrane protein YoeI	-
G6O57_RS12400 (2499060)	2499060..2500418	+	1359	WP_000019197.1	putrescine/proton symporter PlaP	-
G6O57_RS12405 (2500597)	2500597..2501655	+	1059	WP_000492295.1	thiosulfate utilization transporter TsuA/YeeE	-
G6O57_RS12410 (2501669)	2501669..2501896	+	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

>T150690 WP_000767829.1 NZ_CP049167:2496657-2496911 [Shigella sonnei]
VKLIWSEESWDDYLYWQETDKRIVKKINELIKDTRRTPFEGKGKPEPLKHNLSGFWSRRITEEHRLVYAVTDDSLLIAAC
RYHY

Nucleotide

• Length: 255 bp

>T150690 NZ_CP064923:c1631533-1631237 [Acaryochloris marina S15]
ATGATGTCCATAAGCACAACTCGCTGGGATTCAGCCGCGCATCTCAAAACAGACGAAGATATTCAGCTATACCTAGAGGC
ATGTGTTGAAGAAGCAGAAGATGATCCTGCTTTAATTATTCATGCTCTAGGAGTTGTCGCTAGGGCTAAAAATATGAGTC
AACTCTCCCGAGAAACAGGTTTGAGCAGAGAAGGGCTGTATAAAGCGCTATCAGTTGATGGCAACCCCACTTTTGCGATA
GTCGCAAAAGTTACTAAAGCCCTCGGATTCAAGCTAACCATTCAGCCAACGGTTTAG

Antitoxin

Protein

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

>AT150690 WP_001259255.1 NZ_CP049167:2496409-2496660 [Shigella sonnei]
MRTISYSEARQNLSATMMKAVEDHAPILITRQNGEACVLMSLEEYNSLEETAYLLRSPANARRLMDSIDSLKSGKGTEKD
IIE

Nucleotide

• Length: 252 bp

>AT150690 NZ_CP064923:c1631743-1631534 [Acaryochloris marina S15]
GTGCAAGCACGTATTGACCGTATCGAGATTGGCAACTTCGGCGATGTTGCCGGGGTTAGCGAGCTTCGCATTCATTATGG
TCCGGGTTACAGAGTTTACTTTGTACAACGTGGTTCAGTTGTTGTCATATTGCTGTCTGGTGGCGATAAAAGCTCCCAAA
ATGCTGACATTAAAAGGGCCAAGGAAATTGCTAAACCGTTGGAGGATTGA

Structures

Toxin

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

Antitoxin

• PDB: 2A6Q
• AlphaFold DB: A0A7U9LNR0