Detailed information of TA system TA230189

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): yefM-yoeB (relBE)/YoeB-YefM
• Location: 1962541..1963043
• Replicon: chromosome
• Accession: NZ_CP090196
• Organism: Escherichia coli strain YL3

Toxin (Protein)

• Gene name: yoeB
• Uniprot ID: U9YDH0
• Locus tag: LXN07_RS09180
• Protein ID: WP_000767829.1
• Coordinates: 1962789..1963043 (+)
• Length: 85 a.a.

Antitoxin (Protein)

• Gene name: yefM
• Uniprot ID: S1Q063
• Locus tag: LXN07_RS09175
• Protein ID: WP_001259255.1
• Coordinates: 1962541..1962792 (+)
• Length: 84 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LXN07_RS09150 (1957719)	1957719..1958786	-	1068	WP_000080093.1	bifunctional histidinol-phosphatase/imidazoleglycerol-phosphate dehydratase HisB	-
LXN07_RS09155 (1958786)	1958786..1959856	-	1071	WP_000108943.1	histidinol-phosphate transaminase	-
LXN07_RS09160 (1959853)	1959853..1961157	-	1305	WP_039267630.1	histidinol dehydrogenase	-
LXN07_RS09165 (1961163)	1961163..1962062	-	900	WP_000131789.1	ATP phosphoribosyltransferase	-
LXN07_RS09170 (1962208)	1962208..1962258	-	51	WP_071593552.1	his operon leader peptide	-
LXN07_RS09175 (1962541)	1962541..1962792	+	252	WP_001259255.1	YoeB-YefM toxin-antitoxin system antitoxin YefM	Antitoxin
LXN07_RS09180 (1962789)	1962789..1963043	+	255	WP_000767829.1	type II toxin-antitoxin system mRNA interferase toxin YoeB	Toxin
LXN07_RS09185 (1963126)	1963126..1963950	+	825	WP_000754737.1	SDR family oxidoreductase	-
LXN07_RS09190 (1963996)	1963996..1964925	+	930	WP_000803351.1	LysR substrate-binding domain-containing protein	-
LXN07_RS09195 (1965140)	1965140..1965202	+	63	WP_010723108.1	membrane protein YoeI	-
LXN07_RS09200 (1965192)	1965192..1966550	+	1359	WP_000019197.1	putrescine/proton symporter PlaP	-
LXN07_RS09205 (1966729)	1966729..1967787	+	1059	WP_023568741.1	thiosulfate utilization transporter TsuA/YeeE	-
LXN07_RS09210 (1967801)	1967801..1968021	+	221	Protein_1802	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

>T230189 WP_000767829.1 NZ_CP090196:1962789-1963043 [Escherichia coli]
VKLIWSEESWDDYLYWQETDKRIVKKINELIKDTRRTPFEGKGKPEPLKHNLSGFWSRRITEEHRLVYAVTDDSLLIAAC
RYHY

Nucleotide

• Length: 255 bp

>T230189 NZ_CP124750:c1086131-1085928 [Serratia sp. K-M0706]
ATGACTAAAACCGACTATCTGATGCGTTTACGTAAATGCACCACGATTGATACTCTCGAACGTGTTATTGAGAAAAATAA
GTACGAGCTTTCCGATGATGAACTGGAGCTGTTTTACTCAGCGGCCGATCACCGTCTGGCGGAGCTCACCATGAACAAAC
TGTATGACAAAATCCCCACCTCCGTTTGGAAATATGTCAGATAA

Antitoxin

Protein

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

>AT230189 WP_001259255.1 NZ_CP090196:1962541-1962792 [Escherichia coli]
MRTISYSEARQNLSATMMKAVEDHAPILITRQNGEACVLMSLEEYNSLEETAYLLRSPANARRLMDSIDSLKSGKGTEKD
IIE

Nucleotide

• Length: 252 bp

>AT230189 NZ_CP124750:c1086549-1086181 [Serratia sp. K-M0706]
ATGGATGAGTATTCGCCTAAGCGACACGACATTGCTCAGCTCAAATTCTTGTGCGAAAATTTGTATGATGAAGGTATCGC
TACCCTGGGAGACAGTCACCATGGGTGGGTCAACGATCCGACGTCCTCCGTCAACCTGCAGCTTAATGAGTTGATCGAAC
ATATCGCTTCGTTTGTGATGAGTTATAAAATTAAATACATGGACGAATCAGACCTGTCGGAGTTAGTCGAAGAATATCTC
GACGATACCTATACGCTGTTCAGCAGCTACGGTATCAATGATTCCGACCTGCGCCGCTGGCAAAAAACCAAGGCGAGATT
ATTCAGAATGTTCTCAGGAGAGGACATCTGTACGACAATGAAAACTTAG

Structures

Toxin

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

Antitoxin

• PDB: 2A6Q
• AlphaFold DB: A0A7U9LNR0