Detailed information of TA system TA143043

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): yefM-yoeB (relBE)/YoeB-YefM
• Location: 1645707..1646209
• Replicon: chromosome
• Accession: NZ_CP045932
• Organism: Shigella sonnei strain AUSMDU00010534

Toxin (Protein)

• Gene name: yoeB
• Uniprot ID: U9YDH0
• Locus tag: GJE15_RS08210
• Protein ID: WP_000767829.1
• Coordinates: 1645955..1646209 (+)
• Length: 85 a.a.

Antitoxin (Protein)

• Gene name: yefM
• Uniprot ID: S1Q063
• Locus tag: GJE15_RS08205
• Protein ID: WP_001259255.1
• Coordinates: 1645707..1645958 (+)
• Length: 84 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
GJE15_RS08180 (1640885)	1640885..1641952	-	1068	WP_000080086.1	bifunctional histidinol-phosphatase/imidazoleglycerol-phosphate dehydratase HisB	-
GJE15_RS08185 (1641952)	1641952..1643022	-	1071	WP_000108977.1	histidinol-phosphate transaminase	-
GJE15_RS08190 (1643019)	1643019..1644323	-	1305	WP_001462576.1	histidinol dehydrogenase	-
GJE15_RS08195 (1644329)	1644329..1645228	-	900	WP_000131782.1	ATP phosphoribosyltransferase	-
GJE15_RS08200 (1645374)	1645374..1645424	-	51	WP_001364200.1	his operon leader peptide	-
GJE15_RS08205 (1645707)	1645707..1645958	+	252	WP_001259255.1	YoeB-YefM toxin-antitoxin system antitoxin YefM	Antitoxin
GJE15_RS08210 (1645955)	1645955..1646209	+	255	WP_000767829.1	type II toxin-antitoxin system mRNA interferase toxin YoeB	Toxin
GJE15_RS08215 (1646292)	1646292..1647116	+	825	WP_000754737.1	SDR family oxidoreductase	-
GJE15_RS08220 (1647162)	1647162..1648091	+	930	WP_000811606.1	LysR substrate-binding domain-containing protein	-
GJE15_RS08225 (1648306)	1648306..1648368	+	63	WP_010723108.1	membrane protein YoeI	-
GJE15_RS08230 (1648358)	1648358..1649716	+	1359	WP_000019197.1	putrescine/proton symporter PlaP	-
GJE15_RS08235 (1649895)	1649895..1650953	+	1059	WP_000492295.1	thiosulfate utilization transporter TsuA/YeeE	-
GJE15_RS08240 (1650967)	1650967..1651194	+	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

>T143043 WP_000767829.1 NZ_CP045932:1645955-1646209 [Shigella sonnei]
VKLIWSEESWDDYLYWQETDKRIVKKINELIKDTRRTPFEGKGKPEPLKHNLSGFWSRRITEEHRLVYAVTDDSLLIAAC
RYHY

Nucleotide

• Length: 255 bp

>T143043 NZ_CP060928:c4008082-4007804 [Escherichia coli]
ATGATTCAAAGGGATATTGAATACTCGGGACAATATTCAAAGGATGTAAAACTTGCACAAAAGCGTCATAAGGATATGAA
TAAATTGAAATATCTTATGACGCTTCTTATCAATAATACTTTACCGCTTCCAGCTGTTTATAAAGACCACCCGCTGCAAG
GTTCATGGAAAGGTTATCGCGATGCTCATGTCGAACCGGACTGGATCCTGATTTACAAACTTACCGATAAACTTTTACGA
TTTGAGAGAACTGGAACTCACGCGGCGCTCTTTGGGTAA

Antitoxin

Protein

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

>AT143043 WP_001259255.1 NZ_CP045932:1645707-1645958 [Shigella sonnei]
MRTISYSEARQNLSATMMKAVEDHAPILITRQNGEACVLMSLEEYNSLEETAYLLRSPANARRLMDSIDSLKSGKGTEKD
IIE

Nucleotide

• Length: 252 bp

>AT143043 NZ_CP060928:c4008345-4008085 [Escherichia coli]
ATGGCTGCTAACGCGTTTGTTCGCGCCCGAATCGATGAAGATCTGAAGAATCAGGCAGCGGACGTACTGGCCGGGATGGG
GCTGACCATCTCTGACCTGGTTCGCATAACCCTCACAAAGGTCGCGCGTGAAAAGGCATTGCCGTTTGATTTACGCGAGC
CTAATCAATTAACCATTCAATCAATCAAAAACAGCGAAGCTGGCATTGATGTTCATAAGGCCAAAGACGCCGATGATTTA
TTTGATAAATTAGGAATTTAA

Structures

Toxin

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

Antitoxin

• PDB: 2A6Q
• AlphaFold DB: A0A7U9LNR0