Detailed information of TA system    

insolicoBioinformatically predicted

Overview

TA module


Type II Classification (family/domain) yefM-yoeB (relBE)/YoeB-YefM
Location 1764238..1764740 Replicon chromosome
Accession NZ_CP058780
Organism Shigella flexneri strain STLIN_17

Toxin (Protein)


Gene name yoeB Uniprot ID U9YDH0
Locus tag HZT03_RS08370 Protein ID WP_000767829.1
Coordinates 1764486..1764740 (+) Length 85 a.a.

Antitoxin (Protein)


Gene name yefM Uniprot ID S1Q063
Locus tag HZT03_RS08365 Protein ID WP_001259255.1
Coordinates 1764238..1764489 (+) Length 84 a.a.

Genomic Context

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HZT03_RS08340 1759416..1760483 - 1068 WP_032187470.1 bifunctional histidinol-phosphatase/imidazoleglycerol-phosphate dehydratase HisB -
HZT03_RS08345 1760483..1761553 - 1071 WP_089722321.1 histidinol-phosphate transaminase -
HZT03_RS08350 1761550..1762854 - 1305 WP_032172814.1 histidinol dehydrogenase -
HZT03_RS08355 1762860..1763759 - 900 WP_000131776.1 ATP phosphoribosyltransferase -
HZT03_RS08360 1763905..1763955 - 51 WP_001364200.1 his operon leader peptide -
HZT03_RS08365 1764238..1764489 + 252 WP_001259255.1 YoeB-YefM toxin-antitoxin system antitoxin YefM Antitoxin
HZT03_RS08370 1764486..1764740 + 255 WP_000767829.1 type II toxin-antitoxin system mRNA interferase toxin YoeB Toxin
HZT03_RS08375 1764823..1765647 + 825 WP_000754749.1 SDR family oxidoreductase -
HZT03_RS08380 1765693..1766622 + 930 WP_000803351.1 LysR substrate-binding domain-containing protein -
HZT03_RS08385 1766837..1766899 + 63 WP_010723108.1 membrane protein YoeI -
HZT03_RS08390 1766889..1768247 + 1359 WP_000019197.1 putrescine/proton symporter PlaP -
HZT03_RS08395 1768426..1769484 + 1059 WP_240764277.1 thiosulfate utilization transporter TsuA/YeeE -
HZT03_RS08400 1769498..1769725 + 228 WP_000985280.1 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        


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

>T167448 WP_000767829.1 NZ_CP058780:1764486-1764740 [Shigella flexneri]
VKLIWSEESWDDYLYWQETDKRIVKKINELIKDTRRTPFEGKGKPEPLKHNLSGFWSRRITEEHRLVYAVTDDSLLIAAC
RYHY

Download         Length: 255 bp

>T167448 NZ_CP075129:3553236-3553454 [Salmonella enterica subsp. enterica serovar Rubislaw]
ATGTCTGATAAACCATTAACTAAAACTGATTATTTGATGCGTTTACGGCGCTGTCAGACAATTGACACTCTGGAGCGCGT
CATTGAGAAAAATAAATATGAATTGTCCGACAATGAGCTGGCTGTATTTTACTCAGCTGCGGATCACCGTCTTGCAGAAT
TGACGATGAACAAACTCTACGACAAGATCCCCTCTTCAGTATGGAAATTCATTCGTTAA

Antitoxin


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

>AT167448 WP_001259255.1 NZ_CP058780:1764238-1764489 [Shigella flexneri]
MRTISYSEARQNLSATMMKAVEDHAPILITRQNGEACVLMSLEEYNSLEETAYLLRSPANARRLMDSIDSLKSGKGTEKD
IIE

Download         Length: 252 bp

>AT167448 NZ_CP075129:3552834-3553208 [Salmonella enterica subsp. enterica serovar Rubislaw]
ATGGACGAATACTCACCCAAAAGACATGATATAGCACAGCTTAAATTTCTTTGCGAAACCCTGTATCATGACTGTCTTGC
AAACCTTGAAGAAAGCAACCATGGCTGGGTTAATGACCCGACCTCAGCAGTCAACCTGCAGCTCAATGAGCTGATAGAGC
ATATTGCAACTTTCGCTCTTAATTATAAAATTAAGTACAATGAAGACAATAAATTGATTGCGCAGATAGATGAATACCTG
GACGACACCTTTATGTTGTTCAGCAGCTATGGTATTAATACGCAGGATTTGCAAAAATGGCGTAAATCGGGCAACCGCCT
GTTCCGTTGTTTCGTCAACGCCACCAGGGCTAATCCTGTTAGTTTGTCTTGTTAA

Similar Proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
Protein Organism Identities (%) Coverage (%) Ha-value

Structures

Toxin

Source ID Structure
PDB 6NY6
PDB 2A6S
PDB 6OXA
PDB 2A6R
PDB 4V8X
PDB 6OTR
PDB 6OXI
PDB 2A6Q

Antitoxin

Source ID Structure
PDB 2A6Q
AlphaFold DB A0A7U9LNR0

References