Detailed information of TA system    

insolicoBioinformatically predicted

Overview

TA module


Type II Classification (family/domain) yefM-yoeB (relBE)/YoeB-YefM
Location 1789870..1790372 Replicon chromosome
Accession NZ_CP055092
Organism Shigella flexneri strain SWHIN_110

Toxin (Protein)


Gene name yoeB Uniprot ID U9YDH0
Locus tag HUZ87_RS08530 Protein ID WP_000767829.1
Coordinates 1790118..1790372 (+) Length 85 a.a.

Antitoxin (Protein)


Gene name yefM Uniprot ID S1Q063
Locus tag HUZ87_RS08525 Protein ID WP_001259255.1
Coordinates 1789870..1790121 (+) Length 84 a.a.

Genomic Context

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HUZ87_RS08500 (1785047) 1785047..1786114 - 1068 WP_046464156.1 bifunctional histidinol-phosphatase/imidazoleglycerol-phosphate dehydratase HisB -
HUZ87_RS08505 (1786114) 1786114..1787184 - 1071 WP_000108945.1 histidinol-phosphate transaminase -
HUZ87_RS08510 (1787181) 1787181..1788485 - 1305 WP_001446927.1 histidinol dehydrogenase -
HUZ87_RS08515 (1788491) 1788491..1789390 - 900 WP_032329340.1 ATP phosphoribosyltransferase -
HUZ87_RS08520 (1789536) 1789536..1789586 - 51 WP_001364200.1 his operon leader peptide -
HUZ87_RS08525 (1789870) 1789870..1790121 + 252 WP_001259255.1 YoeB-YefM toxin-antitoxin system antitoxin YefM Antitoxin
HUZ87_RS08530 (1790118) 1790118..1790372 + 255 WP_000767829.1 type II toxin-antitoxin system mRNA interferase toxin YoeB Toxin
HUZ87_RS08535 (1790455) 1790455..1791279 + 825 WP_000754749.1 SDR family oxidoreductase -
HUZ87_RS08540 (1791325) 1791325..1792254 + 930 WP_000803351.1 LysR substrate-binding domain-containing protein -
HUZ87_RS08545 (1792469) 1792469..1792531 + 63 WP_010723108.1 membrane protein YoeI -
HUZ87_RS08550 (1792521) 1792521..1793879 + 1359 WP_000019197.1 putrescine/proton symporter PlaP -
HUZ87_RS08555 (1794058) 1794058..1795116 + 1059 WP_000492321.1 thiosulfate utilization transporter TsuA/YeeE -
HUZ87_RS08560 (1795130) 1795130..1795357 + 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        


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

>T161447 WP_000767829.1 NZ_CP055092:1790118-1790372 [Shigella flexneri]
VKLIWSEESWDDYLYWQETDKRIVKKINELIKDTRRTPFEGKGKPEPLKHNLSGFWSRRITEEHRLVYAVTDDSLLIAAC
RYHY

Download         Length: 255 bp

>T161447 NZ_CP071194:2039699-2039795 [Serratia marcescens subsp. marcescens ATCC 13880]
AACAAGCCCTGCATTAAATGCCAACTTTTAGCGCACGGCTCTCTCCCAAGAGCCATTTCCCTAGACCGAATATAGGAATC
GTATTCGGTCTTTTTTT

Antitoxin


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

>AT161447 WP_001259255.1 NZ_CP055092:1789870-1790121 [Shigella flexneri]
MRTISYSEARQNLSATMMKAVEDHAPILITRQNGEACVLMSLEEYNSLEETAYLLRSPANARRLMDSIDSLKSGKGTEKD
IIE

Download         Length: 252 bp

>AT161447 NZ_CP071194:c2039795-2039655 [Serratia marcescens subsp. marcescens ATCC 13880]
AAAAAAAGACCGAATACGATTCCTATATTCGGTCTAGGGAAATGGCTCTTGGGAGAGAGCCGTGCGCTAAAAGTTGGCAT
TTAATGCAGGGCTTGTTCAGCCGTGCACTTTAAGAGTAGCCTACCGCGCCAGTTTTGCCAG

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