Detailed information of TA system    

insolicoBioinformatically predicted

Overview

TA module


Type II Classification (family/domain) yefM-yoeB (relBE)/YoeB-YefM
Location 3350216..3350718 Replicon chromosome
Accession NZ_CP041511
Organism Shigella sonnei strain KCCM 41282

Toxin (Protein)


Gene name yoeB Uniprot ID U9YDH0
Locus tag FNA55_RS17165 Protein ID WP_000767829.1
Coordinates 3350216..3350470 (-) Length 85 a.a.

Antitoxin (Protein)


Gene name yefM Uniprot ID S1Q063
Locus tag FNA55_RS17170 Protein ID WP_001259255.1
Coordinates 3350467..3350718 (-) Length 84 a.a.

Genomic Context

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
FNA55_RS17135 (3345231) 3345231..3345458 - 228 WP_000985273.1 thiosulfate utilization sulfurtransferase TsuB/YeeD -
FNA55_RS17140 (3345472) 3345472..3346530 - 1059 WP_000492295.1 thiosulfate utilization transporter TsuA/YeeE -
FNA55_RS17145 (3346709) 3346709..3348067 - 1359 WP_000019197.1 putrescine/proton symporter PlaP -
FNA55_RS17150 (3348057) 3348057..3348119 - 63 WP_010723108.1 membrane protein YoeI -
FNA55_RS17155 (3348334) 3348334..3349263 - 930 WP_000811606.1 LysR substrate-binding domain-containing protein -
FNA55_RS17160 (3349309) 3349309..3350133 - 825 WP_000754737.1 SDR family oxidoreductase -
FNA55_RS17165 (3350216) 3350216..3350470 - 255 WP_000767829.1 type II toxin-antitoxin system mRNA interferase toxin YoeB Toxin
FNA55_RS17170 (3350467) 3350467..3350718 - 252 WP_001259255.1 YoeB-YefM toxin-antitoxin system antitoxin YefM Antitoxin
FNA55_RS17175 (3351001) 3351001..3351051 + 51 WP_001364200.1 his operon leader peptide -
FNA55_RS17180 (3351197) 3351197..3352096 + 900 WP_000131782.1 ATP phosphoribosyltransferase -
FNA55_RS17185 (3352102) 3352102..3353406 + 1305 WP_001462576.1 histidinol dehydrogenase -
FNA55_RS17190 (3353403) 3353403..3354473 + 1071 WP_000108977.1 histidinol-phosphate transaminase -
FNA55_RS17195 (3354473) 3354473..3355540 + 1068 WP_000080086.1 bifunctional histidinol-phosphatase/imidazoleglycerol-phosphate dehydratase HisB -

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

>T128702 WP_000767829.1 NZ_CP041511:c3350470-3350216 [Shigella sonnei]
VKLIWSEESWDDYLYWQETDKRIVKKINELIKDTRRTPFEGKGKPEPLKHNLSGFWSRRITEEHRLVYAVTDDSLLIAAC
RYHY

Download         Length: 255 bp

>T128702 NZ_CP041511:c3350470-3350216 [Shigella sonnei]
GTGAAACTAATCTGGTCTGAGGAATCATGGGATGATTATCTGTACTGGCAGGAAACAGATAAGCGAATTGTTAAAAAGAT
CAATGAACTTATCAAAGATACCCGCAGAACGCCATTTGAAGGTAAGGGGAAGCCAGAACCCCTGAAACATAATTTGTCAG
GTTTCTGGTCCCGACGCATTACAGAGGAGCACCGTCTGGTATACGCGGTTACCGACGATTCACTGCTCATTGCAGCATGT
CGTTATCATTATTGA

Antitoxin


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

>AT128702 WP_001259255.1 NZ_CP041511:c3350718-3350467 [Shigella sonnei]
MRTISYSEARQNLSATMMKAVEDHAPILITRQNGEACVLMSLEEYNSLEETAYLLRSPANARRLMDSIDSLKSGKGTEKD
IIE

Download         Length: 252 bp

>AT128702 NZ_CP041511:c3350718-3350467 [Shigella sonnei]
ATGCGTACAATTAGCTACAGCGAAGCGCGTCAGAATTTGTCGGCAACAATGATGAAAGCCGTTGAAGATCATGCCCCGAT
CCTTATTACTCGTCAGAATGGAGAGGCTTGTGTTCTGATGTCACTCGAAGAATACAACTCGCTGGAAGAGACGGCTTATC
TACTGCGCTCCCCCGCTAACGCCCGGAGATTGATGGACTCAATCGATAGCCTGAAATCAGGCAAAGGAACAGAAAAGGAC
ATTATTGAGTGA

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