Detailed information of TA system    

insolicoBioinformatically predicted

Overview

TA module


Type II Classification (family/domain) yefM-yoeB (relBE)/YoeB-YefM
Location 1183485..1183987 Replicon chromosome
Accession NZ_CP022455
Organism Shigella sonnei strain 2015C-3794

Toxin (Protein)


Gene name yoeB Uniprot ID U9YDH0
Locus tag B9129_RS07005 Protein ID WP_000767829.1
Coordinates 1183485..1183739 (-) Length 85 a.a.

Antitoxin (Protein)


Gene name yefM Uniprot ID S1Q063
Locus tag B9129_RS07010 Protein ID WP_001259255.1
Coordinates 1183736..1183987 (-) Length 84 a.a.

Genomic Context

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
B9129_RS06980 (1178501) 1178501..1178728 - 228 WP_000985273.1 thiosulfate utilization sulfurtransferase TsuB/YeeD -
B9129_RS06985 (1178742) 1178742..1179800 - 1059 WP_000492295.1 thiosulfate utilization transporter TsuA/YeeE -
B9129_RS06990 (1179979) 1179979..1181337 - 1359 WP_000019197.1 putrescine/proton symporter PlaP -
B9129_RS27095 (1181327) 1181327..1181389 - 63 WP_010723108.1 membrane protein YoeI -
B9129_RS06995 (1181603) 1181603..1182532 - 930 WP_000811606.1 LysR substrate-binding domain-containing protein -
B9129_RS07000 (1182578) 1182578..1183402 - 825 WP_000754737.1 SDR family oxidoreductase -
B9129_RS07005 (1183485) 1183485..1183739 - 255 WP_000767829.1 type II toxin-antitoxin system mRNA interferase toxin YoeB Toxin
B9129_RS07010 (1183736) 1183736..1183987 - 252 WP_001259255.1 YoeB-YefM toxin-antitoxin system antitoxin YefM Antitoxin
B9129_RS07015 (1184270) 1184270..1184320 + 51 WP_001364200.1 his operon leader peptide -
B9129_RS07025 (1184466) 1184466..1185365 + 900 WP_000131782.1 ATP phosphoribosyltransferase -
B9129_RS07030 (1185371) 1185371..1186675 + 1305 WP_001462576.1 histidinol dehydrogenase -
B9129_RS07035 (1186672) 1186672..1187742 + 1071 WP_039063509.1 histidinol-phosphate transaminase -
B9129_RS07040 (1187742) 1187742..1188809 + 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

>T79066 WP_000767829.1 NZ_CP022455:c1183739-1183485 [Shigella sonnei]
VKLIWSEESWDDYLYWQETDKRIVKKINELIKDTRRTPFEGKGKPEPLKHNLSGFWSRRITEEHRLVYAVTDDSLLIAAC
RYHY

Download         Length: 255 bp

>T79066 NZ_CP022455:c1183739-1183485 [Shigella sonnei]
GTGAAACTAATCTGGTCTGAGGAATCATGGGATGATTATCTGTACTGGCAGGAAACAGATAAGCGAATTGTTAAAAAGAT
CAATGAACTTATCAAAGATACCCGCAGAACGCCATTTGAAGGTAAGGGGAAGCCAGAACCCCTGAAACATAATTTGTCAG
GTTTCTGGTCCCGACGCATTACAGAGGAGCACCGTCTGGTATACGCGGTTACCGACGATTCACTGCTCATTGCAGCATGT
CGTTATCATTATTGA

Antitoxin


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

>AT79066 WP_001259255.1 NZ_CP022455:c1183987-1183736 [Shigella sonnei]
MRTISYSEARQNLSATMMKAVEDHAPILITRQNGEACVLMSLEEYNSLEETAYLLRSPANARRLMDSIDSLKSGKGTEKD
IIE

Download         Length: 252 bp

>AT79066 NZ_CP022455:c1183987-1183736 [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