Detailed information of TA system    

insolicoBioinformatically predicted

Overview

TA module


Type II Classification (family/domain) yefM-yoeB (relBE)/YoeB-YefM
Location 1121760..1122262 Replicon chromosome
Accession NC_010658
Organism Shigella boydii CDC 3083-94

Toxin (Protein)


Gene name yoeB Uniprot ID U9YDH0
Locus tag SBBS512_RS07920 Protein ID WP_000767829.1
Coordinates 1122008..1122262 (+) Length 85 a.a.

Antitoxin (Protein)


Gene name yefM Uniprot ID S1Q063
Locus tag SBBS512_RS07915 Protein ID WP_001259255.1
Coordinates 1121760..1122011 (+) Length 84 a.a.

Genomic Context

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SBBS512_RS07895 1116938..1118005 - 1068 WP_000080119.1 bifunctional histidinol-phosphatase/imidazoleglycerol-phosphate dehydratase HisB -
SBBS512_RS07900 1118005..1119075 - 1071 WP_000108981.1 histidinol-phosphate transaminase -
SBBS512_RS07905 1119072..1120376 - 1305 WP_012421305.1 histidinol dehydrogenase -
SBBS512_RS07910 1120382..1121281 - 900 WP_000131782.1 ATP phosphoribosyltransferase -
SBBS512_RS28715 1121427..1121477 - 51 WP_001364200.1 his operon leader peptide -
SBBS512_RS07915 1121760..1122011 + 252 WP_001259255.1 YoeB-YefM toxin-antitoxin system antitoxin YefM Antitoxin
SBBS512_RS07920 1122008..1122262 + 255 WP_000767829.1 type II toxin-antitoxin system mRNA interferase toxin YoeB Toxin
SBBS512_RS07925 1122345..1123169 + 825 WP_000754758.1 SDR family oxidoreductase -
SBBS512_RS07930 1123215..1124144 + 930 WP_000803351.1 LysR family transcriptional regulator -
SBBS512_RS32970 1124359..1124421 + 63 WP_010723108.1 membrane protein YoeI -
SBBS512_RS07935 1124411..1125769 + 1359 WP_000019197.1 putrescine/proton symporter PlaP -
SBBS512_RS07940 1125979..1126908 + 930 WP_024258582.1 YeeE/YedE family protein -
SBBS512_RS07945 1126922..1127149 + 228 WP_000985273.1 sulfurtransferase TusA family protein -

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

>T22846 WP_000767829.1 NC_010658:1122008-1122262 [Shigella boydii CDC 3083-94]
VKLIWSEESWDDYLYWQETDKRIVKKINELIKDTRRTPFEGKGKPEPLKHNLSGFWSRRITEEHRLVYAVTDDSLLIAAC
RYHY

Download         Length: 255 bp

>T22846 NC_010658:1122008-1122262 [Shigella boydii CDC 3083-94]
GTGAAACTAATCTGGTCTGAGGAATCATGGGATGATTATCTGTACTGGCAGGAAACAGATAAGCGAATTGTTAAAAAGAT
CAATGAACTTATCAAAGATACCCGCAGAACGCCATTTGAAGGTAAGGGGAAGCCAGAACCCCTGAAACATAATTTGTCAG
GTTTCTGGTCCCGACGCATTACAGAGGAGCACCGTCTGGTATACGCGGTTACCGACGATTCACTGCTCATTGCAGCATGT
CGTTATCATTATTGA

Antitoxin


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

>AT22846 WP_001259255.1 NC_010658:1121760-1122011 [Shigella boydii CDC 3083-94]
MRTISYSEARQNLSATMMKAVEDHAPILITRQNGEACVLMSLEEYNSLEETAYLLRSPANARRLMDSIDSLKSGKGTEKD
IIE

Download         Length: 252 bp

>AT22846 NC_010658:1121760-1122011 [Shigella boydii CDC 3083-94]
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