Detailed information of TA system    

insolicoBioinformatically predicted

Overview

TA module


Type II Classification (family/domain) vapBC/LOTUS_5_Limkain_b1-Phd
Location 4352707..4353413 Replicon chromosome
Accession NZ_CP050064
Organism Bradyrhizobium diazoefficiens strain 172S4

Toxin (Protein)


Gene name vapC Uniprot ID A0A837CG53
Locus tag HAU57_RS20600 Protein ID WP_028175059.1
Coordinates 4352988..4353413 (+) Length 142 a.a.

Antitoxin (Protein)


Gene name vapB Uniprot ID A0A837CFL2
Locus tag HAU57_RS20595 Protein ID WP_028175058.1
Coordinates 4352707..4352991 (+) Length 95 a.a.

Genomic Context

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HAU57_RS20575 4347780..4348754 - 975 WP_011085226.1 sugar ABC transporter permease -
HAU57_RS20580 4348754..4349839 - 1086 WP_011085225.1 ABC transporter ATP-binding protein -
HAU57_RS20585 4349852..4350928 - 1077 WP_028175056.1 ABC transporter ATP-binding protein -
HAU57_RS20590 4350925..4352475 - 1551 WP_028175057.1 glycerol-3-phosphate dehydrogenase -
HAU57_RS20595 4352707..4352991 + 285 WP_028175058.1 type II toxin-antitoxin system Phd/YefM family antitoxin Antitoxin
HAU57_RS20600 4352988..4353413 + 426 WP_028175059.1 type II toxin-antitoxin system VapC family toxin Toxin
HAU57_RS20605 4353416..4354261 - 846 WP_028175060.1 DeoR/GlpR family DNA-binding transcription regulator -
HAU57_RS20610 4354353..4355039 - 687 WP_028175061.1 HAD-IA family hydrolase -
HAU57_RS20615 4355195..4355662 + 468 WP_011085218.1 nuclear transport factor 2 family protein -
HAU57_RS20620 4355762..4355953 - 192 WP_028175062.1 hypothetical protein -
HAU57_RS20625 4356145..4356576 - 432 WP_028175063.1 acyl-CoA thioesterase -
HAU57_RS20630 4356656..4357465 - 810 WP_028175064.1 fatty acid desaturase 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

PIN domain

(4-123)

Antitoxin

Type II toxin-antitoxin system, antitoxin Phd/YefM

(15-77)


Sequences

Toxin        


Download         Length: 142 a.a.        Molecular weight: 15514.68 Da        Isoelectric Point: 4.4561

>T152166 WP_028175059.1 NZ_CP050064:4352988-4353413 [Bradyrhizobium diazoefficiens]
VNLLLDTNILSEVQRPAPSPNVLAWLDTIDEDRAFISVASIAELRRGIALLEDGRRRSALAAWLADDLPTRFGERVLPID
QAVVERWGDLMAQSRRSGVALSVMDGFFAATALANDLTLATRNVKDFAAFGVPLLNPWDDR

Download         Length: 426 bp

>T152166 NZ_CP066018:c2400645-2400229 [Cupriavidus necator]
GTGTATTTGATTGATACCAACGTCATCAGCGAAACGCGCAAGCGCGAGCGCGCCAACCCCGGCGTGCGCGCGTTCTTCCG
GCAGGCGGCGCGGGAAGGTGCCGCGCTCTACCTGTCGGCGCTGACCGTGGGCGAGCTCCAGCGTGGCGTAGCGCTGATCC
GCCATCGCGGCGATACGGCGCAGGCCGAGCTGCTGGAGCAATGGCTGGCGACCGTGCTGGAGGATTTTGGCCGGCTGGTG
TTGCCGGTCGATGCCGACGTCGCCCAGGTCTGGGGCCAGCTGCGCGCGCCGCGGCCTGAGCACGCGCTGGACAAGTTCAT
TGCCGCCACCGCGCTGATCCATGACCTGACCATTGTCACGCGCAATGTTGAGGATTTCCGCGGCACGGGCGCGATGCTGC
TGAATCCGTTCACCTAG

Antitoxin


Download         Length: 95 a.a.        Molecular weight: 10223.50 Da        Isoelectric Point: 6.7247

>AT152166 WP_028175058.1 NZ_CP050064:4352707-4352991 [Bradyrhizobium diazoefficiens]
MADHNTAPDTLPADDTWTLANAKARLSQVIDRAQTGPQIITRHGKPNAVVVSAEEWARKTARKGTLAEFLLASPLRGADL
ALDRTHDAPRDEMP

Download         Length: 285 bp

>AT152166 NZ_CP066018:c2400868-2400632 [Cupriavidus necator]
ATGGCAACACTACTCGTTCGTGGCATCGATGAATCCCTGGTCCAGCGCCTGCGCGAGCGGGCCGTCGCCAACGGCCGCAG
CGCCGAGGCCGAGCACCGCGCCATCCTGGCGCAGGCGCTGGGCGGCACGCGCCGGCGCAGCCTGGCCGAGGTGCTGGCCA
GCATCCCGGACGTCGGGCAAGACGCCGACTTCGAGCGGATCCAGAATCCAGGCGAGGCGCCGCGTGTATTTGATTGA

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
AlphaFold DB A0A837CG53

Antitoxin

Source ID Structure
AlphaFold DB A0A837CFL2

References