Detailed information of TA system    

insolicoBioinformatically predicted

Overview

TA module


Type II Classification (family/domain) vapBC/LOTUS_5_Limkain_b1-Phd
Location 6875139..6875845 Replicon chromosome
Accession NZ_CP066355
Organism Bradyrhizobium diazoefficiens strain USDA 122-Bd

Toxin (Protein)


Gene name vapC Uniprot ID A0A837CG53
Locus tag JEY62_RS32065 Protein ID WP_028175059.1
Coordinates 6875420..6875845 (+) Length 142 a.a.

Antitoxin (Protein)


Gene name vapB Uniprot ID A0A837CFL2
Locus tag JEY62_RS32060 Protein ID WP_028175058.1
Coordinates 6875139..6875423 (+) Length 95 a.a.

Genomic Context

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
JEY62_RS32040 (JEY62_31825) 6870212..6871186 - 975 WP_011085226.1 sugar ABC transporter permease -
JEY62_RS32045 (JEY62_31830) 6871186..6872271 - 1086 WP_011085225.1 ABC transporter ATP-binding protein -
JEY62_RS32050 (JEY62_31835) 6872284..6873360 - 1077 WP_028175056.1 ABC transporter ATP-binding protein -
JEY62_RS32055 (JEY62_31840) 6873357..6874907 - 1551 WP_028175057.1 glycerol-3-phosphate dehydrogenase -
JEY62_RS32060 (JEY62_31845) 6875139..6875423 + 285 WP_028175058.1 type II toxin-antitoxin system Phd/YefM family antitoxin Antitoxin
JEY62_RS32065 (JEY62_31850) 6875420..6875845 + 426 WP_028175059.1 type II toxin-antitoxin system VapC family toxin Toxin
JEY62_RS32070 (JEY62_31855) 6875848..6876693 - 846 WP_028175060.1 DeoR/GlpR family DNA-binding transcription regulator -
JEY62_RS32075 (JEY62_31860) 6876785..6877471 - 687 WP_028175061.1 HAD-IA family hydrolase -
JEY62_RS32080 (JEY62_31865) 6877627..6878094 + 468 WP_011085218.1 nuclear transport factor 2 family protein -
JEY62_RS32085 (JEY62_31870) 6878194..6878385 - 192 WP_028175062.1 hypothetical protein -
JEY62_RS32090 (JEY62_31875) 6878577..6879008 - 432 WP_028175063.1 acyl-CoA thioesterase -
JEY62_RS32095 (JEY62_31880) 6879088..6879840 - 753 WP_231166655.1 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

>T184311 WP_028175059.1 NZ_CP066355:6875420-6875845 [Bradyrhizobium diazoefficiens]
VNLLLDTNILSEVQRPAPSPNVLAWLDTIDEDRAFISVASIAELRRGIALLEDGRRRSALAAWLADDLPTRFGERVLPID
QAVVERWGDLMAQSRRSGVALSVMDGFFAATALANDLTLATRNVKDFAAFGVPLLNPWDDR

Download         Length: 426 bp

>T184311 NZ_CP087611:c2729077-2727755 [Klebsiella pneumoniae subsp. pneumoniae]
ATGGCGACGCTTACCACCTGGATGAACAATGTGCGCGTGGGAACCTTAACCCACCAGGCTAACGGGGCGCACAGTTTTCG
CTATGACGAAGAGTGGCTGCGCAGCCCGCGCGCCAGACCGCTCTCCCTCTCACTGCCGCTGCAGTATGGCAATATCACTG
CCGACGCGGTGTATCACTATTTTGATAACCTGCTGCCCGACAGCCCGCAGGTCCGCGACCGGATCGTCAGGCGCTATCAG
GCGCGCTCGAAGCAGCCGTTCGATCTGCTGGCCGAAGTCGGGCGGGATAGCGTAGGGGCGGTGACCCTCCTGCCGCCGGG
GGAAGAGGCGCACCTGGAAGGATTACGCTGGCAGACGCTGGACGAGGCGCAGCTCACCGCTTTGCTGACCGCTTACCAGT
CGGATATCCCCCTCGGGATGATTACCAGCCAGGACGATTTCCGTATCTCGGTGGCCGGCGCCCAGGAGAAAACGGCGCTG
CTGCGGATGGGCGAGCAGTGGTGTATTCCGCAGGGCGCCACGCCGACCACGCATATCATTAAGCTGCCCATCGGCGAGAT
AAAGCAGCCCAATGCGACGCTGGATCTGCGTGAAAGCGTGGATAATGAGTATCTGTGCCTGGCGCTGGCCAGAGAACTGG
GCCTGGCGGTGCCGGAAGCGGAGATCATCACCACTCCGCGGATCCGCGCCCTGGCGGTAACCCGCTTCGACCGGCGCTGG
GCGCAGGAGGGACGGGTGCTGCTGCGTCTGCCGCAGGAGGATCTGTGTCAGGCTTTTGGTCTTCCTTCAGCGATGAAATA
TGAGTCTGACGGCGGGCCGGGTATCGCCGCGATCATGACCTTTCTGCTGGGCTCGAGTGAAGCGCTGAAAGATCGCTATG
ACTTTATGAAGTTCATGGTCTTCCAGTGGCTGACGGGGGCGACGGACGGTCACGCAAAAAACTTCTCAATTTACCTGTTG
CCCGGCGGCAGCTACCGCTTAACACCGTTCTACGACATTATTTCGGCGTTTCCGGTGCTGGGCGGCACGGGACTGCATCT
GCGCGATCTGAAGCTGTCGATGGGGCTCAATGCCACAAAAGGGCGTAAAACAGAGATTAACGCCATCTATCCGCGTCATT
TTCTGGCGACGGCCAAAGCGGTGAACTTTCCCCGGGAGCAGATGCTGGCGATCCTCCAGGAGTTTGCCGGGCATGTGCCG
CAGGCAATCGAAAGCGCTCGCCGGACGCTGCCGGCGGACTTTTCCAGCCACGTCTGGCAGGCCATTACAGAGAACATGCT
GAAGCTGCACGCCCGCCTGCAGCAAGGGCTGCAGGCGCTATAG

Antitoxin


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

>AT184311 WP_028175058.1 NZ_CP066355:6875139-6875423 [Bradyrhizobium diazoefficiens]
MADHNTAPDTLPADDTWTLANAKARLSQVIDRAQTGPQIITRHGKPNAVVVSAEEWARKTARKGTLAEFLLASPLRGADL
ALDRTHDAPRDEMP

Download         Length: 285 bp

>AT184311 NZ_CP087611:c2729343-2729077 [Klebsiella pneumoniae subsp. pneumoniae]
ATGAATTCCCCGCAGATATACAGTCCCGTGCAGCTGGCCAATTACCTGAAGCTGCTGCGCCAGCAGAACCACTGGACCCA
GGATGCGCTGGCCAGGCGGATCGGCATTAAGCAGGCCACGCTGTCCAATTTTGAAAATCACCCCGACAAAACCACCTTAA
CCACGCTGTTTAAGATCCTCCAGTCGCTGGGGGTGGTGATGATGCTGAACGCCAAAGCTGCTGAGACGGCGCCGGCTCCC
GATAACAACACGGACCTTGACTGGTAA

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