Detailed information of TA system    

insolicoBioinformatically predicted

Overview

TA module


Type II Classification (family/domain) vapBC/VapC-Phd
Location 7664135..7664838 Replicon chromosome
Accession NZ_CP010313
Organism Bradyrhizobium japonicum strain E109

Toxin (Protein)


Gene name vapC Uniprot ID A0A845IZN1
Locus tag RN69_RS35710 Protein ID WP_014497446.1
Coordinates 7664413..7664838 (+) Length 142 a.a.

Antitoxin (Protein)


Gene name vapB Uniprot ID A0A845J034
Locus tag RN69_RS35705 Protein ID WP_014497445.1
Coordinates 7664135..7664416 (+) Length 94 a.a.

Genomic Context

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
RN69_RS35685 7659149..7660123 - 975 WP_014497441.1 sugar ABC transporter permease -
RN69_RS35690 7660123..7661208 - 1086 WP_014497442.1 ABC transporter ATP-binding protein -
RN69_RS35695 7661221..7662357 - 1137 WP_014497443.1 ABC transporter ATP-binding protein -
RN69_RS35700 7662354..7663904 - 1551 WP_014497444.1 glycerol-3-phosphate dehydrogenase -
RN69_RS35705 7664135..7664416 + 282 WP_014497445.1 type II toxin-antitoxin system Phd/YefM family antitoxin Antitoxin
RN69_RS35710 7664413..7664838 + 426 WP_014497446.1 type II toxin-antitoxin system VapC family toxin Toxin
RN69_RS35715 7664843..7665688 - 846 WP_014497447.1 DeoR/GlpR family DNA-binding transcription regulator -
RN69_RS35720 7665780..7666478 - 699 WP_014497448.1 HAD-IA family hydrolase -
RN69_RS35725 7666633..7667097 + 465 WP_014497449.1 nuclear transport factor 2 family protein -
RN69_RS35735 7667503..7667895 + 393 WP_014497450.1 nuclear transport factor 2 family protein -
RN69_RS35740 7668131..7668322 - 192 WP_014497451.1 hypothetical protein -
RN69_RS35745 7668543..7668953 - 411 WP_014497452.1 acyl-CoA thioesterase -

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

(14-77)


Sequences

Toxin        


Download         Length: 142 a.a.        Molecular weight: 15301.53 Da        Isoelectric Point: 6.4678

>T51988 WP_014497446.1 NZ_CP010313:7664413-7664838 [Bradyrhizobium japonicum]
VNLLLDTNVLSEVQRPAPSPKVLAWLDTVDEDRAFISVASIAELRRGIALLDDGRRRAALAAWLAHDLPARFAQRTLPID
HAVAERWGDLMAQSRRTGVALSVMDGFLAATAFANNLTLVTRNVTDFAAFGVPLLNPWSGA

Download         Length: 426 bp

>T51988 NZ_CP010313:7664413-7664838 [Bradyrhizobium japonicum]
GTGAACCTGCTCCTCGACACCAACGTGCTGTCGGAGGTTCAGCGGCCGGCGCCTTCCCCGAAAGTCCTGGCATGGCTCGA
TACGGTCGATGAGGATCGCGCGTTCATCAGCGTTGCCTCGATCGCCGAGCTTCGCCGCGGCATCGCCCTGCTGGATGATG
GCCGTCGCCGCGCCGCACTGGCCGCTTGGCTCGCGCATGACCTGCCGGCTCGGTTCGCGCAGCGCACCCTGCCGATCGAC
CACGCGGTCGCCGAGCGCTGGGGCGACCTGATGGCGCAGAGCCGTCGCACTGGCGTTGCGTTGTCCGTGATGGACGGCTT
CCTTGCGGCCACCGCGTTCGCCAACAATCTCACGCTCGTCACACGCAATGTGACGGATTTCGCGGCCTTCGGCGTTCCGC
TGCTCAACCCGTGGAGCGGCGCCTAA

Antitoxin


Download         Length: 94 a.a.        Molecular weight: 10236.45 Da        Isoelectric Point: 5.1409

>AT51988 WP_014497445.1 NZ_CP010313:7664135-7664416 [Bradyrhizobium japonicum]
MTDRSSAPDSPPTDTWTLANAKARLSEVVDRAQTGPQIITRHGRPNAVVVSADEWARKTARKGTLAEFLLASPLRGADLE
LERVQDEPRDEMP

Download         Length: 282 bp

>AT51988 NZ_CP010313:7664135-7664416 [Bradyrhizobium japonicum]
ATGACAGACCGCAGCTCCGCTCCCGATTCGCCGCCGACTGACACGTGGACGCTCGCCAATGCCAAGGCACGCCTGTCCGA
GGTGGTCGATCGCGCCCAAACTGGTCCCCAGATCATCACCCGACACGGCAGGCCCAATGCCGTGGTCGTTTCCGCGGATG
AATGGGCGCGAAAGACGGCGCGCAAAGGCACGCTGGCCGAATTCCTGCTGGCTTCGCCGCTGCGCGGTGCCGACCTCGAA
CTTGAACGGGTGCAGGATGAACCGCGCGACGAGATGCCGTGA

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 A0A845IZN1

Antitoxin

Source ID Structure
AlphaFold DB A0A845J034

References