Detailed information of TA system    

insolicoBioinformatically predicted

Overview

TA module


Type II Classification (family/domain) vapBC/VapC-Phd
Location 2444272..2444975 Replicon chromosome
Accession NZ_CP058354
Organism Bradyrhizobium japonicum strain 5038

Toxin (Protein)


Gene name vapC Uniprot ID A0A845IZN1
Locus tag HXT67_RS10960 Protein ID WP_014497446.1
Coordinates 2444272..2444697 (-) Length 142 a.a.

Antitoxin (Protein)


Gene name vapB Uniprot ID A0A845J034
Locus tag HXT67_RS10965 Protein ID WP_014497445.1
Coordinates 2444694..2444975 (-) Length 94 a.a.

Genomic Context

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HXT67_RS10930 2440157..2440567 + 411 WP_014497452.1 acyl-CoA thioesterase -
HXT67_RS10935 2440788..2440979 + 192 WP_014497451.1 hypothetical protein -
HXT67_RS10940 2441215..2441607 - 393 WP_014497450.1 nuclear transport factor 2 family protein -
HXT67_RS10945 2442013..2442477 - 465 WP_014497449.1 nuclear transport factor 2 family protein -
HXT67_RS10950 2442632..2443330 + 699 WP_014497448.1 HAD-IA family hydrolase -
HXT67_RS10955 2443422..2444267 + 846 WP_014497447.1 DeoR/GlpR family DNA-binding transcription regulator -
HXT67_RS10960 2444272..2444697 - 426 WP_014497446.1 type II toxin-antitoxin system VapC family toxin Toxin
HXT67_RS10965 2444694..2444975 - 282 WP_014497445.1 type II toxin-antitoxin system Phd/YefM family antitoxin Antitoxin
HXT67_RS10970 2445206..2446756 + 1551 WP_014497444.1 glycerol-3-phosphate dehydrogenase -
HXT67_RS10975 2446753..2447889 + 1137 WP_014497443.1 ABC transporter ATP-binding protein -
HXT67_RS10980 2447902..2448987 + 1086 WP_014497442.1 ABC transporter ATP-binding protein -
HXT67_RS10985 2448987..2449961 + 975 WP_014497441.1 sugar ABC transporter permease -

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

>T166669 WP_014497446.1 NZ_CP058354:c2444697-2444272 [Bradyrhizobium japonicum]
VNLLLDTNVLSEVQRPAPSPKVLAWLDTVDEDRAFISVASIAELRRGIALLDDGRRRAALAAWLAHDLPARFAQRTLPID
HAVAERWGDLMAQSRRTGVALSVMDGFLAATAFANNLTLVTRNVTDFAAFGVPLLNPWSGA

Download         Length: 426 bp

>T166669 NZ_CP074366:c4371572-4371399 [Escherichia coli]
ATGGCACTATTCTCTAAAATATTAATTTTTTATGTGATTGGTGTGAACATATCCTTTGTCATTATCTGGTTTATCTCACA
TGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTT
TTTCTCTCTTTTAG

Antitoxin


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

>AT166669 WP_014497445.1 NZ_CP058354:c2444975-2444694 [Bradyrhizobium japonicum]
MTDRSSAPDSPPTDTWTLANAKARLSEVVDRAQTGPQIITRHGRPNAVVVSADEWARKTARKGTLAEFLLASPLRGADLE
LERVQDEPRDEMP

Download         Length: 282 bp

>AT166669 NZ_CP074366:c4371896-4371600 [Escherichia coli]
ATGGAAGGTAAAAACAAGTTCAATACTTATGTTGTTTCTTTTGATTATCCATCATCTTATTCCTCAGTGTTCTTAAGGTT
AAGATCATTGATGTATGATATGAATTTCTCTTCTATCGTGGCTGATGAATATGGGATACCACGACAATTGAATGAAAATT
CTTTCGCAATAACGACATCGTTAGCCGCAAGTGAAATCGAAGATTTAATCAGGCTTAAATGCTTAGACTTACCGGATATT
GATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAG

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