Detailed information of TA system    

insolicoBioinformatically predicted

Overview

TA module


Type II Classification (family/domain) vapBC/LOTUS_5_Limkain_b1-Phd
Location 345126..345817 Replicon plasmid pRL3b2
Accession NZ_CP050109
Organism Rhizobium leguminosarum bv. trifolii strain 3B

Toxin (Protein)


Gene name vapC Uniprot ID A0A6P0D4X9
Locus tag HA459_RS25115 Protein ID WP_018245712.1
Coordinates 345126..345554 (-) Length 143 a.a.

Antitoxin (Protein)


Gene name vapB Uniprot ID A0A4R0AD13
Locus tag HA459_RS25120 Protein ID WP_017991284.1
Coordinates 345551..345817 (-) Length 89 a.a.

Genomic Context

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HA459_RS25085 340163..340966 - 804 WP_018245717.1 crotonase/enoyl-CoA hydratase family protein -
HA459_RS25090 341055..341639 + 585 WP_026188704.1 TetR/AcrR family transcriptional regulator -
HA459_RS25095 341912..342751 + 840 WP_018245715.1 transporter substrate-binding domain-containing protein -
HA459_RS25100 342919..343581 + 663 WP_026188703.1 amino acid ABC transporter permease -
HA459_RS25105 343588..344247 + 660 WP_011648868.1 amino acid ABC transporter permease -
HA459_RS25110 344260..345030 + 771 WP_018245713.1 amino acid ABC transporter ATP-binding protein -
HA459_RS25115 345126..345554 - 429 WP_018245712.1 type II toxin-antitoxin system VapC family toxin Toxin
HA459_RS25120 345551..345817 - 267 WP_017991284.1 type II toxin-antitoxin system Phd/YefM family antitoxin Antitoxin
HA459_RS25125 346074..346823 + 750 WP_018245711.1 GntR family transcriptional regulator -
HA459_RS25130 346827..347612 + 786 WP_018245710.1 transporter substrate-binding domain-containing protein -
HA459_RS25135 347693..348364 + 672 WP_018245709.1 amino acid ABC transporter permease -
HA459_RS25140 348361..349020 + 660 WP_018245708.1 amino acid ABC transporter permease -
HA459_RS25145 348998..349723 + 726 WP_018245707.1 amino acid ABC transporter ATP-binding protein -
HA459_RS25150 349872..350243 - 372 WP_018245706.1 type II toxin-antitoxin system RelE/ParE family toxin -
HA459_RS25155 350243..350500 - 258 WP_018245705.1 hypothetical protein -

Associated MGEs

MGE
detail		 Similar
MGEs		 Relative
position		 MGE Type Cargo ARG Virulence gene Coordinates Length (bp)
- inside Conjugative plasmid - - 1..1232616 1232616


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

(9-66)


Sequences

Toxin        


Download         Length: 143 a.a.        Molecular weight: 15914.18 Da        Isoelectric Point: 4.6772

>T152253 WP_018245712.1 NZ_CP050109:c345554-345126 [Rhizobium leguminosarum bv. trifolii]
VRLLLDTNVLSEVTRPRPDAHVLQWLDSLDEDRSFISVVSIAEIRRGVALMESGRKRDALAEWLAQDLPQRFEQRVIPVD
QPVAIAWGDLMGLAKRSGRGLSSMDGLIAATAIAHDLTLATRNIKDFEGFEIELVDPWTERP

Download         Length: 429 bp

>T152253 NZ_CP066078:323000-323269 [Rothia kristinae]
ATGCCTGACCTGCTGCTGACCTGGGACCCTGAGGCCTGGGAGGACTACCTGTGGTGGCAGCGCCAGGATCGCGCCGTGCT
GCGTCGGATCAACACGCTGATCCGGGACATCCAGCGCCACGGGAATGAGGGCATCGGCAAACCGGAGCCGCTGCGTCATG
ACTTCGCCGGGTATTGGTCCCGCCGGATCACCGCGGAGCACCGACTGGTCTATCGGCTCACCGACCGTCAGGTGCTCATC
GCCGCGTGCCGCTACCACTACGGTCAGTGA

Antitoxin


Download         Length: 89 a.a.        Molecular weight: 9960.34 Da        Isoelectric Point: 10.0842

>AT152253 WP_017991284.1 NZ_CP050109:c345817-345551 [Rhizobium leguminosarum bv. trifolii]
MQPSRPEDKSWTVASAKAKLSEVIERAQATPQTIMRNGKPSVVVVSAEEWQRKTARKGTLAEFLMQSPLRGADLDLERQR
DEPRDLQL

Download         Length: 267 bp

>AT152253 NZ_CP066078:322747-323007 [Rothia kristinae]
GTGAAGACGATGACGTACACGGAGTCTCGGGCGCGCTATGCCGAGGTGCTGGACGGCGTGGTGCAGGACCGGGAGGAGGT
GGTGATCACCCGCAGCGGTCACGACCCGGTGGTGATCCTCTCCCTGGCGGAGTATGAGTCGCTGAAGGAGACGGCGCACC
TGCTGCGCTCCCCCGCCAATGCCCGTCGGCTGCTGGATGCGATGCAGCGTCTGGAGGCGGGACAGGGCCAGCGCCACGAG
CTCGTGGACCCCGATGCCTGA

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 A0A6P0D4X9

Antitoxin

Source ID Structure
AlphaFold DB A0A4R0AD13

References