Detailed information of TA system    

insolicoBioinformatically predicted

Overview

TA module


Type II Classification (family/domain) vapBC/LOTUS_5_Limkain_b1(toxin)
Location 14160..14761 Replicon chromosome
Accession NZ_CP038662
Organism Serratia nematodiphila strain DH-S01

Toxin (Protein)


Gene name vapC Uniprot ID A0A0P0Q8I8
Locus tag E5D60_RS00065 Protein ID WP_004933929.1
Coordinates 14160..14540 (-) Length 127 a.a.

Antitoxin (Protein)


Gene name vapB Uniprot ID A0A086G6A0
Locus tag E5D60_RS00070 Protein ID WP_004933932.1
Coordinates 14540..14761 (-) Length 74 a.a.

Genomic Context

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
E5D60_RS00040 9406..10686 + 1281 WP_049278441.1 DUF3748 domain-containing protein -
E5D60_RS00045 10717..11064 - 348 WP_082997390.1 YceK/YidQ family lipoprotein -
E5D60_RS00050 11374..11787 + 414 WP_004933919.1 heat shock chaperone IbpA -
E5D60_RS00055 11895..12323 + 429 WP_004933922.1 heat shock chaperone IbpB -
E5D60_RS00060 12491..14149 + 1659 WP_033631397.1 putative transporter -
E5D60_RS00065 14160..14540 - 381 WP_004933929.1 type II toxin-antitoxin system VapC family toxin Toxin
E5D60_RS00070 14540..14761 - 222 WP_004933932.1 ribbon-helix-helix domain-containing protein Antitoxin
E5D60_RS00075 14836..16086 - 1251 WP_004933935.1 valine--pyruvate transaminase -
E5D60_RS00080 16222..18285 - 2064 WP_033631398.1 alpha-amylase -
E5D60_RS25050 18481..18633 + 153 WP_015376155.1 hypothetical protein -
E5D60_RS00085 18635..19612 - 978 WP_033631399.1 glyoxylate/hydroxypyruvate reductase GhrB -

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

(7-102)

Antitoxin

Ribbon-helix-helix protein, CopG

(3-40)


Sequences

Toxin        


Download         Length: 127 a.a.        Molecular weight: 14173.48 Da        Isoelectric Point: 7.3170

>T123095 WP_004933929.1 NZ_CP038662:c14540-14160 [Serratia nematodiphila]
MVAQRALFDTNILIDYLNGIPQAKDVLTEYHTNPAISAITWMEVMVGAKKQGPALELKTRQFLGQFLLLPITDEVAERAV
ELRHSQHVKLPDAIIWATAQVGFRTLISRNPKDFGTDNGVLMPYRL

Download         Length: 381 bp

>T123095 NZ_CP038662:c14540-14160 [Serratia nematodiphila]
ATGGTGGCTCAACGGGCGTTATTCGACACCAATATTCTGATCGATTATCTCAACGGCATTCCTCAAGCCAAAGACGTTTT
GACCGAATACCACACCAATCCGGCTATTAGCGCCATCACCTGGATGGAAGTGATGGTGGGTGCCAAAAAGCAGGGGCCGG
CGCTGGAGCTGAAAACGCGCCAGTTTTTAGGGCAATTCCTGCTGCTGCCTATTACCGATGAAGTTGCCGAACGCGCCGTA
GAACTGCGCCACTCACAGCATGTGAAGCTGCCGGACGCCATTATCTGGGCCACCGCGCAGGTGGGGTTCCGGACGCTCAT
CTCCCGCAACCCCAAAGATTTTGGCACTGACAACGGCGTGTTAATGCCTTACCGGCTGTAG

Antitoxin


Download         Length: 74 a.a.        Molecular weight: 8593.53 Da        Isoelectric Point: 4.4791

>AT123095 WP_004933932.1 NZ_CP038662:c14761-14540 [Serratia nematodiphila]
MTRIVIDLPEEDLRQLDNLKNIRHVPRAEIIRQAVSRYLTENHVEDPSNAFGLWSGAMGDGVDYENRQREEWE

Download         Length: 222 bp

>AT123095 NZ_CP038662:c14761-14540 [Serratia nematodiphila]
ATGACTCGCATCGTGATCGATTTACCTGAAGAAGACCTGCGGCAGCTCGACAATCTGAAAAATATCCGCCACGTTCCCCG
GGCCGAAATCATCCGTCAGGCCGTCTCCCGCTATCTGACGGAGAACCACGTTGAAGATCCCAGCAATGCTTTCGGGCTCT
GGTCCGGGGCGATGGGAGATGGCGTGGACTACGAAAATCGTCAGCGCGAGGAGTGGGAATAA

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 A0A0P0Q8I8

Antitoxin

Source ID Structure
AlphaFold DB A0A086G6A0

References