Detailed information of TA system    

insolicoBioinformatically predicted

Overview

TA module


Type II Classification (family/domain) vapBC/VapC-VagC
Location 58076..58701 Replicon plasmid unnamed1
Accession NZ_CP034059
Organism Shigella flexneri strain FDAARGOS_535

Toxin (Protein)


Gene name vapC Uniprot ID -
Locus tag EGX88_RS00440 Protein ID WP_000911087.1
Coordinates 58303..58701 (+) Length 133 a.a.

Antitoxin (Protein)


Gene name vapB Uniprot ID Q7BEJ0
Locus tag EGX88_RS00435 Protein ID WP_000450531.1
Coordinates 58076..58303 (+) Length 76 a.a.

Genomic Context

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
EGX88_RS00435 (EGX88_00430) 58076..58303 + 228 WP_000450531.1 toxin-antitoxin system antitoxin VapB Antitoxin
EGX88_RS00440 (EGX88_00435) 58303..58701 + 399 WP_000911087.1 tRNA(fMet)-specific endonuclease VapC Toxin
EGX88_RS00445 (EGX88_00440) 58710..58889 - 180 Protein_78 hypothetical protein -
EGX88_RS00450 (EGX88_00445) 58934..60090 + 1157 WP_134797086.1 IS3 family transposase -
EGX88_RS00455 (EGX88_00450) 60101..60987 + 887 Protein_80 IS630 family transposase -
EGX88_RS00460 (EGX88_00455) 61141..62085 - 945 WP_004996485.1 lauroyl-Kdo(2)-lipid IV(A) myristoyltransferase -
EGX88_RS00465 (EGX88_00460) 62150..63100 - 951 WP_004970430.1 virulence factor VirK -

Associated MGEs

MGE
detail		 Similar
MGEs		 Relative
position		 MGE Type Cargo ARG Virulence gene Coordinates Length (bp)
- inside Non-Mobilizable plasmid - ospC2 / ipgB2 / ospD1 / ospF / ospD2 / ospB / icsP/sopA / nleE / ospE1 / ipaH1.4 / ospG / ipaH9.8 / ospI / papC / icsA/virG / virA / spa40 / spa29 / spa9 / spa24 / spa33 / spa32 / spa13 / spa47 / spa15 / mxiA / mxiC / mxiD / mxiE / mxiM / mxiL / mxiN / mxiK / mxiJ / mxiI / mxiH / mxiG / ipgF / ipgE / ipgD / icsB / ipgA / ipgB1 / ipgC / ipaB / ipaC / ipaD / ipaA / ipaJ / ospC3 / ospC1 / ospD3/senA / ipaH4.5 / ipaH7.8 / ospE2 / ipaH2.5 1..217451 217451


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

(5-125)

Antitoxin

SpoVT-AbrB domain

(7-51)


Sequences

Toxin        


Download         Length: 133 a.a.        Molecular weight: 14799.04 Da        Isoelectric Point: 8.5232

>T115068 WP_000911087.1 NZ_CP034059:58303-58701 [Shigella flexneri]
MLKFILDTNICIFTIKNKPASVRERFNLNQGKMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRIDVLDYDAAAATHT
GQIRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDWS

Download         Length: 399 bp

>T115068 NZ_CP034059:58303-58701 [Shigella flexneri]
ATGCTGAAGTTTATTCTCGATACCAACATCTGCATTTTTACGATAAAGAACAAACCCGCCAGCGTCAGGGAGCGTTTTAA
CCTGAACCAGGGGAAAATGTGTATCAGTTCGGTCACCCTGATGGAGCTGATATATGGTGCAGAAAAAAGCCAGATGCCTG
AACGTAATCTCGCTGTGATCGAGGGATTTGTTTCCCGCATTGATGTTCTGGATTACGACGCTGCTGCAGCCACACACACC
GGCCAGATAAGAGCAGAACTTGCCCGTCAGGGACGCCCTGTCGGGCCATTTGATCAAATGATCGCAGGTCATGCCCGCAG
TCGGGGGCTGATTATTGTGACTAATAACACCCGGGAATTTGAACGTGTGGGCGGCCTGAGAACTGAAGACTGGAGCTGA

Antitoxin


Download         Length: 76 a.a.        Molecular weight: 8565.62 Da        Isoelectric Point: 4.7513

>AT115068 WP_000450531.1 NZ_CP034059:58076-58303 [Shigella flexneri]
METTVFLSNRSQAVRLPKAVALPENVKRVEVIAVGRTRIITPAGETWDEWFDGHSVSTDFMDNREQPGMQERESF

Download         Length: 228 bp

>AT115068 NZ_CP034059:58076-58303 [Shigella flexneri]
ATGGAAACCACCGTATTTCTCAGCAACCGCAGCCAGGCGGTCAGACTGCCAAAAGCGGTTGCATTGCCGGAAAACGTAAA
ACGCGTTGAAGTGATTGCTGTCGGACGAACCAGAATCATTACGCCAGCCGGAGAGACATGGGACGAATGGTTCGACGGAC
ACAGCGTCAGCACCGATTTTATGGATAACAGGGAACAGCCCGGCATGCAGGAAAGGGAGTCATTCTGA

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

Antitoxin

Source ID Structure
PDB 3TND
AlphaFold DB Q7BEJ0

References