Detailed information of TA system    

insolicoBioinformatically predicted

Overview

TA module


Type II Classification (family/domain) vapBC/VapC-VagC
Location 149197..149822 Replicon plasmid p2013C-3749-2
Accession NZ_CP034933
Organism Shigella flexneri strain 2013C-3749

Toxin (Protein)


Gene name vapC Uniprot ID Q7BEJ1
Locus tag EPD86_RS24850 Protein ID WP_000911311.1
Coordinates 149424..149822 (+) Length 133 a.a.

Antitoxin (Protein)


Gene name vapB Uniprot ID Q7BEJ0
Locus tag EPD86_RS24845 Protein ID WP_000450531.1
Coordinates 149197..149424 (+) Length 76 a.a.

Genomic Context

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
EPD86_RS24845 149197..149424 + 228 WP_000450531.1 toxin-antitoxin system antitoxin VapB Antitoxin
EPD86_RS24850 149424..149822 + 399 WP_000911311.1 type II toxin-antitoxin system VapC family toxin Toxin
EPD86_RS24855 149831..150010 - 180 Protein_176 hypothetical protein -
EPD86_RS24865 150055..151211 + 1157 WP_094081572.1 IS3 family transposase -
EPD86_RS24870 151256..152179 + 924 Protein_178 IS630 family transposase -
EPD86_RS24875 152333..153277 - 945 WP_004996485.1 lauroyl-Kdo(2)-lipid IV(A) myristoyltransferase -
EPD86_RS24880 153342..154292 - 951 WP_015683210.1 virulence factor VirK -

Associated MGEs

MGE
detail		 Similar
MGEs		 Relative
position		 MGE Type Cargo ARG Virulence gene Coordinates Length (bp)
- inside Non-Mobilizable plasmid - 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 / ospC2 / ipaH2.5 / ospE2 / ipgB2 / ospD1 / ospF / ospD2 / ospC2 / ospC4 / 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 1..223405 223405


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: 14817.08 Da        Isoelectric Point: 8.5232

>T116963 WP_000911311.1 NZ_CP034933:149424-149822 [Shigella flexneri]
MLKFMLDTNICIFTIKNKPASVRERFNLNQGKMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRIDVLDYDAAAATHT
GQIRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDWS

Download         Length: 399 bp

>T116963 NZ_CP034933:149424-149822 [Shigella flexneri]
ATGCTGAAGTTTATGCTCGATACCAACATCTGCATTTTTACGATAAAGAACAAACCCGCCAGCGTCAGGGAGCGTTTTAA
CCTGAACCAGGGGAAAATGTGTATCAGTTCGGTCACCCTGATGGAGCTGATATATGGTGCAGAAAAAAGCCAGATGCCTG
AACGTAATCTCGCTGTGATCGAGGGATTTGTTTCCCGCATTGATGTTCTGGATTACGACGCTGCTGCAGCCACACACACC
GGCCAGATAAGAGCAGAACTTGCCCGTCAGGGACGCCCTGTCGGGCCATTTGATCAAATGATCGCAGGTCATGCCCGCAG
TCGGGGGCTGATTATTGTGACTAATAACACCCGGGAATTTGAACGTGTGGGCGGCCTGAGAACTGAAGACTGGAGCTGA

Antitoxin


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

>AT116963 WP_000450531.1 NZ_CP034933:149197-149424 [Shigella flexneri]
METTVFLSNRSQAVRLPKAVALPENVKRVEVIAVGRTRIITPAGETWDEWFDGHSVSTDFMDNREQPGMQERESF

Download         Length: 228 bp

>AT116963 NZ_CP034933:149197-149424 [Shigella flexneri]
ATGGAAACCACCGTATTTCTCAGCAACCGCAGCCAGGCGGTCAGACTGCCAAAAGCGGTTGCATTGCCGGAAAACGTAAA
ACGCGTTGAAGTGATTGCTGTCGGACGAACCAGAATCATTACGCCAGCCGGAGAGACATGGGACGAATGGTTCGACGGAC
ACAGCGTCAGCACCGATTTTATGGATAACAGGGAACAGCCCGGCATGCAAGAAAGGGAGTCATTCTGA

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
PDB 3TND
PDB 5ED0
PDB 5ECW
PDB 5ECD
PDB 5ECY

Antitoxin

Source ID Structure
PDB 3TND
AlphaFold DB Q7BEJ0

References