Detailed information of TA system    

insolicoBioinformatically predicted

Overview

TA module


Type II Classification (family/domain) vapBC/VapC-VagC
Location 118850..119475 Replicon plasmid unnamed1
Accession NZ_CP020343
Organism Shigella flexneri 1a strain 0439

Toxin (Protein)


Gene name vapC Uniprot ID Q7BEJ1
Locus tag BS647_RS26235 Protein ID WP_000911311.1
Coordinates 118850..119248 (-) Length 133 a.a.

Antitoxin (Protein)


Gene name vapB Uniprot ID Q7BEJ0
Locus tag BS647_RS26240 Protein ID WP_000450531.1
Coordinates 119248..119475 (-) Length 76 a.a.

Genomic Context

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
BS647_RS26210 (BS647_26315) 114380..115330 + 951 WP_015683210.1 virulence factor VirK -
BS647_RS26215 (BS647_26320) 115395..116339 + 945 WP_004996485.1 lauroyl-Kdo(2)-lipid IV(A) myristoyltransferase -
BS647_RS26220 (BS647_26325) 116493..117416 - 924 Protein_144 IS630 family transposase -
BS647_RS26230 (BS647_26335) 118662..118841 + 180 Protein_146 hypothetical protein -
BS647_RS26235 (BS647_26340) 118850..119248 - 399 WP_000911311.1 type II toxin-antitoxin system VapC family toxin Toxin
BS647_RS26240 (BS647_26345) 119248..119475 - 228 WP_000450531.1 toxin-antitoxin system antitoxin VapB Antitoxin

Associated MGEs

MGE
detail		 Similar
MGEs		 Relative
position		 MGE Type Cargo ARG Virulence gene Coordinates Length (bp)
- inside Non-Mobilizable plasmid - ospB / ospC4 / ospC2 / ospD2 / ospF / ospD1 / ipgB2 / ospE2 / ipaH2.5 / ospC2 / virA / icsA/virG / papC / ospI / ipaH9.8 / ospG / ipaH1.4 / ospE1 / nleE / icsP/sopA 1..144194 144194


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

>T74332 WP_000911311.1 NZ_CP020343:c119248-118850 [Shigella flexneri 1a]
MLKFMLDTNICIFTIKNKPASVRERFNLNQGKMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRIDVLDYDAAAATHT
GQIRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDWS

Download         Length: 399 bp

>T74332 NZ_CP020343:c119248-118850 [Shigella flexneri 1a]
ATGCTGAAGTTTATGCTCGATACCAACATCTGCATTTTTACGATAAAGAACAAACCCGCCAGCGTCAGGGAGCGTTTTAA
CCTGAACCAGGGGAAAATGTGTATCAGTTCGGTCACCCTGATGGAGCTGATATATGGTGCAGAAAAAAGCCAGATGCCTG
AACGTAATCTCGCTGTGATCGAGGGATTTGTTTCCCGCATTGATGTTCTGGATTACGACGCTGCTGCAGCCACACACACC
GGCCAGATAAGAGCAGAACTTGCCCGTCAGGGACGCCCTGTCGGGCCATTTGATCAAATGATCGCAGGTCATGCCCGCAG
TCGGGGGCTGATTATTGTGACTAATAACACCCGGGAATTTGAACGTGTGGGCGGCCTGAGAACTGAAGACTGGAGCTGA

Antitoxin


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

>AT74332 WP_000450531.1 NZ_CP020343:c119475-119248 [Shigella flexneri 1a]
METTVFLSNRSQAVRLPKAVALPENVKRVEVIAVGRTRIITPAGETWDEWFDGHSVSTDFMDNREQPGMQERESF

Download         Length: 228 bp

>AT74332 NZ_CP020343:c119475-119248 [Shigella flexneri 1a]
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