Detailed information of TA system    

insolicoBioinformatically predicted

Overview

TA module


Type II Classification (family/domain) vapBC/VapC-VagC
Location 102220..102845 Replicon plasmid pSB4_227
Accession NC_007608
Organism Shigella boydii Sb227

Toxin (Protein)


Gene name vapC Uniprot ID Q6XVU6
Locus tag SBO_RS25485 Protein ID WP_000911318.1
Coordinates 102220..102618 (-) Length 133 a.a.

Antitoxin (Protein)


Gene name vapB Uniprot ID Q31SG2
Locus tag SBO_RS25490 Protein ID WP_000450530.1
Coordinates 102618..102845 (-) Length 76 a.a.

Genomic Context

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SBO_RS25455 98185..99135 + 951 WP_005059240.1 virulence factor VirK -
SBO_RS25460 99200..100144 + 945 WP_005027201.1 lauroyl-Kdo(2)-lipid IV(A) myristoyltransferase -
SBO_RS25465 100298..100969 - 672 Protein_122 IS630 family transposase -
SBO_RS25470 100985..101682 - 698 Protein_123 IS1 family transposase -
SBO_RS25480 101738..102211 + 474 Protein_124 conjugal transfer protein TraD -
SBO_RS25485 102220..102618 - 399 WP_000911318.1 tRNA(fMet)-specific endonuclease VapC Toxin
SBO_RS25490 102618..102845 - 228 WP_000450530.1 toxin-antitoxin system antitoxin VapB Antitoxin
SBO_RS29015 102927..103346 + 420 WP_011379081.1 conjugative relaxase -

Associated MGEs

MGE
detail		 Similar
MGEs		 Relative
position		 MGE Type Cargo ARG Virulence gene Coordinates Length (bp)
- inside Non-Mobilizable plasmid - ospB / ospC4 / ospC4 / ospD2 / ospF / ospD1 / ipgB2 / ipaH1.4 / ipaH4.5 / ipaH7.8 / ospD3/senA / ospC1 / senB / ospE2 / ospI / ospC3 / ipaH9.8 / ospC2 / nleE / icsP/sopA 1..126697 126697
- inside IScluster/Tn - ospE2 / ospI / ospC3 / ipaH9.8 70356..101488 31132


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: 14845.09 Da        Isoelectric Point: 8.5264

>T21338 WP_000911318.1 NC_007608:c102618-102220 [Shigella boydii Sb227]
MLKFMLDTNICIFTIKNKPASVRERFNLNQGRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRIDVLDYDAAAATHT
GQIRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDWS

Download         Length: 399 bp

>T21338 NC_007608:c102618-102220 [Shigella boydii Sb227]
ATGCTGAAGTTTATGCTCGATACCAACATCTGCATTTTTACGATAAAGAACAAACCCGCCAGCGTCAGGGAGCGTTTTAA
CCTGAACCAGGGGAGAATGTGTATCAGTTCGGTCACCCTGATGGAGCTGATATATGGTGCAGAAAAAAGCCAGATGCCTG
AACGTAATCTCGCTGTGATCGAGGGATTTGTTTCCCGCATTGATGTTCTGGATTACGACGCTGCTGCAGCCACACACACC
GGCCAGATAAGAGCAGAACTTGCCCGTCAGGGACGCCCTGTCGGGCCATTTGATCAAATGATCGCAGGTCATGCCCGCAG
TCGGGGGCTGATTATTGTGACTAATAACACCCGGGAATTTGAACGTGTGGGCGGCCTGAGAACTGAAGACTGGAGCTGA

Antitoxin


Download         Length: 76 a.a.        Molecular weight: 8535.59 Da        Isoelectric Point: 4.7513

>AT21338 WP_000450530.1 NC_007608:c102845-102618 [Shigella boydii Sb227]
METTVFLSNRSQAVRLPKAVALPENVKRVEVIAVGRTRIITPAGETWDEWFDGHSVSADFMDNREQPGMQERESF

Download         Length: 228 bp

>AT21338 NC_007608:c102845-102618 [Shigella boydii Sb227]
ATGGAAACCACCGTATTTCTCAGCAACCGCAGCCAGGCGGTCAGACTGCCAAAAGCGGTTGCATTGCCGGAAAACGTAAA
ACGCGTTGAAGTGATTGCTGTCGGACGAACCAGAATCATTACGCCAGCCGGAGAGACATGGGACGAATGGTTCGACGGAC
ACAGCGTCAGCGCCGATTTTATGGATAACAGGGAACAGCCCGGCATGCAGGAAAGGGAGTCATTCTGA

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 6SD6

Antitoxin

Source ID Structure
AlphaFold DB Q31SG2

References