Detailed information of TA system    

insolicoBioinformatically predicted

Overview

TA module


Type II Classification (family/domain) vapBC/VapC-VagC
Location 132990..133615 Replicon plasmid unnamed3
Accession NZ_CP026771
Organism Shigella flexneri Y strain 93-3063

Toxin (Protein)


Gene name vapC Uniprot ID Q7BEJ1
Locus tag C1P87_RS25215 Protein ID WP_000911311.1
Coordinates 133217..133615 (+) Length 133 a.a.

Antitoxin (Protein)


Gene name vapB Uniprot ID Q7BEJ0
Locus tag C1P87_RS25210 Protein ID WP_000450531.1
Coordinates 132990..133217 (+) Length 76 a.a.

Genomic Context

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C1P87_RS25210 132990..133217 + 228 WP_000450531.1 toxin-antitoxin system antitoxin VapB Antitoxin
C1P87_RS25215 133217..133615 + 399 WP_000911311.1 type II toxin-antitoxin system VapC family toxin Toxin
C1P87_RS25220 133624..133803 - 180 Protein_157 hypothetical protein -
C1P87_RS25225 133848..135004 + 1157 WP_134798325.1 IS3 family transposase -
C1P87_RS25230 135016..135902 + 887 Protein_159 IS630 family transposase -
C1P87_RS25235 136056..137000 - 945 WP_004996485.1 lauroyl-Kdo(2)-lipid IV(A) myristoyltransferase -
C1P87_RS25240 137065..138015 - 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 - icsB / ipgA / ipgB1 / ipgC / ipaB / ipaC / ipaD / ipaA / ipaJ / ospC3 / ipaH2.5 / ospC2 / ipaH7.8 / ipaH4.5 / ospD3/senA / ospC1 / 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 / mxiD / mxiE / mxiM / mxiL / mxiN / mxiK / mxiJ / mxiI / mxiH / mxiG / ipgF / ipgE / ipgD 1..220759 220759


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

>T95778 WP_000911311.1 NZ_CP026771:133217-133615 [Shigella flexneri Y]
MLKFMLDTNICIFTIKNKPASVRERFNLNQGKMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRIDVLDYDAAAATHT
GQIRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDWS

Download         Length: 399 bp

>T95778 NZ_CP026771:133217-133615 [Shigella flexneri Y]
ATGCTGAAGTTTATGCTCGATACCAACATCTGCATTTTTACGATAAAGAACAAACCCGCCAGCGTCAGGGAGCGTTTTAA
CCTGAACCAGGGGAAAATGTGTATCAGTTCGGTCACCCTGATGGAGCTGATATATGGTGCAGAAAAAAGCCAGATGCCTG
AACGTAATCTCGCTGTGATCGAGGGATTTGTTTCCCGCATTGATGTTCTGGATTACGACGCTGCTGCAGCCACACACACC
GGCCAGATAAGAGCAGAACTTGCCCGTCAGGGACGCCCTGTCGGGCCATTTGATCAAATGATCGCAGGTCATGCCCGCAG
TCGGGGGCTGATTATTGTGACTAATAACACCCGGGAATTTGAACGTGTGGGCGGCCTGAGAACTGAAGACTGGAGCTGA

Antitoxin


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

>AT95778 WP_000450531.1 NZ_CP026771:132990-133217 [Shigella flexneri Y]
METTVFLSNRSQAVRLPKAVALPENVKRVEVIAVGRTRIITPAGETWDEWFDGHSVSTDFMDNREQPGMQERESF

Download         Length: 228 bp

>AT95778 NZ_CP026771:132990-133217 [Shigella flexneri Y]
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
PDB 3TND
PDB 5ED0
PDB 5ECW
PDB 5ECD
PDB 5ECY

Antitoxin

Source ID Structure
PDB 3TND
AlphaFold DB Q7BEJ0

References