Nov 5, 2018

In Silico Analysis of Non Synonymous Single Nucleotide Polymorphisms (nsSNPs) of SMPX Gene in Hearing Impairment

BioRxiv : the Preprint Server for Biology
Md. ArifuzzamanRaju Dash

Abstract

Background: Mutations in SMPX gene can disrupt the normal activity of the SMPX protein which is involved in hearing process. Objective: In this study, deleterious non-synonymous single nucleotide polymorphisms were isolated from the neutral variants by using several bioinformatics tools. Method: Firstly, dbSNP database hosted by NCBI was used to retrieve the SNPs of SMPX gene, secondly, SIFT was used primarily to screen the damaging SNPs. Further, for validation PROVEAN, PredictSNP and PolyPhen 2 were used. I-Mutant 3 was utilized to analyze the protein stability change and MutPred predicted the molecular mechanism of protein stability change. Finally evolutionary conservation was done to study their conservancy by using ConSurf server. Results: A total of 26 missense (0.6517%) and 3 nonsense variants (0.075%) were retrieved and among them 4 mutations were found deleterious by all the tools of this experiment and are also highly conserved according to ConSurf server. rs772775896, rs759552778, rs200892029 and rs1016314772 are the reference IDs of deleterious mutations where the substitutions are S71L, N19D, A29T and K54N. Loss of Ubiquitination, loss of methylation, loss of glycosylation, and loss of MoRF binding motifs are the ...Continue Reading

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Mentioned in this Paper

Study
Research
THEM4
Protein Methylation
KAT6B wt Allele
Ncbi Taxonomy
Mutant Proteins
KAT6B gene
Bio-Informatics
Single Nucleotide Polymorphism Database

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