Mutational analysis on predicting the impact of high-risk SNPs in human secretary phospholipase A2 receptor (PLA2R1).

Scientific Reports
Zoya Khalid, Omar Almaghrabi

Abstract

PLA2R1 is a transmembrane glycoprotein that acts as an endogenous ligand which stimulates the processes including cell proliferation and cell migration. The SNPs in PLA2R1 is associated with idiopathic membranous nephropathy which is an autoimmune kidney disorder. The present study aimed to explore the structure-function analysis of high risk SNPs in PLA2R1 by using 12 different computational tools. First the functional annotation of SNPs were carried out by sequence based tools which were further subjected to evolutionary conservation analysis. Those SNPs which were predicted as deleterious in both categories were further considered for structure based analysis. The resultant SNPs were C1096S, C545S, C664S, F1257L, F734S, I1174T, I1114T, P177S, P384S, W1198G, W1328G, W692C, W692L, W962R, Y499H. One functional domain of PLA2R1 is already modelled in PDB (6JLI), the full 3D structure of the protein was predicted using I-TASSER homology modelling tool. The stability analysis, structure superimposition, RMSD calculation and docking studies were carried out. The structural analysis predicted four mutations F734S, F1246L, I1174T, W1198G as damaging to the structure of the protein. All these mutations are occurring at the conserved r...Continue Reading

References

May 20, 1999·Annual Review of Pharmacology and Toxicology·J BalsindeE A Dennis
Apr 29, 2000·Intensive Care Medicine·S J van Deventer
Oct 14, 2000·The Journal of Biological Chemistry·M H GelbG Lambeau
Nov 15, 2000·Clinical Genetics·N J SchorkJ S Lanchbury
Nov 16, 2002·Prostaglandins & Other Lipid Mediators·Kohji Hanasaki, Hitoshi Arita
Apr 26, 2005·Nucleic Acids Research·Yang Zhang, Jeffrey Skolnick
Jun 28, 2005·Nucleic Acids Research·Emidio CapriottiRita Casadio
Jan 25, 2008·BMC Bioinformatics·Yang Zhang
Mar 13, 2009·Genes & Development·Andrew R J YoungMasashi Narita
Nov 4, 2010·Nucleic Acids Research·Damian SzklarczykChristian von Mering
Jul 6, 2011·Nucleic Acids Research·Boris RevaChris Sander
Oct 13, 2011·Molecular Systems Biology·Fabian SieversDesmond G Higgins
Feb 23, 2013·Journal of the American Society of Nephrology : JASN·Marieke J H CoenenPierre Ronco
Jul 17, 2013·BMC Genomics·Emidio CapriottiYana Bromberg
Jan 24, 2014·PLoS Computational Biology·Jaroslav BendlJiri Damborsky
Jan 13, 2017·Nature Protocols·Dima KozakovSandor Vajda
Jun 1, 2017·Scientific Reports·Allan S PiresSérgio A Alencar
Jul 28, 2017·Scientific Reports·Tikam Chand DakalNikolay V Dokholyan
Aug 2, 2017·Scientific Reports·Maryline FresquetPaul E Brenchley
Apr 7, 2020·Journal of Biomolecular Structure & Dynamics·Zoya Khalid, Osman Ugur Sezerman

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Software Mentioned

SNPnexus
TASSER
MSA
Clustal Omega
Jalview
PFAM
Psi
Meta
Align
PROVEAN ( Protein Variation Effect Analyzer )

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