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Prediction of change in protein unfolding rates upon point mutations in two state proteins
Published in Elsevier B.V.
2016
PMID: 27264959
Volume: 1864
   
Issue: 9
Pages: 1104 - 1109
Abstract
Studies on protein unfolding rates are limited and challenging due to the complexity of unfolding mechanism and the larger dynamic range of the experimental data. Though attempts have been made to predict unfolding rates using protein sequence-structure information there is no available method for predicting the unfolding rates of proteins upon specific point mutations. In this work, we have systematically analyzed a set of 790 single mutants and developed a robust method for predicting protein unfolding rates upon mutations (Δlnku) in two-state proteins by combining amino acid properties and knowledge-based classification of mutants with multiple linear regression technique. We obtain a mean absolute error (MAE) of 0.79/s and a Pearson correlation coefficient (PCC) of 0.71 between predicted unfolding rates and experimental observations using jack-knife test. We have developed a web server for predicting protein unfolding rates upon mutation and it is freely available at https://www.iitm.ac.in/bioinfo/proteinunfolding/unfoldingrace.HTML. Prominent features that determine unfolding kinetics as well as plausible reasons for the observed outliers are also discussed. © 2016 Elsevier B.V.
About the journal
JournalData powered by TypesetBiochimica et Biophysica Acta - Proteins and Proteomics
PublisherData powered by TypesetElsevier B.V.
ISSN15709639
Open AccessNo
Concepts (32)
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    Amino acid
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    Protein
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    Article
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    Controlled study
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    Error
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    JACKKNIFE TEST
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    MUTANT
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    Point mutation
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    Prediction
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    Priority journal
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    Protein secondary structure
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    PROTEIN UNFOLDING
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    Surface area
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    Alpha helix
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    Beta sheet
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    Chemistry
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    Human
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    Kinetics
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    Protein domain
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    Protein folding
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    Protein tertiary structure
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    Statistical model
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    Thermodynamics
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    Amino acids
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    Humans
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    Linear models
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    Protein conformation, alpha-helical
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    PROTEIN CONFORMATION, BETA-STRAND
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    Protein interaction domains and motifs
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    Protein structure, tertiary
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    PROTEIN UNFOLDING
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    Proteins