Sequence based prediction of protein mutant stability and discrimination of thermophilic proteins

M. Michael Gromiha, Liang Tsung Huang, Lien Fu Lai

Research output: Chapter in Book/Report/Conference proceedingConference contribution

4 Citations (Scopus)

Abstract

Prediction of protein stability upon amino acid substitution and discrimination of thermophilic proteins from mesophilic ones are important problems in designing stable proteins. We have developed a classification rule generator using the information about wild-type, mutant, three neighboring residues and experimentally observed stability data. Utilizing the rules, we have developed a method based on decision tree for discriminating the stabilizing and destabilizing mutants and predicting protein stability changes upon single point mutations, which showed an accuracy of 82% and a correlation of 0.70, respectively. In addition, we have systematically analyzed the characteristic features of amino acid residues in 3075 mesophilic and 1609 thermophilic proteins belonging to 9 and 15 families, respectively, and developed methods for discriminating them. The method based on neural network could discrimi-nate them at the 5-fold cross-validation accuracy of 89% in a dataset of 4684 proteins and 91% in a test set of 707 proteins.

Original languageEnglish
Title of host publication3rd IAPR International Conference on Pattern Recognition in Bioinformatics, PRIB 2008
Pages1-12
Number of pages12
DOIs
Publication statusPublished - 2008 Dec 5
Event3rd IAPR International Conference on Pattern Recognition in Bioinformatics, PRIB 2008 - Melbourne, VIC, Australia
Duration: 2008 Oct 152008 Oct 17

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume5265 LNBI
ISSN (Print)0302-9743
ISSN (Electronic)1611-3349

Other

Other3rd IAPR International Conference on Pattern Recognition in Bioinformatics, PRIB 2008
CountryAustralia
CityMelbourne, VIC
Period08-10-1508-10-17

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All Science Journal Classification (ASJC) codes

  • Theoretical Computer Science
  • Computer Science(all)

Cite this

Gromiha, M. M., Huang, L. T., & Lai, L. F. (2008). Sequence based prediction of protein mutant stability and discrimination of thermophilic proteins. In 3rd IAPR International Conference on Pattern Recognition in Bioinformatics, PRIB 2008 (pp. 1-12). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 5265 LNBI). https://doi.org/10.1007/978-3-540-88436-1-1