Predicting protein folding pathways

Mohammed J. Zaki, Vinay Nadimpally, Deb Bardhan, Chris Bystroff

Research output: Contribution to journalArticle

18 Citations (Scopus)

Abstract

A structured folding pathway, which is a time ordered sequence of folding events, plays an important role in the protein folding process and hence, in the conformational search. Pathway prediction, thus gives more insight into the folding process and is a valuable guiding tool to search the conformation space. In this paper, we propose a novel 'unfolding' approach to predict the folding pathway. We apply graph-based methods on a weighted secondary structure graph of a protein to predict the sequence of unfolding events. When viewed in reverse this yields the folding pathway. We demonstrate the success of our approach on several proteins whose pathway is partially known.

Original languageEnglish
Pages (from-to)i386-i393
JournalBioinformatics
Volume20
Issue numberSUPPL. 1
DOIs
Publication statusPublished - 1 Dec 2004

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ASJC Scopus subject areas

  • Statistics and Probability
  • Biochemistry
  • Molecular Biology
  • Computer Science Applications
  • Computational Theory and Mathematics
  • Computational Mathematics

Cite this

Zaki, M. J., Nadimpally, V., Bardhan, D., & Bystroff, C. (2004). Predicting protein folding pathways. Bioinformatics, 20(SUPPL. 1), i386-i393. https://doi.org/10.1093/bioinformatics/bth935