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Accuracy of protein hydropathy predictions.

På svenska

Author

  • Satu Jääskeläinen
  • Pentti Riikonen
  • Tapio Salakoski
  • Mauno Vihinen

Summary, in English

Hydropathy is a dominant force in protein folding. Sequence-based hydropathy predictions are widely used, without knowledge about their accuracy and reliability. We investigated the prediction accuracy of 56 hydropathy scales by correlating predicted values with the accessible surface area in known protein structures. Results for different amino acids vary greatly within each scale. We also investigated prediction accuracies of amino acids separately in secondary structural elements and in protein fold families. Despite very low overall correlation, hydropathy predictions can still be used if the shape of the plot is important instead of the prediction values.

Publishing year

2010

Language

English

Pages

735-754

Publication/Series

International Journal of Data Mining and Bioinformatics

Volume

4

Issue

6

Document type

Journal article

Publisher

Inderscience Publishers

Topic

  • Medical Genetics

Keywords

  • Computational Biology: methods
  • Proteins: chemistry
  • Proteins: metabolism

Status

Published

ISBN/ISSN/Other

  • ISSN: 1748-5673