Estimation of Evolutionary Average Hydrophobicity Profile from a Family of Protein Sequences

  • Said Hassan Ahmed
  • Tor Flå
Part of the Lecture Notes in Computer Science book series (LNCS, volume 4774)


Hydrophobicity has long been considered as one of the primary driving forces in the folding of proteins. We discuss here the evolutionary average of the hydrophobicity profile in an aligned family of proteins and found a patchy mean hydrophobicity profile. This is in contrast to Bastolla et al (2005b) results for the large superfamily of globular proteins. The idea is to use singular value decomposition and cavity filtering in order to remove the eigensequences burried in the evolutionary noise


Singular Value Decomposition Scree Plot Boltzmann Lattice Residue Number Amino Acid Type 
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Copyright information

© Springer-Verlag Berlin Heidelberg 2007

Authors and Affiliations

  • Said Hassan Ahmed
    • 1
  • Tor Flå
    • 1
  1. 1.Dept of Mathematics and Statistics, University of Tromsø, 9037 TromsøNorway

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