engleski

The Preference Functions Method for Predicting Protein Helical Turns with Membrane Propensity

The prediction of secondary structure conformation of membrane-buried segments of integral membrane proteins is done in this work by using the method of preference functions (Juretic et al. In Theoretical and Computational Chemistry ; Parkanyi, C., Ed. ; Elsevier Science: Amsterdam, 1998 ; Vol 5, Chapter 13, p 405). The method is here extended by predicing sequence location, hydrophobic moments, and transmembrane orientation of helical segments. Independent evaluation of the method with ubiquinol-cytochrome c reductase subunits is performed before some already known details of the crystal structure of that respiratory complex are released. Tests with potassium channels revealed that characteristic supersecondary structure in the pore region can be recognized by performing the analysis with preference functions and with hydrophobic moment treshold functions.

prediction ; protein structure ; transmembrane helix ; preference functions

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