BPPred: a Web-based computational tool for predicting biophysical parameters of proteins

Publikation: Bidrag til tidsskriftTidsskriftartikelForskningfagfællebedømt

We exploit the availability of recent experimental data on a variety of proteins to develop a Web-based prediction algorithm (BPPred) to calculate several biophysical parameters commonly used to describe the folding process. These parameters include the equilibrium m-values, the length of proteins, and the changes upon unfolding in the solvent-accessible surface area, in the heat capacity, and in the radius of gyration. We also show that the knowledge of any one of these quantities allows an estimate of the others to be obtained, and describe the confidence limits with which these estimations can be made. Furthermore, we discuss how the kinetic m-values, or the Beta Tanford values, may provide an estimate of the solvent-accessible surface area and the radius of gyration of the transition state for protein folding. Taken together, these results suggest that BPPred should represent a valuable tool for interpreting experimental measurements, as well as the results of molecular dynamics simulations.
OriginalsprogEngelsk
TidsskriftProtein Science
Vol/bind16
Udgave nummer1
Sider (fra-til)125-34
Antal sider10
ISSN0961-8368
DOI
StatusUdgivet - 2007
Eksternt udgivetJa

ID: 37849103