title: Protein folding mediated by solvation: water expulsion and formation of the hydrophobic core occur after the structural collapse.
abstract: The interplay between structure-search of the native structure and desolvation in protein folding has been explored using a minimalist model. These results support a folding mechanism where most of the structural formation of the protein is achieved before water is expelled from the hydrophobic core. This view integrates water expulsion effects into the funnel energy landscape theory of protein folding. Comparisons to experimental results are shown for the SH3 protein. After the folding transition, a near-native intermediate with partially solvated hydrophobic core is found. This transition is followed by a final step that cooperatively squeezes out water molecules from the partially hydrated protein core.
authors.affiliation: Department of Physics, University of California at San Diego, La Jolla, CA 92093-0319, USA.
authors.forename: Margaret S
authors.initials: MS
authors.lastname: Cheung
authors.forename: Angel E
authors.initials: AE
authors.lastname: García
authors.forename: José N
authors.initials: JN
authors.lastname: Onuchic
mesh_terms: D000818:Animals; D055592:Biophysical Phenomena; D001703:Biophysics; D029721:Drosophila Proteins; D019476:Insect Proteins / Q000737:chemistry; D007700:Kinetics; D008958:Models, Molecular; D017510:Protein Folding; D012997:Solvents; D013816:Thermodynamics; D014867:Water; D018909:src Homology Domains
chemical_list: D029721:Drosophila Proteins; D019476:Insect Proteins; D012997:Solvents; C080530:drk protein, Drosophila; D014867:Water