PMID: 9177189Jun 10, 1997Paper

Folding funnels and energy landscapes of larger proteins within the capillarity approximation

Proceedings of the National Academy of Sciences of the United States of America
P G Wolynes

Abstract

The characterization of protein-folding kinetics with increasing chain length under various thermodynamic conditions is addressed using the capillarity picture in which distinct spatial regions of the protein are imagined to be folded or trapped and separated by interfaces. The quantitative capillarity theory is based on the nucleation theory of first-order transitions and the droplet analysis of glasses and random magnets. The concepts of folding funnels and rugged energy landscapes are shown to be applicable in the large size limit just as for smaller proteins. An ideal asymptotic free-energy profile as a function of a reaction coordinate measuring progress down the funnel is shown to be quite broad. This renders traditional transition state theory generally inapplicable but allows a diffusive picture with a transition-state region to be used. The analysis unifies several scaling arguments proposed earlier. The importance of fluctuational fine structure both to the free-energy profile and to the glassy dynamics is highlighted. The fluctuation effects lead to a very broad trapping-time distribution. Considerations necessary for understanding the crossover between the mean field and capillarity pictures of the energy landscapes...Continue Reading

References

Jun 1, 1992·Protein Engineering·J T Ngo, J Marks
Sep 15, 1992·Proceedings of the National Academy of Sciences of the United States of America·P E LeopoldJ N Onuchic
Nov 1, 1987·Proceedings of the National Academy of Sciences of the United States of America·J D Bryngelson, P G Wolynes
Sep 26, 1995·Proceedings of the National Academy of Sciences of the United States of America·T Kiefhaber
Apr 1, 1995·Protein Science : a Publication of the Protein Society·K A DillH S Chan
Apr 11, 1995·Proceedings of the National Academy of Sciences of the United States of America·J N OnuchicN D Socci
Mar 5, 1996·Proceedings of the National Academy of Sciences of the United States of America·A R PanchenkoP G Wolynes
Oct 15, 1996·Proceedings of the National Academy of Sciences of the United States of America·S J HagenW A Eaton
Feb 4, 1997·Proceedings of the National Academy of Sciences of the United States of America·B A ShoemakerP G Wolynes
Feb 1, 1997·Current Opinion in Structural Biology·A R Fersht
Jul 15, 1989·Physical Review A: General Physics·T R KirkpatrickP G Wolynes
Dec 1, 1987·Physical Review. B, Condensed Matter·T R Kirkpatrick, P G Wolynes
Jul 1, 1988·Physical Review. B, Condensed Matter·D S Fisher, D A Huse
Jun 1, 1996·Physical Review. E, Statistical Physics, Plasmas, Fluids, and Related Interdisciplinary Topics·S S PlotkinP G Wolynes
Aug 25, 1986·Physical Review Letters·K W Shung, G D Mahan
Jan 5, 1987·Physical Review Letters·A J Bray, M A Moore
Dec 30, 1996·Physical Review Letters·A M GutinE I Shakhnovich

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Citations

May 17, 2001·Proteins·M Cieplak, T X Hoang
Apr 23, 2004·Current Opinion in Structural Biology·Jan KubelkaWilliam A Eaton
May 14, 1999·Current Opinion in Structural Biology·D Thirumalai, D K Klimov
May 5, 1998·Folding & Design·O Galzitskaya, A V Finkelstein
Jan 16, 1999·Folding & Design·D Thirumalai, D K Klimov
Jul 13, 2006·Biochemistry·Athi N NaganathanVictor Muñoz
Dec 1, 2000·Journal of Biological Physics·M Cieplak, T Xuan Hoang
Aug 12, 1998·Nature Structural Biology·M Gruebele, P G Wolynes
Jun 15, 2011·Physical Chemistry Chemical Physics : PCCP·David De Sancho, Victor Muñoz
Aug 6, 2008·Proceedings of the National Academy of Sciences of the United States of America·Xianghong Qi, John J Portman
Jul 18, 2008·Proceedings of the National Academy of Sciences of the United States of America·Diego U Ferreiro, Peter G Wolynes
Feb 6, 2010·Proceedings of the National Academy of Sciences of the United States of America·Emmanuel TrizacPeter G Wolynes
Apr 27, 2010·Proceedings of the National Academy of Sciences of the United States of America·Athi N Naganathan, Victor Muñoz
Mar 10, 2012·Proceedings of the National Academy of Sciences of the United States of America·Patrick WeinkamAndrej Sali
Sep 29, 2012·Proceedings of the National Academy of Sciences of the United States of America·Jin WangVitor B P Leite
Jun 12, 2013·Proceedings of the National Academy of Sciences of the United States of America·Xiakun ChuJin Wang
Apr 7, 2000·Protein Science : a Publication of the Protein Society·O V GalzitskayaH Nakamura
Mar 3, 2010·Annual Review of Biophysics·D ThirumalaiChangbong Hyeon
Feb 13, 2007·Annual Review of Biophysics and Biomolecular Structure·Victor Muñoz
Mar 12, 2004·Annual Review of Physical Chemistry·M Gruebele
Apr 28, 2001·Annual Review of Physical Chemistry·A A DenizS Weiss
Oct 23, 2010·PloS One·Massimiliano BonomiMichele Parrinello
Jul 7, 2012·PloS One·Sergey A ShiryaevAlex Y Strongin
Dec 18, 2013·PloS One·Thomas J Lane, Vijay S Pande
Jul 23, 2004·The Journal of Chemical Physics·Thomas F Middleton, David J Wales
Mar 3, 2011·The Journal of Chemical Physics·Olivier Collet
Dec 28, 1999·Proceedings of the National Academy of Sciences of the United States of America·T TernströmM Oliveberg
Jun 9, 1999·Proceedings of the National Academy of Sciences of the United States of America·C Wagner, T Kiefhaber
Aug 24, 2005·Proceedings of the National Academy of Sciences of the United States of America·Patrick WeinkamPeter G Wolynes
Apr 5, 2003·Proceedings of the National Academy of Sciences of the United States of America·Steven S Plotkin, Peter G Wolynes
Oct 29, 2003·Proceedings of the National Academy of Sciences of the United States of America·Ruhong Zhou
Apr 18, 1998·Proceedings of the National Academy of Sciences of the United States of America·K K KoretkeP G Wolynes
Sep 30, 1998·Proceedings of the National Academy of Sciences of the United States of America·D Thirumalai
Jun 16, 2007·Proceedings of the National Academy of Sciences of the United States of America·Xianghong Qi, John J Portman
Mar 1, 2006·Proceedings of the National Academy of Sciences of the United States of America·Magnus O LindbergMikael Oliveberg
Dec 26, 2001·Proceedings of the National Academy of Sciences of the United States of America·R ZhouR Germain
Jan 5, 2000·Proceedings of the National Academy of Sciences of the United States of America·R B LaughlinP Wolynes
Dec 20, 2012·Proceedings of the National Academy of Sciences of the United States of America·Sergiy O GarbuzynskiyAlexei V Finkelstein
May 8, 2007·Proceedings of the National Academy of Sciences of the United States of America·Diego U Ferreiro, Elizabeth A Komives
Sep 16, 1998·Proceedings of the National Academy of Sciences of the United States of America·W K OlsonV B Zhurkin
Sep 29, 1999·Proceedings of the National Academy of Sciences of the United States of America·E Alm, D Baker
Apr 29, 1999·Proceedings of the National Academy of Sciences of the United States of America·R I DimaA Maritan
Sep 29, 1999·Proceedings of the National Academy of Sciences of the United States of America·O V Galzitskaya, A V Finkelstein
Mar 4, 2003·Proceedings of the National Academy of Sciences of the United States of America·Elizabeth RhoadesGilad Haran
May 12, 2004·Proceedings of the National Academy of Sciences of the United States of America·Linda Hedberg, Mikael Oliveberg

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