Abstract
The theme of the workshop, “Non linear excitation in biomolecules”, gests more general questions: Are all complex systems nonlinear? What are excitations in complex systems? Can investigations of proteins lead to new insights into nonlinear excitations? In these notes, I will try to answer these questions partially by first sketching what proteins are and then describing some aspects of their structure, energy landscape, and dynamics. The notes will be brief, but enough references to books and papers with more details will be given.
This is a preview of subscription content, log in via an institution.
Buying options
Tax calculation will be finalised at checkout
Purchases are for personal use only
Learn about institutional subscriptionsPreview
Unable to display preview. Download preview PDF.
References
Stryer L., Biochemistry (Freeman, San Francisco, 1988).
Dickerson R.E. and Geis I. The Structure and Action of Proteins (Benjamin, New York, 1969).
Chan H.S. and Dill K., Physics Today, February 1993, p. 24.
Frauenfelder H. and Wolynes P.G. Physics Today, February 1994, pp. 58–64.
Wüthrich K., NMR of Proteins and Nuclei Acids (Wiley-Interscience, New York, 1986).
Clore G.M. and Gronenborn A.M., Ann. Rev. Biophys. Biophys. Chem. 20 (1991) 29–63.
Branden C. and Tooze J., Introduction to Protein Structure (Garland Publishing Inc. New York, 1991).
Schrödinger E., What is Life? (Cambridge University Press, Cambridge, 1944).
Toulouse G. Comm. Physics 2 (1977) 115–119.
Frauenfelder H., Sligar S.G., and Wolynes P.G. Science 254 (1991) 1598–1603.
Measures of Complexity. L. Peliti and A. Vulpiani, Eds. (Lecture Notes in Physics 314. Springer, Berlin, 1987). Complexity- Metaphors, Models, and Reality. G.A. Cowan, D. Pines, and D. Meltzer, Eds. (Addison-Wesley, Reading, Mass., 1994). Kauffman S.A, Origins of Order (Oxford University Press, Oxford, 1993).
Frauenfelder H., Parak F., and Young R.D. Ann. Rev. Biophys. Biophys. Chem. 17 (1988) 451–479.
Austin R.H., Beeson K.W., Eisenstein L., Frauenfelder H., and Gunsalus I.C., Biochemistry 14 (1975) 5355–5373.
Ehrenstein D. and Nienhaus G.U., Proc. Natl. Acad. Sci. USA 89 (1992) 9681–9685.
Frauenfelder H., Methods In Enzymology, Vol. LIV, Part E. S. Fleischer and L. Packer, Eds. (Academic Press, New York, 1978) pp. 506–532.
Schlichting I., Berendzen J., Phillips G.N., and Sweet R.M., Nature 371 (1994) 808–812.
Frauenfelder H. and Wolynes P.G., Science 229 (1985) 337–345.
Activated Barrier Crossing, G.R. Fleming and P. Hänggi, Eds. (World Scientific, Singapore, 1993).
Steinbach P.J., Chu K., Frauenfelder H., Johnson J.B., Lamb D.C., Nienhaus G.U., Sauke T.B., and Young R.D., Biophys. J. 61 (1992) 235–245.
Frauenfelder H., Petsko G.A., and Tsernoglou D., Nature 280 (1979) 558–563.
Cooper A., Chem. Phys. Lett. 99 (1983) 305–309.
Srajer V., Schomacker K.T., and Champion P.M., Phys. Rev. Lett. 57 (1986) 1267–1270.
Agmon N. Biochemistry 27 (1988) 3507–3511.
Ormos P., Ansari A., Braunstein D., Cowen B.R., Frauenfelder H., Hong M.K., Iben I.E.T., Sauke T.B., Steinbach P.J., and Young R.D., Biophys. J. 57 (1990) 191–199.
Friedrich J. and Haarer D., Angew. Chem. Int. Engl. Ed. 23 (1984) 113–140.
Zollfrank J., Friedrich J., Vanderkooi J.M., and Fidy J., J. Chem. Phys. 95 (1991) 3134–3136.
Friedrich J., Gafert J., Zollfrank J., Vanderkooi J., and Fidy J., Proc. Natl. Acad. Sci. USA 91 (1994) 1029–1033.
Friedrich J. in Methods of Enzymology- Biochemical Spectroscopy. K. Sauer Ed.
Reddy N.R.S., Lyle P.A., and Small G.J., Photosynthesis Research 31 (1992) 167–194.
Jankoviak R., Hayes J.M., and Small G.J., Chem. Rev. 93 (1993) 1471–1502.
Boxer S.G., Gottfried D.S., Lockart D.J., and Middendorf T.R., J. Chem. Phys. 86 (1987) 2439–2441.
Persistent Spectral Hole Burning: Science and Applications. W.E. Moerner Ed.(Springer, Berlin, 1988).
Ansari A., Berendzen J., Bowne S.F., Frauenfelder H., Iben I.E.T., Sauke T.B., Shyamsunder E., and Young R.D., Proc. Natl. Acad. Sci. USA 82 (1985) 5000–5004.
Ansari A., Berendzen J., Braunstein D., Cowen B.R., Frauenfelder H., Hong M.K., Iben I.E.T., Johnson J.B., Ormos P., Sauke T.B., Scholl R., Schulte A., Steinbach J.B., Vittitow J. and Young R.D., Biophys. Chem. 26 (1987) 337–355.
Young R.D., Frauenfelder H., Johnson J.B., Lamb D.C., Nienhaus G.U., Philipp R., and Scholl R., Chem. Phys. 158 (1991) 315–327.
Gersonde K., Sick H., and Wollmer A., Eur. J. Biochem. 15 (1970) 237–244.
Uno T., Nishimura Y., Tsuboi M., Makino R., Iizuka T., and Ishimura Y., J. Biol. Chemistry 262 (1987) 4549–4556.
Sharonov Y.A., Pismensky V.F., and Yarmola E.G., Letters 235 (1988) 63–66.
Zimanyi L., Ormos P., and Lanyi J.K., Biochemistry 28 (1989) 1656–1661.
Honeycutte J.D. and Thirumalai D., Proc. Natl. Acad. Sci. USA 87 (1990) 3526–3529.
Frauenfelder H., Alberding N.A., Ansari A., Braunstein D., Cowen B.R., Hong M.K., Iben I.E.T., Johnson J.B., Luck S., Marden M.C., Mourant J.R., Ormos P., Reinisch L., Scholl R., Schulte A., Shyamsunder E., Sorensen L.B., Steinbach P.J., Xie A., Young R.D., and Yue K.T., J. Phys. Chem. 94 (1990) 1024–1037.
Tian W.D., Sage J.T., and Champion P.M., J. Mol. Biol. 233 (1993) 155–166.
Goldanskii V.I., Krupyanskii Y.F., and Fleurov V.N., Dokl. Akad. Nauk SSSR 272 (1983) 978–981.
Singh G.P., Schink H.J., Lohneysen H., Parak F., and Hunklinger S., Z.Phys.B, 55 (1984) 23–26.
Berlin Y.A., Drobnitsky D.O., Goldanskii V.I., and Kuz’min V.V., Chem. Phys. Letters 189 (1992) 316–320.
Elber R. and Karplus M., Science 235 (1987) 318–321. Garcia A., Present volume.
Noguti T. and Go N., Proteins 5 (1989) 97–138.
Iori G., Marinari E., and Parisi G., Europhys. Lett. 25 (1994) 491–496.
Wolynes P.G. “Aperiodic Crystals: Biology, Chemistry, and Physics in a Fugue with Stretto.” in Proceedings of the International Symposium on Frontiers in Science. Urbana IL 1987, S.C. Chan and P.G. Debrunner, Eds. (American Institute of Physics, New York, 1988) 39–65.
Stein D., Proc. Natl Acad. Sci. USA 82 (1985) 3870–3674.
Derrida B. Phys. Rev. B 24 (1981) 2613–2626.
Bryngelson D.J. and Wolynes P.G., J. Phys. Chem. 93 (1989) 6902–6915.
Onuchic J.N. and Wolynes P.G., J. Chem. Phys. 98 (1993) 2218–2224.
Young R.D. and Powell S.W., J. Chem. Phys. 101 (1994) 1 December.
Author information
Authors and Affiliations
Editor information
Rights and permissions
Copyright information
© 1995 Springer-Verlag Berlin Heidelberg
About this paper
Cite this paper
Frauenfelder, H. (1995). Proteins and the physics of complexity. In: Peyrard, M. (eds) Nonlinear Excitations in Biomolecules. Centre de Physique des Houches, vol 2. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-662-08994-1_13
Download citation
DOI: https://doi.org/10.1007/978-3-662-08994-1_13
Publisher Name: Springer, Berlin, Heidelberg
Print ISBN: 978-3-540-59250-1
Online ISBN: 978-3-662-08994-1
eBook Packages: Springer Book Archive