Skip to main content

Proteins: Interactions and Dynamics

  • Chapter
  • 174 Accesses

Part of the book series: Progress in Mathematics ((NSSA))

Abstract

Enzymes (proteins) have characteristic, stable three-dimensional structures. Despite their apparently miraculous feats of discrimination and catalytic power, enzymes are stabilized and functionally primed by the same physical forces that operate on less glamorous systems such as liquids and solids. Nevertheless, it is important to characterize these forces as they appear to act in proteins since first-principle quantum mechanical calculations on such large systems are entirely impractical. We are faced with inevitable approximations and simplifications when attempting to calculate protein structure and dynamics.

This is a preview of subscription content, log in via an institution.

Buying options

Chapter
USD   29.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD   84.99
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD   109.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Learn about institutional subscriptions

Preview

Unable to display preview. Download preview PDF.

Unable to display preview. Download preview PDF.

References

  • Creighton, Th. E., 1983 “Proteins”, W.H. Freeman & Co. N.Y.

    Google Scholar 

  • Israeïachvi.li, J.N., 1985 “Intermolecular and Surface Forces”, Academic Press, N.Y.

    Google Scholar 

  • Franks, F. (ed.), 1982 “Biophysics of Water”, Wiley-interscience, N.Y.

    Google Scholar 

  • McCammon, J.A. and Harvey, S.C. (1987) “Dynamics of Proteins and Nucleic Acids”, Cambridge University Press, Cambridge.

    Book  Google Scholar 

  • Schulz, G.E. and Schirmer, R.H. (1979) “Principles of Protein Structure”, Springer-Verlag, V.Y.

    Google Scholar 

  • Baker, E.Y. and Hubbard, R.E. Prog. Biophys. Molec. Biol. (1984) 44, 97–179

    CAS  Google Scholar 

  • Hydrogen Bonding in Globular Proteins

    Google Scholar 

  • Cornette, J.L., Cease, K.B., Margalit, H., Sponge, J.L., Berzofsky, J.A. and DeLisi, Ch., J. Mol. Biol. (1987) 195, 659–685

    Google Scholar 

  • Hydrophobicity Scales and Computational Techniques for Detecting Amphipatic Structures in Proteins

    Google Scholar 

  • Eisenberg, D, Wilcox, W. and McLachlan, A.D. J. Cellular Biochem. (1986) 31, 11–17

    Article  CAS  Google Scholar 

  • Hydrophilicity and Amphiphilicity in Protein Structure

    Google Scholar 

  • Hermans, J., Berendsen, H.J.C., van Gunsteren, W.F. and Postma, J.P.M., (1984), Biopolymers 23, 1513–1518

    Article  CAS  Google Scholar 

  • A Consistent Empirical Potential for Water-Protein Interactions Hvidt, A., Ann. Rev. Biopys. (1983) 12, 1–20

    Google Scholar 

  • Interactions of Water with Nonpolar Solutes

    Google Scholar 

  • Némethy, G., Peer, W.J. and Scheraga, H.A., Ann. Rev. Biophys. Bioeng. (1981), 10, 459–497

    Article  Google Scholar 

  • Effect of Protein-Solvent Interactions on Protein Conformation

    Google Scholar 

  • Beeman, D. (1976) J. Comp. Phys. 20, 130–139

    Google Scholar 

  • Some Multistep Methods for Use in Molecular Dynamics Calculations Bennett, Ch. (1975) J. Comp. Phys. 19, 267–279

    Google Scholar 

  • Mass Tensor Molecular Dynamics

    Google Scholar 

  • Binder, K. (ed.) (1979) “Monte Carlo Methods in Statistical Physics”, Springer-Verlag, Berlin

    Google Scholar 

  • van Gunsteren, W.F. (1988) Protein Engineering 2, 5–13

    Article  PubMed  Google Scholar 

  • The Role of Computer Simulation Techniques in Protein Engineering

    Google Scholar 

  • Jacucci, G. and Rahman, A. Il Nuovo Cimento (1984) 4D, 341–356

    Article  Google Scholar 

  • Comparing the Efficiency of Metroplis Monte Carlo and Molecular-Dynamics Methods for Configuration Space Sampling

    Google Scholar 

  • Wood, W.W. and Erpenbeck, J.J. (1976) Ann. Rev. Phys. Chem. 27, 319–348

    Google Scholar 

  • Molecular Dynamics and Monte Carlo Calculations in Statistical Mechanics

    Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

© 1989 Springer Science+Business Media New York

About this chapter

Cite this chapter

Somorjai, R.L. (1989). Proteins: Interactions and Dynamics. In: Cooper, A., Houben, J.L., Chien, L.C. (eds) The Enzyme Catalysis Process. Progress in Mathematics. Springer, Boston, MA. https://doi.org/10.1007/978-1-4757-1607-8_3

Download citation

  • DOI: https://doi.org/10.1007/978-1-4757-1607-8_3

  • Publisher Name: Springer, Boston, MA

  • Print ISBN: 978-1-4757-1609-2

  • Online ISBN: 978-1-4757-1607-8

  • eBook Packages: Springer Book Archive

Publish with us

Policies and ethics