PL EN


Preferencje help
Widoczny [Schowaj] Abstrakt
Liczba wyników
1999 | 04 | 1 |
Tytuł artykułu

The thermodynamics of biomolecular sequences

Autorzy
Warianty tytułu
Języki publikacji
EN
Abstrakty
EN
A statistical mechanical treatment of biopolymers is presented that includes the sequence information as an internal coordinate. This approach allows an assessment of the contribution of sequence information to the thermodynamic entropy. Even in cases where the sequence composition has no effect on the intersubunit interactions, the sequence composition contributes to the entropy of the system. Using a path integral representation, the canonical partition function can be represented as a product of a polymer configurational path integral and a sequence walk path integral. In most, biological instances the sequence composition influences the potential energy of intersubunit interaction. Consequently, the two path integrals are not separable, but rather "interact" via a sequence-dependent configurational potential. Biological constraints can also be built into the system and these effectively introduce an external potential. In proteins and RNA, the sequence walk occurs in dimensions greater than 3 and, therefore, will be an ideal "polymer". The Markovian nature of this walk can be exploited to show that all the structural information is contained in the sequence. This later effect is a result of the dimensionality of the sequence walk and is not necessarily a result of biological optimization of the system.
Wydawca
-
Rocznik
Tom
04
Numer
1
Opis fizyczny
p.7-18
Twórcy
autor
  • University of Denver, Denver, Colorado 80208-2436, USA
Bibliografia
  • 1. Baldi, P. and Brunak, S. in Bioinformatics: The Machine Learning Approach, MIT Press, Cambridge, USA,1998, 9-11.
  • 2. Strait, B. J. and Dewey, T. G. Biophys. J. 71, (1996) 148-155.
  • 3. Dewey, T. G. Phys. Rev. E 54, (1996) R39-41.
  • 4. Dewey, T. G. Phys. Rev. E 56, (1997) 4545-4552.
  • 5. Dewey, T. G. and DelleDonne, M. J. Theor. Biol. 193, (1998) 593-599.
  • 6. Glansdorff, P. and Prigogine, I. in Thermodynamic Theory of Structure, Stability and Fluctuations, Wiley Interscience, London, 1971, 61-72.
  • 7. Freed, K. F. in Renormalization Group Theory of Macromolecules, John Wiley & Sons, New York, 1987, 20-25.
  • 8. Eigen, M. in Steps towards Life, Oxford University Press, Oxford, 1992.
  • 9. deGennes, P.-G. in Scaling Concepts in Polymer Physics, Cornell University Press, Ithaca, 1979, 45-46.
  • 10. Yamakawa, H. in Modern Theory of Polymer Solutions, Harper & Row, New York, 1971,
  • 11. Feynman, R. P. and Hibbs, A. R. in Quantum Mechanics and Path Integrals, McGraw-Hill, New York, 1965, 321-351.
  • 12. Durbin, R., Eddy, S. R., Krogh, A. and Mitchison, G. in Biological Sequence Analysis, Cambridge University Press, Cambridge, 1998.
  • 13. Cover, T. M. and Thomas, J. A. in Elements of Information Theory, John Wiley & Sons, 1991, 60-70.
  • 14. Garrod, C. in Statistical Mechanics and Thermodynamics, Oxford University Press, New York. 1995, 133-134.
  • 15. Freed, K. F. Adv. Chem. Phys. 22, (1972) 1-128.
Typ dokumentu
Bibliografia
Identyfikatory
Identyfikator YADDA
bwmeta1.element.agro-article-3a93fab5-03b0-49ed-8562-aefd28d0d011
JavaScript jest wyłączony w Twojej przeglądarce internetowej. Włącz go, a następnie odśwież stronę, aby móc w pełni z niej korzystać.