Year 2007,
Volume: 11 Issue: 1, 1 - 7, 09.04.2009
Abstract
Tropoelastin molekülünün en önemli tekrar motifi olan Val–Pro-Gly-Val-Gly diziliminin sıvı içindeki yapısı multikanonik simülasyon yöntemi ile elde edilmistir ve düsük enerjili ve termodinamik olarak kararlı yapıları belirlenmistir. Sıvı teriminin yapılar üstündeki etkisi Ramachandran grafikleri ile analiz edilmistir. Sıvı teriminin moleküle esneklik getirdigi, vakum içinde çok sınırlı bir bölgeye hapsolmus bulunan konfigürasyonların sıvı içinde degistigi gözlenmistir. Sıvı içinde besli-peptidin sahip oldugu en düsük enerji degeri belirlenmistir.
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Year 2007,
Volume: 11 Issue: 1, 1 - 7, 09.04.2009
Abstract
References
- Arkın, H., Çelik, T. 2002. Comparison of the Energy Landscape Paving and Multicanonical Methods in Simulation of the Heptapeptide Deltorphin. Eur. Phys. J. B 30, 577.
- Berg, B. A., Çelik, T. 1992. A New Approach to Spin Glass Simulations. Phys. Rev. Lett. 69, 2292.
- Berrg, B. A., Neuhaus, T. 1992. Multicanonical Ensemble: A New Approach to Simulate First-Order Phase Transitions. Phys. Rev. Lett. 68, 9.
- Berg, B. A., Hansmann, U. H. E., Çelik, T. 1994. Groundstate Properties of the 3d Ising Spin Glass. Phys. Rev. B50, 16444.
- Berg, B. A. 1998. Algorithmic Aspects of Multicanonical Simulations, Nucl. Phys. B (Proc. Suppl.) 63A-C, 982.
- Freyberg, B. von, Schaumann, T., Braun, W. 1993. FANTOM User's Manual and Instructions: ETH Zürich, Zürich.
- Freyberg, B. von, Richmond, T. J., Braun, W. 1993. Surface Area Included in Energy Refinement of Proteins- A Comparative Study on Atomic Parameters. J. Mol. Biol. 233, 275.
- Freyberg, B. von Braun, W. 1993. Minimization of Empirical Energy Functions in Proteins Including Hydrophobic Surface Area Effects. J. Comp. Chem. 14, 510.
- Hansmann, U. H. ve Okamoto, Y. 1999. New Monte Carlo Algorithms for Protein Folding , Current Opinion in Structural Biology 9, 177.
- Hansmann, U. H., Okamoto, Y. 1999. Finite-Size Scaling of Helix-Coil Transitions in the Poly-Alanine Studied by Multicanonical Simulations. J. Chem. Phys. 110, 1267.
- Momany, F. A., McGuire, R. F., Burgess, A. W., Scheraga, H. A. 1975. Empirical Conformational Energies of Polypeptides and Proteins (ECEEP). J. Phys. Chem. 79, 2361.
- Scheraga H. A. 1994. Treatment of hydration in conformational energy calculations on polypeptides and proteins, Structure and reactivity in aqueous solution ACS symposium series, 568, 360-370.
- Sippl, M. J., Nemethy, G., Scheraga, H. A. 1984. Intermoleculer Potentials from Crystal Data Determination of Empirical Potentials for Hydrojen Bonds from Packing Configurations. J. Phys. Chem. 88, 6231.
- Urry, D., T. Trapane, M. Iqbal, C. Venkatachalam, K. Prasad. 1985. Carbon-13 NMR relaxation studies demonstrate an inverse temperature transition in the elastin polypentapeptide. Biochimie. 24, 5182-5189.
- Vasquez, M., Nemethy, G., Scheraga, H. A. 1994. Conformational energy Calculations on Polypeptides and Proteins. Chem. Rev. 94, 2183.
- Yaşar, F., Arkın, H., Çelik, T., Berg, B. A., Meirovitch, H. 2002. Efficiency of the Multicanonical Method as Applied to Peptides of Increasing Size: The Heptapeptide Deltorphin. J. Comp. Chem. 23, 121127.
There are 16 citations in total.
Details
| Primary Language | English |
|---|---|
| Journal Section | TEMEL BİLİMLER |
| Authors | |
| Publication Date | April 9, 2009 |
| Published in Issue | Year 2007 Volume: 11 Issue: 1 |