The identification and the elimination of clashes in the structure of an early-stage intermediate in the protein folding process

• Autorzy: Baster Z.
• Języki publikacji: EN

Abstrakty

EN

The model (under consideration) to simulate the protein folding process assumes two steps: early stage (ES) and late stage (LS). The first is assumed to define the preliminary structure, which when applied to an optimization procedure, may produce the proper structure of the protein. However, the ES model produces the structures with clashes. This work demonstrates the possible solution to remove clashes before proceeding to the LS. Additionally, the presented solution describes mathematically the precession phenomenon, which might be useful in other fields of studies aside from protein folding such as medical imaging, quantum physics, and astronomy.

Słowa kluczowe

EN

early stage; molecular clash; protein folding; protein structure

• Wydawca: Uniwersytet Jagielloński - Collegium Medicum ; Index Copernicus Sp. z o.o.
• Czasopismo: Bio-Algorithms and Med-Systems
• Rocznik: 2013
• Tom: Vol. 9, no. 4
• Strony: 199--207
• Opis fizyczny: Bibliogr. 11 poz., rys., wykr.

Twórcy

autor

Baster Z.

• Faculty of Biochemistry, Biophysics and Biotechnology, Department of Physical Biochemistry, Jagiellonian University, Gronostajowa 7, 30-387 Cracow, Poland
• Faculty of Physics and Applied Computer Science, AGH University of Science and Technology, 30 Mickiewicza Avenue, 30-059 Cracow, Poland

Bibliografia

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• 7. Kalinowska B, Alejster P, Sapała K, Baster Z, Roterman I. Hypothetical in silico model of the early-stage intermediate in protein folding. J Mol Model 2013;19:4259-69.
• 8. Zhou AQ, O'Hern CS, Regan L. Revisiting the Ramachandran plot from a new angle. Prot Sci 2011;20:1166-71.
• 9. Baster Z. The identification and the elimination of clashes in the structure of an early-stage intermediate in the protein folding process. Master's thesis. Cracow: AGH University of Science and Technology, 2013. Available at: http://www.zbaster.com/mastersthesisbaster.pdf. Accessed on28Oct2013.
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