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Comparing EC and GO Model in Protein Folding Simulation

Mohseni Kabir, Arman | 2013

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  1. Type of Document: M.Sc. Thesis
  2. Language: Farsi
  3. Document No: 44534 (04)
  4. University: Sharif University of Technology
  5. Department: Physics
  6. Advisor(s): Ejtehadi, Mohammad Reza
  7. Abstract:
  8. Proteins are one of the most important bio-molecules. they play an important role in every aspect of living organisms. The information for synthesizing these important molecules is coded in the DNA of that organism. After the coded data is read and transcribed by some other bio-molecules that are proteins themselves, the protein is made and starts it's biological function in different organs. For this reason, investigating properties of proteins helps us to better understand how life works. Understanding the dynamics of proteins, which are some polymers with special energy landscape properties, has attracted the attention of physicists in the 20th century. Proteins are chains of amino acids. After being synthesized, this chain of amino acids transforms to a unique three dimensional structure in biological conditions. The specific function of proteins depend on this unique three dimensional structure. The process in which an open chain of amino acids transforms to it's final three dimensional structure is called protein folding. In recent decades it has been proved that some of the proteins self-assemble to their final three dimensional structure in biological conditions, a property which is different from normal polymers. Different models has been proposed for simulating protein folding. The most accurate model is molecular dynamics which has a very high computational cost. Many properties of energy landscape of protein folding process can be observed in simpler coarse grained models which have lower computational costs. In this thesis ] investigate protein folding with two different coarse grained models, EC and GO, using Monte Carlo method, next we compare these two models
  9. Keywords:
  10. Proteins ; Protein Folding ; Coarse Grained Model ; GO Model ; EC Model

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