Research Projects for Fellows, June 20 - August 6, 2005
P5: Effect of Packing Density on Protein Dynamics
| Title: |
Effect of Packing Density on Protein Dynamics |
| Mentors: |
Dr. Robert Jernigan |
| Description: |
The function of a protein is influenced not only by the amino acid specificity, but also by its shape and its packing density.
These latter properties are embedded in the recently developed elastic network theories in a simple way to predict how proteins
move to perform their function. Although successful, the elastic network models may benefit from more complex expressions of packing
density to provide an improved reproduction of X-ray crystallographic data. In this project, the intern will aim at understanding
elastic network theory, modify available computer code to write his/her own code, and apply an improved version of the successful
theory to a protein database.
The intern is expected to be familiar with computational languages (FORTRAN is preferable).
When there is a lack of knowledge, motivation and interest will suffice.
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| Web Resources: |
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| References: |
Atilgan AR, Durell SR, Jernigan RL, Demirel MC, Keskin O, Bahar I., Anisotropy of fluctuation dynamics of proteins with an elastic network model, Biophysical Journal, 80(1):505-15, 2001 |
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