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- W937786713 abstract "Recent reports such as Vision and Change [AAAS, 2009] and A New Biology for the 21st Century [NRC, 2009] have highlighted the need for undergraduate biology curricula that emphasize interdisciplinary approaches, and that focus on key concepts and competencies deemed critical for 21st century biologists. Here we describe a laboratory activity that encompasses these recommendations. The activity bridges biology, physics, computer science, and mathematics, addresses the key concept of Structure and Function, and enhances students’ competencies in computational and mathematical modeling. The activity is centered on Molecular Dynamics, a computer simulation method that is now widely used as a tool for determining the structure and function of proteins. The activity takes place over two lab periods of three hours each and can be carried out with two software packages that are available free of charge. The first lab period is aimed at unpacking the principles and methods used in Molecular Dynamics in a way that is accessible to bioscience students. During this period students are guided through simple physics principles and taught rudimentary programming skills in Python (http://www.python.org/) to simulate the motion of a bound atom. In the second period they extend concepts learned in the first to simulate the change in conformation of a modified protein using VMD/NAMD (http://www.ks.uiuc.edu/)." @default.
- W937786713 created "2016-06-24" @default.
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- W937786713 date "2013-04-01" @default.
- W937786713 modified "2023-09-23" @default.
- W937786713 title "An undergraduate laboratory activity on Molecular Dynamics simulations" @default.
- W937786713 doi "https://doi.org/10.1096/fasebj.27.1_supplement.741.5" @default.
- W937786713 hasPublicationYear "2013" @default.
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