Diffusion-collision model algorithms for protein folding kinetics |
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Authors: | Vasilkoski Zlatko Weaver David L |
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Affiliation: | Molecular Modeling Laboratory, Department of Physics, Tufts University, Medford, Massachusetts 02155, USA. |
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Abstract: | The diffusion-collision model (DCM) of protein folding is described qualitatively and quantitatively. The input parameters required to perform a calculation are explained, and the output data are outlined. Three examples are given of calculating DCM folding kinetics: the Engrailed Homeodomain (a three-helix bundle with three helical microdomains, pdb code 1ENH), protein G (with three microdomains having a beta-hairpin-alpha-helix-beta-hairpin motif, pdb code 1PGA), and apomyoglobin (with eight helices and seven strong microdomain-microdomain pairings). |
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Keywords: | diffusion–collision protein folding microdomains |
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