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Publication Citation: Matching Observed Alpha Helix Lengths to Predicted Secondary Structure

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Author(s): Brian D. Cloteaux; Nadezhda Serova;
Title: Matching Observed Alpha Helix Lengths to Predicted Secondary Structure
Published: November 01, 2009
Abstract: Because of the complexity in determining the 3D structure of a protein, the use of partial information determined from experimental techniques can greatly reduce the overall computational expense. We investigate the problem of matching experimentally observed lengths of helices to the predicted secondary structure of a protein. We give a simple and fast algorithm for producing a library of possible solutions. Then we test our algorithm by performing a series of computational experiments of predicting the alpha helix placement of proteins with an already known order. These tests seem to demonstrate that our method, if given a good prediction of the protein s secondary structure, can generate high quality lists of potential placements of the helix length onto the protein sequences.
Proceedings: Computational Structural Bioinformatics Workshop
Pages: pp. 113 - 119
Location: Washington, DC
Dates: November 1-4, 2009
Keywords: protein structure; randomized algorithm
Research Areas: Scientific Computing
PDF version: PDF Document Click here to retrieve PDF version of paper (159KB)