Regensburg 2013 – scientific programme

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BP: Fachverband Biologische Physik

BP 8: Posters: Proteins

BP 8.28: Poster

Monday, March 11, 2013, 17:30–19:30, Poster B2

Distance Dependency And Minimum Amino Acid Alphabets for Decoy Scoring Potentials — •Kay Hamacher — TU Darmstadt

Protein scoring potentials are a valuable tool in molecular biophysics to assess the quality of, e.g., a protein structure. Among those several knowledge-based potentials were developed in the past. However, continuous distance information have not been suggested yet. Here, we propose to close this methodological gap. This becomes possible as the parametrization problem can be formulated as a linear program, for which even large-dimensional instances can be solved efficiently. This allowed us to extended the study into assessing the usability of reduced amino acid alphabets.

[1] S. Pape, F. Hoffgaard, M. Dür, K. Hamacher, "Distance Dependency And Minimum Amino Acid Alphabets for Decoy Scoring Potentials", J. Comp. Chem., 34: 10-20, 2013.