Introduction to Protein Crystallography-Inside of a Black Box-(3)Background of Structural Modeling: Model Building

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  • YAO Min
    Faculty of Advanced Life Science, Hokkaido University

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  • タンパク質結晶構造解析入門―ブラックボックスの中身―（３）モデリングの裏側をのぞいてみよう　　分子モデルの構築
  • ニュウモン コウザ タンパクシツ ケッショウ コウゾウ カイセキ ニュウモン ブラックボックス ノ ナカミ 3 モデリング ノ ウラガワ オ ノゾイテ ミヨウ ブンシ モデル ノ コウチク

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Protein model building is a process in which the electron density map is interpreted and protein model is constructed. Resolution limit of protein crystal, inherent thermal vibration of atoms, and experimental errors in data collection and in phasing, make interpreting electron density more difficult. Nevertheless, it is possible to build protein model with the help of sequence information and the stereo-chemical knowledge of amino acids and peptide bond. Recently, automatic methods for model binding have been developed based on the pattern recognition techniques. In this manuscript, we learn how the electron density map is interpreted and how the building process is automated.

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