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    • 4. 发明申请
    • METHODS FOR THE DESIGN OF MOLECULAR SCAFFOLDS AND LIGANDS
    • 分子标记和配体设计方法
    • WO2006078228A1
    • 2006-07-27
    • PCT/US2003/006477
    • 2003-03-03
    • PLEXXIKON, INC.HIRTH, Klaus-PeterMILBURN, Michael, V.
    • HIRTH, Klaus-PeterMILBURN, Michael, V.
    • C12Q1/00
    • G06F19/16G01N33/6803G06F19/18G06F19/706
    • The present invention provides methods of designing ligands that specifically bind to target molecules by testing a set of distinct compounds to identify compound that bind to member of a molecular family of interest. Those compounds that show binding activity can be used as a starting point for ligand design. Unlike previous methods, even compounds that bind with only low affinity are of interest and can be used. Common chemical structures of binding molecules including low affinity binding molecules are identified, thereby providing molecular scaffolds. Co-crystals of the protein and the molecular scaffolds can be formed and analyzed by X-ray crystallography to determine the orientation of the scaffold compounds at the binding site of the molecule. Using the orientation information on a scaffold at the binding site of the molecule, chemically tractable structures of the scaffold are identified that are modified to provide ligands that bind to the target molecule with altered binding affinity or specificity to a target molecule or to members of a molecular family. New and useful ligands can therefore be designed in a rational manner and with a minimum investment of resources using the methods provided.
    • 本发明提供了通过测试一组不同的化合物来鉴定与感兴趣的分子家族成员结合的化合物来设计与靶分子特异性结合的配体的方法。 那些显示结合活性的化合物可以用作配体设计的起点。 与以前的方法不同,甚至仅以低亲和力结合的化合物是有意义的并且可以使用。 鉴定包括低亲和力结合分子的结合分子的常见化学结构,从而提供分子支架。 通过X射线晶体学可以形成和分析蛋白质和分子支架的共晶体,以确定支架化合物在分子结合位点的取向。 使用分子的结合位点上的支架上的取向信息,鉴定出支架的化学易溶解结构,其被修饰以提供结合靶分子的配体,其具有改变的对靶分子的结合亲和力或特异性 分子家族。 因此,新的和有用的配体可以以合理的方式设计,并且使用所提供的方法以最小的资源投入。