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    • 6. 发明申请
    • Molecular docking methods for assessing complementarity of combinatorial libraries to biotargets
    • 用于评估组合文库对生物靶的互补性的分子对接方法
    • US20030228624A1
    • 2003-12-11
    • US10320752
    • 2002-12-16
    • Pharmacopeia, Inc.
    • David J. DillerKenneth M. Merz JR.
    • G01N033/53G06G007/48G06G007/58
    • C07K1/047
    • A high-throughput molecular docking facility is presented for screening combinatorial libraries to identity binding ligands and ultimately pharmaceutical compounds. The facility employs a pre-coking conformational search to generate multiple solution conformations of a ligand. The molecular docking facility includes: generating a binding site image of the target molecule, the binding site image to atoms in at least one solution conformation of the multiple solution conformations of the ligand to obtain at least one ligand postion relative to the target molecule in a ligand-target molecule complex formation; and optimizing the at least one ligand position while allowing translation, orientation and rotatable bonds of the ligand to vary, and while holding the target molecule fixed. Docking results are clustered using as a metric the rms deviation between the core of two docked molecules. A library is rated as to complementarity to the target molecule according to the relative number of ligands in the top cluster.
    • 提出了一种高通量分子对接设备,用于筛选组合文库以鉴定结合配体和最终的药物化合物。 该设施采用预焦化构象搜索以产生配体的多个溶液构象。 分子对接设备包括:产生靶分子的结合位点图像,以配体的多个溶液构象的至少一个溶液构象中的原子的结合位点图像,以获得相对于靶分子的至少一个配体位点 配体 - 靶分子复合体形成; 并优化至少一个配体位置,同时允许配体的翻译,取向和可旋转键发生变化,同时保持靶分子固定。 对接结果使用两个对接分子的核心之间的均方根偏差作为度量进行聚类。 根据顶部簇中的配体的相对数量,文库被评定为与靶分子的互补性。