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    Methods and systems for predicting protein-ligand coupling specificities
    2.
    发明申请
    Methods and systems for predicting protein-ligand coupling specificities 审中-公开
    用于预测蛋白质 - 配体偶联特异性的方法和系统

    公开(公告)号：US20060008831A1

    公开(公告)日：2006-01-12

    申请号：US11176621

    申请日：2005-07-08

    申请人： Kodangattil Sreekumar ,  Youping Huang ,  Mark Pausch ,  Kamalakar Gulukota

    发明人： Kodangattil Sreekumar ,  Youping Huang ,  Mark Pausch ,  Kamalakar Gulukota

    IPC分类号： C12Q1/68 ,  G01N33/53 ,  G06F19/00

    CPC分类号： G01N33/5041 ,  G01N33/566 ,  G01N2333/726 ,  G01N2500/00 ,  G16B20/00 ,  G16B30/00 ,  G16B40/00

    摘要： The invention provides methods and systems for predicting or evaluating protein-ligand coupling specificities. A pattern recognition model can be trained by selected sequence segments of training proteins which have a specified ligand coupling specificity. Each selected sequence segment is believed to include amino acid residue(s) that may contribute to the ligand coupling specificity of the corresponding training protein. Sequence segments in a protein of interest can be similarly selected and used to query the trained model to determine if the protein of interest has the same ligand coupling specificity as the training proteins. In one embodiment, the pattern recognition model employed is a hidden Markov model which is trained by concatenated cytosolic domains of GPCRs which have interaction preference to a specified class of G proteins. This trained model can be used to evaluate G protein coupling specificity of orphan GPCRs.

    摘要翻译： 本发明提供了用于预测或评估蛋白质 - 配体偶联特异性的方法和系统。 模式识别模型可以通过具有特定配体偶联特异性的训练蛋白质的选定序列片段来训练。 认为每个所选择的序列片段包括可能有助于相应培养蛋白质的配体偶联特异性的氨基酸残基。 可以类似地选择感兴趣的蛋白质中的序列片段，并用于查询训练的模型，以确定感兴趣的蛋白质是否具有与训练蛋白质相同的配体偶联特异性。 在一个实施例中，所采用的模式识别模型是隐藏的马尔科夫模型，其通过与特定类型的G蛋白质具有相互作用偏好的GPCR的连接的胞质结构域进行训练。 该训练模型可用于评估孤儿GPCRs的G蛋白偶联特异性。

    Potassium channels, nucleotide sequences encoding them, and methods of using same
    5.
    发明申请
    Potassium channels, nucleotide sequences encoding them, and methods of using same 审中-公开
    钾通道，编码它们的核苷酸序列及其使用方法

    公开(公告)号：US20060110792A1

    公开(公告)日：2006-05-25

    申请号：US11178538

    申请日：2005-07-12

    申请人： Mark Pausch ,  Laura Price

    发明人： Mark Pausch ,  Laura Price

    IPC分类号： C07K14/705 ,  C07H21/04 ,  C12P21/06

    CPC分类号： C07K14/705 ,  C07K14/43545 ,  C07K14/43581 ,  C07K14/47 ,  C12Q1/025 ,  G01N33/6872

    摘要： This invention relates generally to a new family of potassium channels. More particularly, the present invention relates to the cloning and characterization of a family of distinct trans-membrane potassium ion channels, characterization of such channels, newly identified polynucleotide sequences, polypeptides encoded by such sequences, expression vectors capable of heterologous expression of such polynucleotide sequences, transformed host cells containing the expression vectors, and assay methods and kits therefor for determining the expression of heterologous nucleotide sequences encoding all or a portion of said potassium channels in host cells, chromosome mapping, diagnostic methodologies and kits therefore. Genes encoding potassium channels representative of this family were cloned from Drosophila melanogaster, Caenorhabditis elegans, human and mouse ESTs, and human brain, heart and kidney cDNA libraries. More particularly, the invention arises in part from the determination that the DNA sequences of these genes encode a structurally distinct potassium channel whose molecular architecture is characterized by four membrane spanning domains and two putative pore forming domains.

    摘要翻译： 本发明一般涉及新的钾通道家族。 更具体地说，本发明涉及不同跨膜钾离子通道家族的克隆和表征，这些通道的表征，新鉴定的多核苷酸序列，由这些序列编码的多肽，能够异源表达这种多核苷酸序列的表达载体 ，含有表达载体的转化的宿主细胞，以及用于确定宿主细胞中编码所有或部分所述钾通道的异源核苷酸序列的表达的测定方法和试剂盒，因此染色体图谱，诊断方法和试剂盒。 从黑腹果蝇，秀丽隐杆线虫，人和小鼠EST以及人脑，心脏和肾脏cDNA文库克隆了代表该家族的钾通道的基因。 更具体地说，本发明的部分原因在于确定这些基因的DNA序列编码结构不同的钾通道，其分子结构的特征在于四个膜跨越结构域和两个推定的成孔结构域。

    Potassium channels, nucleotide sequences encoding them, and methods of using same
    7.
    发明申请
    Potassium channels, nucleotide sequences encoding them, and methods of using same 审中-公开
    钾通道，编码它们的核苷酸序列及其使用方法

    公开(公告)号：US20050032165A1

    公开(公告)日：2005-02-10

    申请号：US10870492

    申请日：2004-06-18

    申请人： Mark Pausch

    发明人： Mark Pausch

    IPC分类号： C07K14/435 ,  C07K14/47 ,  C07K14/705 ,  C12N15/82 ,  C12Q1/02 ,  G01N33/68 ,  C12P21/02 ,  C07H21/04

    CPC分类号： G01N33/6872 ,  C07K14/43545 ,  C07K14/43581 ,  C07K14/47 ,  C07K14/705 ,  C12N15/8261 ,  C12Q1/025 ,  Y02A40/146

    摘要： This invention relates generally to a new family of potassium channels, whose molecular architecture is characterized by four membrane spanning domains and two putative pore forming domains. More particularly, the present invention relates to the cloning and characterization of mutants of this family of distinct trans-membrane potassium ion channels which confer improved inward potassium flux under acidic conditions, characterization of such channels, newly identified polynucleotide sequences, polypeptides encoded by such sequences, expression vectors capable of heterologous expression of such polynucleotide sequences, transformed host cells containing the expression vectors, and assay methods and kits therefor for determining the expression of heterologous nucleotide sequences encoding all or a portion of said potassium channels in host cells, chromosome mapping, diagnostic methodologies and kits therefore.

    摘要翻译： 本发明一般涉及新的钾通道家族，其分子结构的特征在于四个膜跨越结构域和两个推定的成孔结构域。 更具体地，本发明涉及克隆和表征这种不同的跨膜钾离子通道家族的突变体，其在酸性条件下赋予改善的向内钾通量，表征这些通道，新鉴定的多核苷酸序列，由这些序列编码的多肽 能够异源表达这些多核苷酸序列的表达载体，含有表达载体的转化宿主细胞，以及用于确定编码宿主细胞中所有或部分所述钾通道的异源核苷酸序列的表达的测定方法和试剂盒，染色体测定， 因此诊断方法和工具包。