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首页> 外文期刊>Journal of Bioinformatics and Computational Biology >IMPROVING THE PERFORMANCE OF PROTEIN THREADING USING INSERTION/DELETION FREQUENCY ARRAYS
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IMPROVING THE PERFORMANCE OF PROTEIN THREADING USING INSERTION/DELETION FREQUENCY ARRAYS

机译:使用插入/删除频率阵列提高蛋白质脱线的性能

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摘要

As a protein evolves, not every part of the amino acid sequence has an equal probability of being deleted or for allowing insertions, because not every amino acid plays an equally important role in maintaining the protein structure. However, the most prevalent models in fold recognition methods treat every amino acid deletion and insertion as equally probable events. We have analyzed the alignment patterns for homologous and analogous sequences to determine patterns of insertion and deletion, and used that information to determine the statistics of insertions and deletions for different amino acids of a target sequence. We define these patterns as insertion/deletion (indel) frequency arrays (IFAs). By applying IFAs to the protein threading problem, we have been able to improve the alignment accuracy, especially for proteins with low sequence identity. We have also demonstrated that the application of this information can lead to an improvement in fold recognition.
机译:随着蛋白质的进化,并不是氨基酸序列的每个部分都具有被删除或允许插入的相同可能性,因为并非每个氨基酸在维持蛋白质结构中都起着同等重要的作用。但是,折叠识别方法中最流行的模型将每个氨基酸的缺失和插入都视为同等可能的事件。我们已经分析了同源和类似序列的比对模式,以确定插入和缺失的模式,并使用该信息来确定靶序列不同氨基酸的插入和缺失的统计数据。我们将这些模式定义为插入/删除(插入/删除)频率阵列(IFA)。通过将IFA用于蛋白质穿线问题,我们已经能够提高比对准确性,尤其是对于具有低序列同一性的蛋白质。我们还证明了此信息的应用可以导致折叠识别的改善。

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