Calmodulation meta-analysis: predicting calmodulin binding via canonical motif clustering.
Calmodulation meta-analysis: predicting calmodulin binding via canonical motif clustering.
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DOI：
10.1085/jgp.201311140
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发表时间：
2014-07
期刊：
影响因子：
--
通讯作者：
Kobertz WR
中科院分区：
文献类型：
--
作者：
Mruk K;Farley BM;Ritacco AW;Kobertz WR
从钙调素肽结构的靶序列的计算分析表明，钙调素往往结合到序列与多个重叠的典型钙调素结合基序。钙结合蛋白钙调蛋白（CaM）直接结合到膜转运蛋白，以调节其功能，以响应细胞内钙浓度的变化。由于钙调素识别并结合到各种各样的目标序列，识别钙调素结合位点是困难的，需要密集的序列凝视和广泛的生化分析。在这里，我们描述了一个简单的计算脚本，快速识别典型的钙调素结合基序内的氨基酸序列。使用该脚本对来自高分辨率CaM-肽结构的靶序列进行分析，发现CaM通常与具有多个重叠的典型CaM结合基序的序列结合。在荟萃分析中添加正电荷的方法，产生了一种识别给定序列中潜在的钙调素结合域的工具。为了允许用户在感兴趣的蛋白质中搜索钙调素结合基序，进行荟萃分析，然后将结果与蛋白质数据库中存储的靶肽-钙调素结构进行比较，我们创建了一个网站和在线数据库。这些工具和分析的可用性将促进钙调素相关的离子通道和膜转运蛋白的研究设计。
Computational analysis of target sequences from calmodulin–peptide structures indicates that calmodulin often binds to sequences with multiple overlapping canonical calmodulin-binding motifs. The calcium-binding protein calmodulin (CaM) directly binds to membrane transport proteins to modulate their function in response to changes in intracellular calcium concentrations. Because CaM recognizes and binds to a wide variety of target sequences, identifying CaM-binding sites is difficult, requiring intensive sequence gazing and extensive biochemical analysis. Here, we describe a straightforward computational script that rapidly identifies canonical CaM-binding motifs within an amino acid sequence. Analysis of the target sequences from high resolution CaM–peptide structures using this script revealed that CaM often binds to sequences that have multiple overlapping canonical CaM-binding motifs. The addition of a positive charge discriminator to this meta-analysis resulted in a tool that identifies potential CaM-binding domains within a given sequence. To allow users to search for CaM-binding motifs within a protein of interest, perform the meta-analysis, and then compare the results to target peptide–CaM structures deposited in the Protein Data Bank, we created a website and online database. The availability of these tools and analyses will facilitate the design of CaM-related studies of ion channels and membrane transport proteins.
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影响因子：
4.8
作者：
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