面影搜索：用于蛋白质数据库（PDB）和电子显微镜数据库（EMDB）中生物分子结构的形状相似性搜索服务。
Omokage search: shape similarity search service for biomolecular structures in both the PDB and EMDB.
作者信息
Suzuki Hirofumi, Kawabata Takeshi, Nakamura Haruki
机构信息
Institute for Protein Research, Osaka University, Suita, Osaka, 565-0871, Japan.
出版信息
Bioinformatics. 2016 Feb 15;32(4):619-20. doi: 10.1093/bioinformatics/btv614. Epub 2015 Oct 27.
UNLABELLED
Omokage search is a service to search the global shape similarity of biological macromolecules and their assemblies, in both the Protein Data Bank (PDB) and Electron Microscopy Data Bank (EMDB). The server compares global shapes of assemblies independent of sequence order and number of subunits. As a search query, the user inputs a structure ID (PDB ID or EMDB ID) or uploads an atomic model or 3D density map to the server. The search is performed usually within 1 min, using one-dimensional profiles (incremental distance rank profiles) to characterize the shapes. Using the gmfit (Gaussian mixture model fitting) program, the found structures are fitted onto the query structure and their superimposed structures are displayed on the Web browser. Our service provides new structural perspectives to life science researchers.
AVAILABILITY AND IMPLEMENTATION
Omokage search is freely accessible at http://pdbj.org/omokage/.
未标注
面影搜索是一项用于在蛋白质数据库（PDB）和电子显微镜数据库（EMDB）中搜索生物大分子及其组装体的全局形状相似性的服务。该服务器比较组装体的全局形状，而不考虑序列顺序和亚基数量。作为搜索查询，用户向服务器输入一个结构ID（PDB ID或EMDB ID），或上传一个原子模型或3D密度图。搜索通常在1分钟内完成，使用一维轮廓（增量距离秩轮廓）来表征形状。使用gmfit（高斯混合模型拟合）程序，将找到的结构拟合到查询结构上，并在网页浏览器上显示它们的叠加结构。我们的服务为生命科学研究人员提供了新的结构视角。
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