CLEMAPS: Multiple alignment of protein structures based on conformational letters
文献类型：期刊论文
| 作者 | Liu, Xin; Zhao, Ya-Pu; Zheng, Wei-Mou ; Zheng, WM , Acad Sinica, Inst Theoret Phys, Beijing 100080, Peoples R China
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| 刊名 | PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
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| 出版日期 | 2008 |
| 卷号 | 71期号:2页码:728-736 |
| 关键词 | Substitution Matrix Algorithm Database Classification Similarities Backbone Families |
| ISSN号 | 0887-3585 |
| 英文摘要 | CLEMAPS is a tool for multiple alignment of protein structures. It distinguishes itself from other existing algorithms for multiple structure alignment by the use of conformational letters, which are discretized states of 3D segmental structural states. A letter corresponds to a cluster of combinations of three angles formed by C-alpha pseudobonds of four contiguous residues. A substitution matrix called CLESUM is available to measure the similarity between any two such letters. The input 3D structures are first converted to sequences of conformational letters. Each string of a fixed length is then taken as the center seed to search other sequences for neighbors of the seed, which are strings similar to the seed. A seed and its neighbors form a center-star, which corresponds to a fragment set of local structural similarity shared by many proteins. The detection of center-stars using CLESUM is extremely efficient. Local similarity is a necessary, but insufficient, condition for structural alignment. Once center-stars are found, the spatial consistency between any two stars are examined to find consistent star duads using atomic coordinates. Consistent duads are later joined to create a core for multiple alignment, which is further polished to produce the final alignment. The utility of CLEMAPS is tested on various protein structure ensembles. |
| 学科主题 | Physics |
| URL标识 | 查看原文 |
| WOS记录号 | WOS:000254263400019 |
| 公开日期 | 2012-08-02 |
| 源URL | [http://ir.itp.ac.cn/handle/311006/5539]  |
| 专题 | 理论物理研究所_理论物理所1978-2010年知识产出 |
| 通讯作者 | Zheng, WM , Acad Sinica, Inst Theoret Phys, Beijing 100080, Peoples R China |
| 推荐引用方式 GB/T 7714 | Liu, Xin,Zhao, Ya-Pu,Zheng, Wei-Mou,et al. CLEMAPS: Multiple alignment of protein structures based on conformational letters[J]. PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS,2008,71(2):728-736. |
| APA | Liu, Xin,Zhao, Ya-Pu,Zheng, Wei-Mou,&Zheng, WM , Acad Sinica, Inst Theoret Phys, Beijing 100080, Peoples R China.(2008).CLEMAPS: Multiple alignment of protein structures based on conformational letters.PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS,71(2),728-736. |
| MLA | Liu, Xin,et al."CLEMAPS: Multiple alignment of protein structures based on conformational letters".PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS 71.2(2008):728-736. |
入库方式： OAI收割
来源：理论物理研究所
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