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| An Amino Acid Substitution Matrix for Protein Conformation Identification | |
Liu X(刘鑫) ; Zheng WM(郑伟谋)
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| Source Publication | Journal of Bioinformatics and Computational Biology
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| 2006 | |
| Volume | 4Issue:3Pages:769-782 |
| ISSN | 0219-7200 |
| Abstract | Amino acid substitution matrices play an essential role in protein sequence alignment, a fundamental task in bioinformatics. Most widely used matrices, such as PAM matrices derived from homologous sequences and BLOSUM matrices derived from aligned segments of PROSITE, did not integrate conformation information in their construction. There are a few structure-based matrices, which are derived from limited data of structure alignment. Using databases PDB_SELECT and DSSP, we create a database of sequence-conformation blocks which explicitly represent sequence-structure relationship. Members in a block are identical in conformation and are highly similar in sequence. From this block database, we derive a conformation-specific amino acid substitution matrix CBSM60. The matrix shows an improved performance in conformational segment search and homolog detection. |
| Subject Area | 力学 |
| Indexed By | 其他 |
| Language | 英语 |
| Document Type | 期刊论文 |
| Identifier | http://dspace.imech.ac.cn/handle/311007/15873 |
| Collection | 力学所知识产出(1956-2008) |
| Recommended Citation GB/T 7714 | Liu X,Zheng WM. An Amino Acid Substitution Matrix for Protein Conformation Identification[J]. Journal of Bioinformatics and Computational Biology,2006,4,3,:769-782. |
| APA | Liu X,&Zheng WM.(2006).An Amino Acid Substitution Matrix for Protein Conformation Identification.Journal of Bioinformatics and Computational Biology,4(3),769-782. |
| MLA | Liu X,et al."An Amino Acid Substitution Matrix for Protein Conformation Identification".Journal of Bioinformatics and Computational Biology 4.3(2006):769-782. |
| Files in This Item: | Download All | |||||
| File Name/Size | DocType | Version | Access | License | ||
| 53131.pdf（272KB） | 期刊论文 | 出版稿 | 开放获取 | CC BY-NC-SA | View Download | |
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