Database searching by flexible protein structure alignment
نویسندگان
چکیده
منابع مشابه
Database searching by flexible protein structure alignment.
We have recently developed a flexible protein structure alignment program (FATCAT) that identifies structural similarity, at the same time accounting for flexibility of protein structures. One of the most important applications of a structure alignment method is to aid in functional annotations by identifying similar structures in large structural databases. However, none of the flexible struct...
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If we know the structures of the proteins A and B, and the function of protein A, then if we can detect structural similarity between A and B by producing an alignment between them, it can help us infer functionality of B. The problem of protein structure alignment is essentially similar to the sequence alignment; the fact that we have to do structural alignment in 3-d adds to the complexity of...
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MOTIVATION As the sizes of three-dimensional (3D) protein structure databases are growing rapidly nowadays, exhaustive database searching, in which a 3D query structure is compared to each and every structure in the database, becomes inefficient. We propose a rapid 3D protein structure retrieval system named 'ProtDex2', in which we adopt the techniques used in information retrieval systems in o...
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We develop a new algorithm for the pairwise protein structure alignment. Our algorithm has two phases. The first phase aligns all the possible local regions between two proteins. Each local region of a protein consists of a series of consecutive Cα atoms in the backbone of the protein. The second phase derives a global rigid body transformation that combines some aligned local regions to achiev...
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ژورنال
عنوان ژورنال: Protein Science
سال: 2004
ISSN: 0961-8368,1469-896X
DOI: 10.1110/ps.03602304