Non-sequential and Flexible Protein Structure Alignment
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چکیده
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منابع مشابه
Strategies of non-sequential protein structure alignments.
Due to the large number of available protein structure alignment algorithms, a lot of effort has been made to define robust measures to evaluate their performances and the quality of generated alignments. Most quality measures involve the number of aligned residues and the RMSD. In this work, we analyze how these two properties are influenced by different residue assignment strategies as employ...
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MOTIVATION The three dimensional tertiary structure of a protein at near atomic level resolution provides insight alluding to its function and evolution. As protein structure decides its functionality, similarity in structure usually implies similarity in function. As such, structure alignment techniques are often useful in the classifications of protein function. Given the rapidly growing rate...
متن کاملResidue Contexts: Non-sequential Protein Structure Alignment Using Structural and Biochemical Features
The study of non-sequential alignments, with different connectivity of the aligned fragments in the proteins being compared can offer a more complete picture of the structural, evolutionary and functional relationship between two proteins, than what is possible purely with sequential alignments. The design of techniques for non-sequential protein structure alignment therefore, constitutes an im...
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A fundamental issue in studies of protein structure and function is how to identify the conserved common core in multiple protein structures. The existing algorithms work well for proteins family such as those in HOMSTRAD but are not satisfactory for general multiple structure alignment problems, especially in some challenging cases, such as the occurrence of circular permutations. In this pape...
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Protein structure alignment is the problem of determining an assignment between the amino-acid residues of two given proteins in a way that maximizes a measure of similarity between the two superimposed protein structures. By identifying geometric similarities, structure alignment algorithms provide critical insights into protein functional similarities. Existing structure alignment tools adopt...
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