Sequence-Structure Alignment Using a Statistical Analysis of Core Models and Dynamic Programming
Loading...
Date
2002
Journal Title
Journal ISSN
Volume Title
Publisher
Universitätsbibliothek Dortmund
Abstract
The expanding availability of protein data enforces the application of empirical methods necessary to recognize protein structures. In this paper a sequence-structure alignment method is described and applied to various Ubiquitin-like folded Ras-binding domains. On the basis of two probability functions that evaluate similarities between the occurrence of amino-acids in the primary and secondary protein structure, different versions of simple scoring functions are proposed. The application of the program ’PLACER’ that uses a dynamic programming approach enables the search for an optimal sequence-structure alignment and the prediction of the secondary structure.
Description
Table of contents
Keywords
sequence-structure alignment, core model, dynamic programming, secondary structure prediction