Application of core trace algorithm for determination of protein backbone | Posted on:2004-09-03 | Degree:M.Sc | Type:Thesis | University:Queen's University (Canada) | Candidate:Wan, Yong | Full Text:PDF | GTID:2468390011973214 | Subject:Biology | Abstract/Summary: | | Protein crystallography is one of the most important methods for determining protein structure. However, building the protein structure from the crystallographic data is often a long and difficult process. The critical point analysis is an automatic system to completely interpret the protein electron density map. The analysis represents the crystallographic data as a critical point graph. This graph contains paths which trace the backbone and side chain of the proteins.; The most important part in the critical point analysis is the determination of the critical points in the map. It depends on the creation of a continuous electron density function which specifies the electron density for any point in the map. However, evaluating such a function is difficult because many parameters are needed. This thesis determines the critical points in the map by using the core trace algorithm. It also develops a system to identify the protein backbone from the critical points. The system was tested on both experimental and ideal electron density map. In most of the proteins, more than 80% of the residues in the protein backbone were correctly identified. | Keywords/Search Tags: | Protein, Backbone, Map, Electron density, Trace | | Related items |
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