A Linear Time Algorithm for Finding All Maximal Scoring Subsequences
Proceedings of the Seventh International Conference on Intelligent Systems for Molecular Biology
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An important quantity that is measured in NMR spectroscopy is the chemical shift. The interpretation of these data is mostly done by human experts.We present a method, named SimShiftDB, which identifies structural similarities between a protein of unknown structure and a database of resolved proteins based on chemical shift data. To evaluate the performance of our approach, we use a small but very reliable test set and compare our results to those of 123D and TALOS. The evaluation shows that SimShiftDB outperforms 123D in the majority of cases. For a significant part of the predictions made by TALOS, our method strongly reduces the error. SimShiftDB also assesses the statistical significance of each similarity identified.