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ImprovingProteinSecondary-
Improving Protein Secondary-Structure Prediction by
Predicting Ends of Secondary-Structure Segments
Uros Midic1 A. Keith Dunker2 Zoran Obradovic1*
1Center for Information Science and Technology 2Center for Computational Biology and Bioinformatics
Temple University Indiana University School of Medicine
1805 N. Broad St., 303 Wachman Hall 714 North Senate Avenue, Suite 250
Philadelphia, PA 19129 USA Indianapolis, IN 46202 USA
Abstract – Motivated by known preferences for certain amino improvements in predicting intrinsically unstructured regions
acids in positions around a-helices, we developed neural in proteins [14].
network-based predictors of both N and C a-helix ends, which The success on structured/unstructured boundary prediction
achieved about 88% accuracy. We applied a similar approach for encouraged us to consider the possibility of predicting the
predicting the ends of three types of secondary structure seg-
ends of a-helices; the latter problem has the advantage of a
ments. The predictors for the ends of H, E and C segments were
then used to create input for protein secondary-structure much larger set of data compared to the former. Here we test
prediction. By incorporating this new type of input, we a-helix/non-a-helix boundary prediction using
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