betascan probable β-amyloids identified by pairwise probabilistic analysisbetascan可能β-amyloids被成对地概率分析.pdfVIP

BETASCAN: Probable b-amyloids Identified by Pairwise Probabilistic Analysis 1,2,3 3 4 2,5 3,6 Allen W. Bryan, Jr. , Matthew Menke , Lenore J. Cowen , Susan L. Lindquist *, Bonnie Berger * 1 Harvard/MIT Division of Health Science and Technology, Bioinformatics and Integrative Genomics, Cambridge, Massachusetts, United States of America, 2 Whitehead Institute for Biomedical Research, Cambridge, Massachusetts, United States of America, 3 MIT Computer Science and Artificial Intelligence Laboratory, The Stata Center, Cambridge, Massachusetts, United States of America, 4 Department of Computer Science, Tufts University, Medford, Massachusetts, United States of America, 5 Howard Hughes Medical Institute, Chevy Chase, Maryland, United States of America, 6 Department of Applied Mathematics, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States of America Abstract Amyloids and prion proteins are clinically and biologically important b-structures, whose supersecondary structures are difficult to determine by standard experimental or computational means. In addition, significant conformational heterogeneity is known or suspected to exist in many amyloid fibrils. Recent work has indicated the utility of pairwise probabilistic statistics in b-structure prediction. We develop here a new strategy for b-structure prediction, emphasizing the determination of b-strands and pairs of b-strands as fundamental units of b-structure. Our program, BETASCAN, calculates likelihood scores for potential b-strands and strand-pairs based on correlations observed in parallel b-sheets. The program then determines the strands and