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Ben-Tai, Nir (Ed.)Abstract Peptide selfâassembly into amyloid fibrils provides numerous applications in drug delivery and biomedical engineering applications. We augment our previouslyâestablished computational screening technique along with experimental biophysical characterization to discover 7âmer peptides that selfâassemble into âparallelβâsheetsâ, that is,βâsheets with NâterminusâtoâCâterminus đ˝âstrand vectors oriented in parallel. To accomplish the desiredβâstrand organization, we applied thePepADamino acid sequence design software to the Classâ1 crossâβspine defined by Sawaya et al. This molecular configuration includes two layers of parallelβâsheets stacked such that NâterminusâtoâCâterminus vectors are oriented antiparallel for molecules on adjacentβâsheets. The first cohort ofPepADidentified peptides were examined for their fibrillation behavior in DMD/PRIME20 simulations, and the top performing sequence was selected as a prototype for a subsequent round of sequence refinement. The two rounds of design resulted in a library of eight 7âmer peptides. In DMD/PRIME20 simulations, five of these peptides spontaneously formed fibrilâlike structures with a predominantly parallel đ˝âsheet arrangement, two formed fibrilâlike structure with <50% in parallel đ˝âsheet arrangement and one remained a random coil. Among the eight candidate peptides produced by PepAD and DMD/PRIME20, five were synthesized and purified. All five assembled into amyloid fibrils composed of parallelβâsheets based on Fourier transform infrared spectroscopy, circular dichroism, electron microscopy, and thioflavinâT fluorescence spectroscopy measurements.more » « less
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