Design of folded peptides

Abstract

The construction of complex protein folds relies on the precise conversion of a linear polypeptide chain into a compact 3-dimensional structure. The interplay of forces that link sequence and folding is intricate and yet to be firmly elucidated. Examination of protein 3-dimensional structures suggests that complex tertiary folds and quaternary associations can be deconstructed into a limited number of secondary structural elements, such as strands, helices, and turns, which are assembled using loosely structured loops. The stability of a specific fold is determined by tertiary interactions between residues which are distant in sequence. De novo design of existing or novel protein folds demands a thorough understanding of the rules that underlie protein structure and stability.