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Local sequence of protein β‐strands influences twist and bend angles
Authors:Kazuo Fujiwara  Shinichi Ebisawa  Yuka Watanabe  Hiromi Toda  Masamichi Ikeguchi
Institution:Department of Bioinformatics, Soka University, , Hachioji, Tokyo, 192–8577 Japan
Abstract:β‐Sheet twisting is thought to be mainly determined by interstrand hydrogen bonds with little contribution from side chains, but some proteins have large, flat β‐sheets, suggesting that side chains influence β‐structures. We therefore investigated the relationship between amino acid composition and twists or bends of β‐strands. We calculated and statistically analyzed the twist and bend angles of short frames of β‐strands in known protein structures. The most frequent twist angles were strongly negatively correlated with the proportion of hydrophilic amino acid residues. The majority of hydrophilic residues (except serine and threonine) were found in the edge regions of β‐strands, suggesting that the side chains of these residues likely do not affect β‐strand structure. In contrast, the majority of serine, threonine, and asparagine side‐chains in β‐strands made contacts with a nitrogen atom of the main chain, suggesting that these residues suppress β‐strand twisting. Proteins 2014; 82:1484–1493. © 2014 Wiley Periodicals, Inc.
Keywords:statistical analysis  protein design  large flat β  ‐sheet  effect of side chain to the β  ‐sheet  interstrand hydrogen bond
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