Twist and Shear in &bgr;-Sheets and &bgr;-Ribbons

ISSN： 0022-2836

Source： Journal of Molecular Biology, Vol.317, Iss.2, 2002-03, pp. : 291-308

Disclaimer: Any content in publications that violate the sovereignty, the constitution or regulations of the PRC is not accepted or approved by CNPIEC.

Previous Menu Next

Abstract

The structures of the &bgr;-sheets and the &bgr;-ribbons have been analysed using high-resolution protein structure data. Systematic asymmetries measured in both parallel and antiparallel &bgr;-structures include the sheet twist and the strand shear. In order to determine the origin of these asymmetries, numerous interactions and correlations were examined. The strongest correlations are observed for residues in antiparallel &bgr;-sheets and &bgr;-ribbons that form non-H-bonded pairs. For these residues, the sheet twist is correlated to the backbone &phgr; angle but not to the &psgr; angle. Our analysis supports the existence of an inter-strand C^H^···O weak H-bond, which, together with the CO···HN H-bond, constitutes a bifurcated H-bond that links neighbouring &bgr;-strands. Residues of &bgr;-sheets and &bgr;-ribbons in high-resolution protein structures form a distinct region of the Ramachandran plot, which is determined by the formation of the bifurcated H-bond, the formation of an intra-strand O···H^ non-bonded polar interaction, and an intra-strand O···C^&bgr; steric clash. Using &bgr;-strands parameterised by &phgr;-&psgr; values from the allowed &bgr;-sheet region of the Ramachandran plot, the shear and the right-hand twist can be reproduced in a simple model of the antiparallel and parallel &bgr;-ribbon that models the bifurcated H-bonds specifically. The conformations of interior residues of &bgr;-sheets are shown to be subsets of the conformations of residues of &bgr;-ribbons.