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Long-Range Structural Regularities and Collectivity of Folded Proteins

Published online by Cambridge University Press:  31 January 2011

Canan Atilgan ,
Ibrahim Inanc  and
Ali Rana Atilgan
Canan Atilgan
Affiliation:
canan@sabanciuniv.edu, Sabanci University, Faculty of Engineering and Natural Sciences, Istanbul, Turkey
Ibrahim Inanc
Affiliation:
iinanc@su.sabanciuniv.edu, Sabanci University, Faculty of Engineering and Natural Sciences, Istanbul, Turkey
Ali Rana Atilgan
Affiliation:
atilgan@sabanciuniv.edu, Sabanci University, Faculty of Engineering and Natural Sciences, Istanbul, Turkey
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Abstract

Coarse-grained network models of proteins successfully predict equilibrium properties related to collective modes of motion. In this study, the network construction strategies and their systematic application to proteins are used to explain the role of network models in defining the collective properties of the system. The analysis is based on the radial distribution function, a newly defined angular distribution function and the spectral dimensions of a large set of globular proteins. Our analysis shows that after reaching a certain threshold for cut-off distance, network construction has negligible effect on the collective motions and the fluctuation patterns of the residues.

Keywords

macromolecular structurestructuralbiological
Type
Research Article
Information
MRS Online Proceedings Library (OPL) , Volume 1227: Symposium JJ – Multiscale Dynamics in Confining Systems , 2009 , 1227-JJ03-06
Copyright
Copyright © Materials Research Society 2010

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