Please use this identifier to cite or link to this item: https://doi.org/10.1016/S1093-3263(02)00185-7
Title: Correlation between normal modes in the 20-200 cm-1 frequency range and localized torsion motions related to certain collective motions in proteins
Authors: Cao, Z.W. 
Chen, X. 
Chen, Y.Z. 
Keywords: Flexible region
Fluctuational motion
Hinge motion
Linker
Molecular modeling
Shear motion
Torsion motion
Vibrational motion
Issue Date: Jan-2003
Citation: Cao, Z.W., Chen, X., Chen, Y.Z. (2003-01). Correlation between normal modes in the 20-200 cm-1 frequency range and localized torsion motions related to certain collective motions in proteins. Journal of Molecular Graphics and Modelling 21 (4) : 309-319. ScholarBank@NUS Repository. https://doi.org/10.1016/S1093-3263(02)00185-7
Abstract: In certain biologically relevant collective motions, such as protein domain motions and sub-domain motions, large amplitude movements are localized in one or a few flexible regions consisting of a small number of residues. This paper explores the possible use of normal mode analysis in probing localized vibrational torsion motions in these flexible regions that may be related to certain collective motions. The normal modes of 10 structures of five proteins in different conformation (TRP repressor, calmodulin, calbindin D9k, HIV-1 protease and troponin C), known to have shear or hinge domain or sub-domain motion, respectively, are analyzed. Our study identifies, for each structure, unique normal modes in the 20-200cm-1 frequency range, whose corresponding motions are primarily concentrated in the region where large amplitude torsion movements of a known domain or sub-domain motion occur. This suggests possible correlation between normal modes at 20-200cm-1 frequency range and initial fluctuational motions leading to localized collective motions in proteins, and thus the potential application of normal mode analysis in facilitating the study of biologically important localized motions in biomolecules. © 2002 Elsevier Science Inc. All rights reserved.
Source Title: Journal of Molecular Graphics and Modelling
URI: http://scholarbank.nus.edu.sg/handle/10635/100342
ISSN: 10933263
DOI: 10.1016/S1093-3263(02)00185-7
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