Campus Units

Biochemistry, Biophysics and Molecular Biology, Roy J. Carver Department of, Baker Center for Bioinformatics and Biological Statistics

Document Type

Article

Publication Version

Accepted Manuscript

Publication Date

2008

Journal or Book Title

Journal of Chemical Theory and Computation

Volume

4

Issue

10

First Page

1757

Last Page

1767

DOI

10.1021/ct800223g

Abstract

The Anisotropic Network Model (ANM) is used to study motions of the 30S small ribosomal subunit. The effect of the absence of certain subunits on the motions of the remaining partial structures was investigated by removing one protein, pairs of proteins and selected sets of proteins at a time. Our results show that the removal of some proteins doesn’t change the large-scale dynamics of the partial structures, but the removal of certain subunits does cause significant changes in motion of the remaining structure, and these changes can be reverted by the removal of other subunits, which indicates interdependence between motions of various parts of the 30S ribosomal structure. We further found that the subunits showing such interdependence have strong positive correlation of their motions, which indicates that these subunits function as a unit block in the 30S small ribosomal subunit. Dynamically interdependent subunit pairs identified in this paper are consistent with previous experimental observations that suggested dimerization of those subunits.

Comments

This is a manuscript of an article published as Yan, Aimin, Yongmei Wang, Andrzej Kloczkowski, and Robert L. Jernigan. "Effects of protein subunits removal on the computed motions of partial 30S structures of the ribosome." Journal of chemical theory and computation 4, no. 10 (2008): 1757-1767. doi:10.1021/ct800223g. Posted with permission.

Copyright Owner

American Chemical Society

Language

en

File Format

application/pdf

Published Version

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