Key intermolecular interactions in the E. coli 70S ribosome revealed by coarse-grained analysis.

ABSTRACT: The ribosome is a very large complex that consists of many RNA and protein molecules and plays a central role in protein biosynthesis in all organisms. Extensive interactions between different molecules are critical to ribosomal functional dynamics. In this work, intermolecular interactions in the Escherichia coli 70S ribosome are investigated by coarse-grained (CG) analysis. CG models are defined to preserve dynamic domains in RNAs and proteins and to capture functional motions in the ribosome, and then the CG sites are connected by harmonic springs, and spring constants are obtained by matching the computed fluctuations to those of an all-atom molecular dynamics (MD) simulation. Those spring constants indicate how strong the interactions are between the ribosomal components, and they are

SUBMITTER: Zhang Z 

PROVIDER: S-EPMC3641354 | biostudies-literature | 2011 Oct

REPOSITORIES: biostudies-literature