Potential effects of metal ion induced two-state allostery on the regulatory mechanism of add adenine riboswitch.

ABSTRACT: Riboswitches normally regulate gene expression through structural changes in response to the specific binding of cellular metabolites or metal ions. Taking add adenine riboswitch as an example, we explore the influences of metal ions (especially for K⁺ and Mg²⁺ ions) on the structure and dynamics of riboswitch aptamer (with and without ligand) by using molecular dynamic (MD) simulations. Our results show that a two-state transition marked by the structural deformation at the connection of J12 and P1 (C_J12-P1) is not only related to the binding of cognate ligands, but also strongly coupled with the change of metal ion environments. Moreover, the deformation of the structure at C_J12-P1 can be transmitted to P1 directly connected to the expression p

SUBMITTER: Bao L 

PROVIDER: S-EPMC9588036 | biostudies-literature | 2022 Oct

REPOSITORIES: biostudies-literature