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(Referência obtida automaticamente do Web of Science, por meio da informação sobre o financiamento pela FAPESP e o número do processo correspondente, incluída na publicação pelos autores.)

Diffusion of tRNA inside the ribosome is position-dependent

Texto completo
Autor(es):
Yang, Huan [1] ; Bandarkar, Prasad [1] ; Horne, Ransom [1] ; Leite, Vitor B. P. [2] ; Chahine, Jorge [2] ; Whitford, Paul C. [1]
Número total de Autores: 6
Afiliação do(s) autor(es):
[1] Northeastern Univ, Dept Phys, Dana Res Ctr 111, 360 Huntington Ave, Boston, MA 02115 - USA
[2] Sao Paulo State Univ UNESP, IBILCE, Sao Jose Do Rio Preto - Brazil
Número total de Afiliações: 2
Tipo de documento: Artigo Científico
Fonte: Journal of Chemical Physics; v. 151, n. 8 AUG 28 2019.
Citações Web of Science: 0
Resumo

In recent years, there has been a growing interest to quantify the energy landscape that governs ribosome dynamics. However, in order to quantitatively integrate theoretical predictions and experimental measurements, it is essential that one has a detailed understanding of the associated diffusive properties. Here, all-atom explicit-solvent simulations (50 mu s of aggregate sampling) predict that the diffusion coefficient of a tRNA molecule will depend on its position within the ribosome. Specifically, during aa-tRNA accommodation (i.e., the process by which tRNA enters the ribosome), the apparent diffusion coefficient decreases by approximately an order of magnitude. By comparing these to values obtained with an energetically ``smooth{''} model, we show that the observed nonuniform behavior likely arises from electrostatic and solvation interactions between the tRNA and ribosome. These calculations also reveal the hierarchical character of ribosomal energetics, where steric interactions induce a large-scale free-energy barrier, and short-scale roughness determines the rate of diffusive movement across the landscape. Published under license by AIP Publishing. (AU)

Processo FAPESP: 16/19766-1 - Relevo de superfícies de energia de macromoléculas biológicas com aplicações em biotecnologia e em biomedicina
Beneficiário:Vitor Barbanti Pereira Leite
Linha de fomento: Auxílio à Pesquisa - Regular
Processo FAPESP: 14/50739-5 - Elucidating the role of disorder during biomolecular fuction
Beneficiário:Vitor Barbanti Pereira Leite
Linha de fomento: Auxílio à Pesquisa - Regular
Processo FAPESP: 18/18668-1 - Visualização do relevo de superfícies de energia de macromoléculas biológicas
Beneficiário:Vitor Barbanti Pereira Leite
Linha de fomento: Bolsas no Exterior - Pesquisa