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Dynamical Flexibility Modulates Catalytic Activity of a Thermostable Enzyme: Key Information from Optical Spectroscopy and Molecular Dynamics Simulation

Abstract

Enzymes are dynamical macromolecules and their conformation can be altered via local fluctuations of side chains, large scale loop and even domain motions which are intimately linked to their function. Herein, we have addressed the role of dynamic flexibility in the catalytic activity of a thermostable enzyme almond Beta-Glucosidase (BGL). Optical spectroscopy and classical molecular dynamics (MD) simulation were employed to study thermal stability, catalytic activity and dynamical flexibility of the enzyme. Enzyme assay reveals high thermal stability, and optimum catalytic activity at 333K. Polarization-gated fluorescence anisotropy measurements employing 8-Anilino-1-napthelenesulfonic acid (ANS) have indicated increasing flexibility of the enzyme with an increase in temperature. Study of the atomic 3D structure of the enzyme shows the presence of four loop regions (LRs) strategically placed over the catalytic barrel as a lid. MD simulations have indicated that flexibility of BGL increases concurrently with temperature through different fluctuating characteristics of the enzyme’s LRs. Principal Component Analysis (PCA) and Steered Molecular Dynamics (SMD) simulation manifest the gatekeeper role of the four LRs through their dynamic fluctuations surrounding the active site which controls catalytic activity of BGL.

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Supplementary files

Article information


Submitted
18 Dec 2019
Accepted
12 Feb 2020
First published
13 Feb 2020

Soft Matter, 2020, Accepted Manuscript
Article type
Paper

Dynamical Flexibility Modulates Catalytic Activity of a Thermostable Enzyme: Key Information from Optical Spectroscopy and Molecular Dynamics Simulation

P. Biswas, A. Adhikari, U. Pal, P. Singh, M. Das, T. Saha-Dasgupta, S. Shyam Choudhury, R. Das and S. K. Pal, Soft Matter, 2020, Accepted Manuscript , DOI: 10.1039/C9SM02479D

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