Molecular mechanism of the hydration of Candida antarctica lipase B in the gas phase: Water adsorption isotherms and molecular dynamics simulations.
نویسندگان
چکیده
Hydration is a major determinant of activity and selectivity of enzymes in organic solvents or in gas phase. The molecular mechanism of the hydration of Candida antarctica lipase B (CALB) and its dependence on the thermodynamic activity of water (a(w)) was studied by molecular dynamics simulations and compared to experimentally determined water sorption isotherms. Hydration occurred in two phases. At low water activity, single water molecules bound to specific water binding sites at the protein surface. As the water activity increased, water networks gradually developed. The number of protein-bound water molecules increased linearly with a(w), until at a(w)=0.5 a spanning water network was formed consisting of 311 water molecules, which covered the hydrophilic surface of CALB, with the exception of the hydrophobic substrate-binding site. At higher water activity, the thickness of the hydration shell increased up to 10 A close to a(w)=1. Above a limit of 1600 protein-bound water molecules the hydration shell becomes unstable and the formation of pure water droplets occurs in these oversaturated simulation conditions. While the structure and the overall flexibility of CALB was independent of the hydration state, the flexibility of individual loops was sensitive to hydration: some loops, such as those part of the substrate-binding site, became more flexible, while other parts of the protein became more rigid upon hydration. However, the molecular mechanism of how flexibility is related to activity and selectivity is still elusive.
منابع مشابه
Intermediate Production of Mono- and Diolein by an Immobilized Lipase from Candida antarctica
Lipase from Candida antarctica, fixed on macroporous acrylic resin, has been used for the intermediate production of mono- and diolein by hydrolysis of triolein. The effect of altering concentrations of triolein and glycerol and the function of the molecular sieve on the hydrolysis reaction of triolein were investigated. The highest hydrolysis yield was observed for the utmost concentration of ...
متن کاملProtein dynamics in organic media at varying water activity studied by molecular dynamics simulation.
In nonaqueous enzymology, control of enzyme hydration is commonly approached by fixing the thermodynamic water activity of the medium. In this work, we present a strategy for evaluating the water activity in molecular dynamics simulations of proteins in water/organic solvent mixtures. The method relies on determining the water content of the bulk phase and uses a combination of Kirkwood-Buff th...
متن کاملEffect of Water Clustering on the Activity of Candida antarctica Lipase B in Organic Medium
The effect of initial water activity of MTBE (methyl tert-butyl ether) medium on CALB (Candida antarctica lipase B) catalyzed esterification reaction is investigated using experimental methods and classical molecular dynamics (MD) simulations. The experimental kinetic studies show that the initial reaction rate of CALB-catalyzed esterification reaction between butyric acid and ethanol decreases...
متن کاملGyration Radius and Energy Study at Different Temperatures for Acetylcholine Receptor Protein in Gas Phase by Monte Carlo, Molecular and Langevin Dynamics Simulations
The determination of gyration radius is a strong research for configuration of a Macromolecule. Italso reflects molecular compactness shape. In this work, to characterize the behavior of theprotein, we observe quantities such as the radius of gyration and the average energy. We studiedthe changes of these factors as a function of temperature for Acetylcholine receptor protein in gasphase with n...
متن کاملA Molecular Simulation of Natural Gas Dehydration by 3A Zeolite Nanostructure
The adsorption and separation properties of 3A zeolite are investigated by using Grand Canonical Monte Carlo (GCMC) simulation. To obtain the adsorption isotherms of water, methyl mercaptan, and methane on 3A zeolite, COMPASS Force Filed is used. The adsorption isotherms of the pure components and the ternary mixtures of water, methyl mercaptan, and methane on 3A zeolites are calculated. The Si...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
برای دانلود متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید
ثبت ناماگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید
ورودعنوان ژورنال:
- Chembiochem : a European journal of chemical biology
دوره 10 18 شماره
صفحات -
تاریخ انتشار 2009