Protein hydration shell formation: Dynamics of water in biological systems exhibiting nanoscopic cavities
نویسندگان
چکیده
• The dynamics of nano-cavities in water can be modelled using a two state model. bioactivity proteins an empty aqueous nano-cavity highly compromised. Protein hydration shell formation depends on the biological character solvent. A model describe protein formation. This work explores singular scenarios emerging from nanoscopic cavities, located solutions, that include biomolecules and, as consequence, process biomolecule research presents nano-scale study, performed various systems related with protein-water all-atoms molecular simulations. shows if falls within cavity solution, it will take time, magnitude significant for processes, to rebuild its whole network hydrogen bonds solvent molecules. During isolation time biomolecule, and therefore corresponding bioactivity, seriously In case barstar (radius gyration 1.17 nm) centre cavities radius r 2.5 4.5 nm, diffusion coefficients bulk physiologic (2.4 1.5 ?m 2 /ms, respectively), is found order tens-hundreds picoseconds, temporal range concerning proteins. On other hand, inner has been followed atomic view. required decrease , molecules approaching resembles biomolecule. That resemblance increases those have previously close contact protein. states Isolated taken reference computer Comparison experimental data also provided.
منابع مشابه
Protein dynamics: hydration and cavities.
The temperature-pressure behavior of proteins seems to be unique among the biological macromolecules. Thermodynamic as well as kinetic data show the typical elliptical stability diagram. This may be extended by assuming that the unfolded state gives rise to volume and enthalpy-driven liquid-liquid transitions. A molecular interpretation follows from the temperature and the pressure dependence o...
متن کاملCoupling of protein and hydration-water dynamics in biological membranes.
The dynamical coupling between proteins and their hydration water is important for the understanding of macromolecular function in a cellular context. In the case of membrane proteins, the environment is heterogeneous, composed of lipids and hydration water, and the dynamical coupling might be more complex than in the case of the extensively studied soluble proteins. Here, we examine the dynami...
متن کاملDepth dependent dynamics in the hydration shell of a protein.
We study the dynamics of hydration water/protein association in folded proteins using lysozyme and myoglobin as examples. Extensive molecular dynamics simulations are performed to identify underlying mechanisms of the dynamical transition that corresponds to the onset of amplified atomic fluctuations in proteins. The results indicate that the number of water molecules within a cutoff distance o...
متن کاملDynamical coupling between protein conformational fluctuation and hydration water: Heterogeneous dynamics of biological water
We investigate dynamical coupling between water and amino acid side-chain residues in solvation dynamics by selecting residues often used as natural probes, namely tryptophan, tyrosine and histidine, located at different positions on protein surface and having various degrees of solvent exposure. Such differently placed residues are found to exhibit different timescales of relaxation. The total...
متن کاملsimulation and experimental studies for prediction mineral scale formation in oil field during mixing of injection and formation water
abstract: mineral scaling in oil and gas production equipment is one of the most important problem that occurs while water injection and it has been recognized to be a major operational problem. the incompatibility between injected and formation waters may result in inorganic scale precipitation in the equipment and reservoir and then reduction of oil production rate and water injection rate. ...
ذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
ژورنال
عنوان ژورنال: Journal of Molecular Liquids
سال: 2021
ISSN: ['0167-7322', '1873-3166']
DOI: https://doi.org/10.1016/j.molliq.2021.116584