Entropy connects water structure and dynamics in protein hydration layer
The enzyme Candida Antarctica lipase B (CALB) serves here as a model for understanding connections among hydration layer dynamics, solvation shell structure, and protein surface structure. The structure and dynamics of water molecules in the hydration layer were characterized for regions of the CALB...
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ftpubmed:oai:pubmedcentral.nih.gov:6005386 2023-05-15T13:50:01+02:00 Entropy connects water structure and dynamics in protein hydration layer Dahanayake, Jayangika N. Mitchell-Koch, Katie R. 2018-05-30 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6005386/ http://www.ncbi.nlm.nih.gov/pubmed/29780979 https://doi.org/10.1039/c8cp01674g en eng http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6005386/ http://www.ncbi.nlm.nih.gov/pubmed/29780979 http://dx.doi.org/10.1039/c8cp01674g Article Text 2018 ftpubmed https://doi.org/10.1039/c8cp01674g 2019-06-02T00:08:40Z The enzyme Candida Antarctica lipase B (CALB) serves here as a model for understanding connections among hydration layer dynamics, solvation shell structure, and protein surface structure. The structure and dynamics of water molecules in the hydration layer were characterized for regions of the CALB surface, divided around each α-helix, β-sheet, and loop structure. Heterogeneous hydration dynamics were observed around the surface of the enzyme, in line with spectroscopic observations of other proteins. Regional differences in the structure of the biomolecular hydration layer were found to be concomitant with variations in dynamics. In particular, it was seen that regions of higher density exhibit faster water dynamics. This is analogous to the behavior of bulk water, where dynamics (diffusion coefficients) are connected to water structure (density and tetrahedrality) by excess (or pair) entropy, detailed in the Rosenfeld scaling relationship. Additionally, effects of protein surface topology and hydrophobicity on water structure and dynamics were evaluated using multiregression analysis, showing that topology has a somewhat larger effect on hydration layer structure-dynamics. Concave and hydrophobic protein surfaces favor a less dense and more tetrahedral solvation layer, akin to a more ice-like structure, with slower dynamics. Results show that pairwise entropies of local hydration layers, calculated from regional radial distribution functions, scale logarithmically with local hydration dynamics. Thus, the Rosenfeld relationship describes the heterogeneous structure-dynamics of the hydration layer around the enzyme CALB. These findings raise the question of whether this may be a general principle for understanding the structure-dynamics of biomolecular solvation. Text Antarc* Antarctica PubMed Central (PMC) Physical Chemistry Chemical Physics 20 21 14765 14777 |
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Article Dahanayake, Jayangika N. Mitchell-Koch, Katie R. Entropy connects water structure and dynamics in protein hydration layer |
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The enzyme Candida Antarctica lipase B (CALB) serves here as a model for understanding connections among hydration layer dynamics, solvation shell structure, and protein surface structure. The structure and dynamics of water molecules in the hydration layer were characterized for regions of the CALB surface, divided around each α-helix, β-sheet, and loop structure. Heterogeneous hydration dynamics were observed around the surface of the enzyme, in line with spectroscopic observations of other proteins. Regional differences in the structure of the biomolecular hydration layer were found to be concomitant with variations in dynamics. In particular, it was seen that regions of higher density exhibit faster water dynamics. This is analogous to the behavior of bulk water, where dynamics (diffusion coefficients) are connected to water structure (density and tetrahedrality) by excess (or pair) entropy, detailed in the Rosenfeld scaling relationship. Additionally, effects of protein surface topology and hydrophobicity on water structure and dynamics were evaluated using multiregression analysis, showing that topology has a somewhat larger effect on hydration layer structure-dynamics. Concave and hydrophobic protein surfaces favor a less dense and more tetrahedral solvation layer, akin to a more ice-like structure, with slower dynamics. Results show that pairwise entropies of local hydration layers, calculated from regional radial distribution functions, scale logarithmically with local hydration dynamics. Thus, the Rosenfeld relationship describes the heterogeneous structure-dynamics of the hydration layer around the enzyme CALB. These findings raise the question of whether this may be a general principle for understanding the structure-dynamics of biomolecular solvation. |
format |
Text |
author |
Dahanayake, Jayangika N. Mitchell-Koch, Katie R. |
author_facet |
Dahanayake, Jayangika N. Mitchell-Koch, Katie R. |
author_sort |
Dahanayake, Jayangika N. |
title |
Entropy connects water structure and dynamics in protein hydration layer |
title_short |
Entropy connects water structure and dynamics in protein hydration layer |
title_full |
Entropy connects water structure and dynamics in protein hydration layer |
title_fullStr |
Entropy connects water structure and dynamics in protein hydration layer |
title_full_unstemmed |
Entropy connects water structure and dynamics in protein hydration layer |
title_sort |
entropy connects water structure and dynamics in protein hydration layer |
publishDate |
2018 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6005386/ http://www.ncbi.nlm.nih.gov/pubmed/29780979 https://doi.org/10.1039/c8cp01674g |
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Antarc* Antarctica |
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Antarc* Antarctica |
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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6005386/ http://www.ncbi.nlm.nih.gov/pubmed/29780979 http://dx.doi.org/10.1039/c8cp01674g |
op_doi |
https://doi.org/10.1039/c8cp01674g |
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Physical Chemistry Chemical Physics |
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20 |
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21 |
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14765 |
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14777 |
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1766252760664113152 |