The Role of Water Occlusion for the Definition of a Protein Binding Hot-Spot

Author(s): Irina S. Moreira

Journal Name: Current Topics in Medicinal Chemistry

Volume 15 , Issue 20 , 2015

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Abstract:

Biological systems rely on the establishment of interactions between biomolecules, which take place in the aqueous environment of the cell. It was already demonstrated that a small set of residues at the interface, Hot-Spots(HS), contributes significantly to the binding free energy. However, these energetic determinants of affinity and specificity are still not fully understood. Moreover, the contribution of water to their HS character is also poorly characterized. In this review, we have focused on the structural data available that support the occlusion of HS from solvent, and therefore the “Oring theory”not only on protein-protein but also on protein-DNA complexes. We also emphasized the use of Solvent Accessible Surface Area (SASA) features in a variety of machine-learning approaches that aim to detect binding HS.

Keywords: Feature-based methods, Hot-spots, O-ring, Solvent accessible surface area, Water, Wet-spots.

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Article Details

VOLUME: 15
ISSUE: 20
Year: 2015
Page: [2068 - 2079]
Pages: 12
DOI: 10.2174/1568026615666150519103733
Price: $65

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