Paper Citing NAMD - Abstract
Niccolai, N.; Spiga, O.; Bernini, A.; Scarselli, M.; Ciutti, A.; Fiaschi, I.; Chiellini, S.; Molinari, H.; Temussi, P.A.
NMR studies of protein hydration and TEMPOL accessibility
JOURNAL OF MOLECULAR BIOLOGY, 332:437-447, SEP 12 2003
Understanding the mechanisms of the interaction between a protein surface and its outer molecular environment is of primary relevance for the rational design of new drugs and engineered proteins. Protein surface accessibility is emerging as a new dimension of Structural Biology, since NMR methods have been developed to follow how molecules, even those different from physiological ligands, preferentially approach specific regions of the protein surface. Hen egg-white lysozyme, a paradigmatic example of the state of the art of protein structure and dynamics, has been selected as a model system to study protein surface accessibility. Bound water and soluble spin-labels have been used to investigate the interaction of this enzyme, both free and bound to the inhibitor (NAG)(3), with its molecular environment. No tightly bound water molecules were found inside the enzyme active site, which, conversely, appeared as the most exposed to visits from the soluble paramagnetic probe TEMPOL. From the presented set of data, an integrated view of lysozyme surface accessibility towards water and TEMPOL molecules is obtained. (C) 2003 Elsevier Ltd. All rights reserved.
