Density functional theory fragment descriptors to quantify the reactivity of a molecular family: application to amino acids.
By using the exact density functional theory, one demonstrates that the value of the local electronic softness of a molecular fragment is directly related to the polarization charge (Coulomb hole) induced by a test electron removed (or added) from (at) the fragment. Our finding generalizes to a chemical group a formal relation between these molecular descriptors recently obtained for an atom in a molecule using an approximate atomistic model [P. Senet and M. Yang, J. Chem. Sci. 117, 411 (2005)]. In addition, a practical ab initio computational scheme of the Coulomb hole and related local descriptors of reactivity of a molecular family having in common a similar fragment is presented. As a blind test, the method is applied to the lateral chains of the 20 isolated amino acids. One demonstrates that the local softness of the lateral chain is a quantitative measure of the similarity of the amino acids. It predicts the separation of amino acids in different biochemical groups (aliphatic, basic, acidic, sulfur contained, and aromatic). The present approach may find applications in quantitative structure activity relationship methodology.
Senet
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Institut Carnot de Bourgogne, UMR 5209 CNRS, Université de Bourgogne, 9 Avenue Alain Savary, F-21078 Dijon Cedex, France. patrick.senet@u-bourgogne.fr
Aparicio
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D000465:Algorithms; D000596:Amino Acids / Q000737:chemistry* / Q000145:classification; D001665:Binding Sites; D003198:Computer Simulation; D008956:Models, Chemical; D008958:Models, Molecular; D011485:Protein Binding
D000596:Amino Acids