Volume 2 Supplement 1

5th German Conference on Cheminformatics: 23. CIC-Workshop

Open Access

A theoretical investigation of microhydration of amino acids

  • Catherine Michaux1,
  • J Wouters1,
  • D Jacquemin1 and
  • Eric A Perpète1
Journal of Cheminformatics20102(Suppl 1):P15

https://doi.org/10.1186/1758-2946-2-S1-P15

Published: 04 May 2010

Water plays a role in stabilizing biomolecular structure and facilitating biological function. Water can generate small active clusters and macroscopic assemblies, that are able to transmit information on various scales [1]. Protonation and microhydration of proteins or DNA are of fundamental importance in biochemical processes such as proton transport, water-mediated catalysis, molecular recognition, protein folding, etc. The understanding of these hydration effects at the molecular level requires the characterization of the interactions between biomolecules and their environment. Due to its relevance in many fields, the microhydration process of nucleic acid bases or amino acids has received a widespread attention [2].

In this work, we first describe the microhydration of protonated amino acid (AA), and particularly of protonated glycine (GlyH+) [3][4], alanine (AlaH+) [5] and proline (ProH+) [6]. First a high-level theoretical method was setting up in order to compute the structures and properties of GlyH+-water complexes, Gly being the simplest AA and a suitable model for such a study. Then complexes with more than one water molecule as well as other amino acids (Ala and Pro) were investigated, to extend the validity domain of our computational procedure.

We then investigate a series of complexes made up of a deprotonated (anionic) AA and a single water molecule [7]. Such species have recently been identified with mass spectrometry, allowing meaningful comparisons between theoretical and experimental complexation energies. The selected systems are [Gly-H]-, [Ala-H]-, [Val-H]-, [Asp-H]-, [Gln-H]-, as well as the acetic acid as a model benchmark.

Authors’ Affiliations

(1)
Unité de Chimie Physique Théorique et Structurale, Facultés Universitaires Notre-Dame de la Paix

References

  1. Chaplin MF: Nat Rev Mol Cell Biol. 2006, 7: 861-866. 10.1038/nrm2021.View ArticleGoogle Scholar
  2. de Vries MS, Hobza P: Annu Rev Phys Chem. 2007, 58: 585-612. 10.1146/annurev.physchem.57.032905.104722.View ArticleGoogle Scholar
  3. Michaux C, Wouters J, Jacquemin D, Perpète EA: Chem Phys Lett. 2007, 445: 57-61. 10.1016/j.cplett.2007.07.068.View ArticleGoogle Scholar
  4. Michaux C, Wouters J, Perpète EA, Jacquemin D: J Phys Chem B. 2008, 112: 2430-2438. 10.1021/jp710034r.View ArticleGoogle Scholar
  5. Michaux C, Wouters J, Perpète EA, Jacquemin D: J Phys Chem B. 2008, 112: 9896-9902. 10.1021/jp803476k.View ArticleGoogle Scholar
  6. Michaux C, Wouters J, Perpète EA, Jacquemin D: J Phys Chem B Letters. 2008, 112: 7702-7705.View ArticleGoogle Scholar
  7. Michaux C, Wouters J, Perpète EA, Jacquemin D: J Am Soc Mass Spectrom. 2009, 20: 632-638. 10.1016/j.jasms.2008.11.025.View ArticleGoogle Scholar

Copyright

© Catherine et al; licensee BioMed Central Ltd. 2010

This article is published under license to BioMed Central Ltd.