Literature DB >> 22872015

On the importance and origin of aromatic interactions in chemistry and biodisciplines.

Kevin E Riley1, Pavel Hobza.   

Abstract

Aromatic systems contain both σ- and π-electrons, which in turn constitute σ- and π-molecular orbitals (MOs). In discussing the properties of these systems, researchers typically refer to the highest occupied and lowest unoccupied MOs, which are π MOs. The characteristic properties of aromatic systems, such as their low ionization potentials and electron affinities, high polarizabilities and stabilities, and small band gaps (in spectroscopy called the N → V1 space), can easily be explained based on their electronic structure. These one-electron properties point to characteristic features of how aromatic systems interact with each other. Unlike hydrogen bonding systems, which primarily interact through electrostatic forces, complexes containing aromatic systems, especially aromatic stacked pairs, are predominantly stabilized by dispersion attraction. The stabilization energy in the benzene dimer is rather small (~2.5 kcal/mol) but strengthens with heteroatom substitution. The stacked interaction of aromatic nucleic acid bases is greater than 10 kcal/mol, and for the most stable stacked pair, guanine and cytosine, it reaches approximately 17 kcal/mol. Although these values do not equal the planar H-bonded interactions of these bases (~29 kcal/mol), stacking in DNA is more frequent than H-bonding and, unlike H-bonding, is not significantly weakened when passing from the gas phase to a water environment. Consequently, the stacking of aromatic systems represents the leading stabilization energy contribution in biomacromolecules and in related nanosystems. Therefore stacking (dispersion) interactions predominantly determine the double helical structure of DNA, which underlies its storage and transfer of genetic information. Similarly, dispersion is the dominant contributor to attractive interactions involving aromatic amino acids within the hydrophobic core of a protein, which is critical for folding. Therefore, understanding the nature of aromatic interactions, which depend greatly on quantum mechanical (QM) calculations, is of key importance in biomolecular science. This Account shows that accurate binding energies for aromatic complexes should be based on computations made at the (estimated) CCSD(T)/complete basis set limit (CBS) level of theory. This method is the least computationally intensive one that can give accurate stabilization energies for all common classes of noncovalent interactions (aromatic-aromatic, H-bonding, ionic, halogen bonding, charge-transfer, etc.). These results allow for direct comparison of binding energies between different interaction types. Conclusions based on lower-level QM calculations should be considered with care.

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Year:  2012        PMID: 22872015     DOI: 10.1021/ar300083h

Source DB:  PubMed          Journal:  Acc Chem Res        ISSN: 0001-4842            Impact factor:   22.384


  22 in total

Review 1.  Implications of aromatic-aromatic interactions: From protein structures to peptide models.

Authors:  Kamlesh Madhusudan Makwana; Radhakrishnan Mahalakshmi
Journal:  Protein Sci       Date:  2015-10-07       Impact factor: 6.725

2.  Effect of external electric field on C-X ··· π halogen bonds.

Authors:  Ahmet Tokatlı; Fatmagül Tunç; Fatih Ucun
Journal:  J Mol Model       Date:  2019-02-08       Impact factor: 1.810

3.  Extending Halogen-based Medicinal Chemistry to Proteins: IODO-INSULIN AS A CASE STUDY.

Authors:  Krystel El Hage; Vijay Pandyarajan; Nelson B Phillips; Brian J Smith; John G Menting; Jonathan Whittaker; Michael C Lawrence; Markus Meuwly; Michael A Weiss
Journal:  J Biol Chem       Date:  2016-11-14       Impact factor: 5.157

Review 4.  Urea-aromatic interactions in biology.

Authors:  Shampa Raghunathan; Tanashree Jaganade; U Deva Priyakumar
Journal:  Biophys Rev       Date:  2020-02-17

5.  Pyridine Derivative of the Natural Alkaloid Berberine as Human Telomeric G4-DNA Binder: A Solution and Solid-State Study.

Authors:  Francesco Papi; Carla Bazzicalupi; Marta Ferraroni; Giulia Ciolli; Paolo Lombardi; Asma Yasmeen Khan; Gopinatha Suresh Kumar; Paola Gratteri
Journal:  ACS Med Chem Lett       Date:  2020-02-07       Impact factor: 4.345

6.  Organic chemistry. A data-intensive approach to mechanistic elucidation applied to chiral anion catalysis.

Authors:  Anat Milo; Andrew J Neel; F Dean Toste; Matthew S Sigman
Journal:  Science       Date:  2015-02-13       Impact factor: 47.728

7.  Prediction of molecular interactions and physicochemical properties relevant for vasopressin V2 receptor antagonism.

Authors:  Ania de la Nuez Veulens; Yoanna M Álvarez Ginarte; Rolando E Rodríguez Fernandez; Fabrice Leclerc; Luis A Montero Cabrera
Journal:  J Mol Model       Date:  2022-01-07       Impact factor: 1.810

8.  Determination of two-photon absorption in nucleobase analogues: a QR-DFT perspective.

Authors:  Thomas Malcomson
Journal:  Photochem Photobiol Sci       Date:  2022-02-18       Impact factor: 3.982

9.  The accuracy of quantum chemical methods for large noncovalent complexes.

Authors:  Robert Sedlak; Tomasz Janowski; Michal Pitoňák; Jan Rezáč; Peter Pulay; Pavel Hobza
Journal:  J Chem Theory Comput       Date:  2013-08-13       Impact factor: 6.006

10.  A computational study of the interaction between dopamine and DNA/RNA nucleosides.

Authors:  Katarína Skúpa; Milan Melicherčík; Ján Urban
Journal:  J Mol Model       Date:  2015-08-25       Impact factor: 1.810

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