Literature DB >> 17914464

Non-covalent interactions in biomacromolecules.

Jirí Cerný1, Pavel Hobza.   

Abstract

Non-covalent interactions play an important role in chemistry, physics and especially in biodisciplines. They determine the structure of biomacromolecules such as DNA and proteins and are responsible for the molecular recognition process. Theoretical evaluation of interaction energies is difficult; however, perturbation as well as variation (supermolecular) methods are briefly described. Accurate interaction energies can be obtained by complete basis set limit calculations providing a large portion of correlation energy is covered (e.g. by performing CCSD(T) calculations). The role of H-bonding and stacking interactions in the stabilisation of DNA, oligopeptides and proteins is described, and the importance of London dispersion energy is shown.

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Year:  2007        PMID: 17914464     DOI: 10.1039/b704781a

Source DB:  PubMed          Journal:  Phys Chem Chem Phys        ISSN: 1463-9076            Impact factor:   3.676


  34 in total

1.  The assessment and application of an approach to noncovalent interactions: the energy decomposition analysis (EDA) in combination with DFT of revised dispersion correction (DFT-D3) with Slater-type orbital (STO) basis set.

Authors:  Wei Gao; Huajie Feng; Xiaopeng Xuan; Liuping Chen
Journal:  J Mol Model       Date:  2012-05-29       Impact factor: 1.810

2.  On the role of Hoogsteen:Hoogsteen interactions in RNA: ab initio investigations of structures and energies.

Authors:  Purshotam Sharma; Mohit Chawla; Sitansh Sharma; Abhijit Mitra
Journal:  RNA       Date:  2010-03-30       Impact factor: 4.942

3.  Noncovalent interactions in extended systems described by the effective fragment potential method: theory and application to nucleobase oligomers.

Authors:  Debashree Ghosh; Dmytro Kosenkov; Vitalii Vanovschi; Christopher F Williams; John M Herbert; Mark S Gordon; Michael W Schmidt; Lyudmila V Slipchenko; Anna I Krylov
Journal:  J Phys Chem A       Date:  2010-11-10       Impact factor: 2.781

4.  Homodimers of cytosine and 1-methylcytosine. A DFT study of geometry, relative stability and H-NMR shifts in gas-phase and selected solvents.

Authors:  Guvanchmyrat Paytakov; Leonid Gorb; Andriy Stepanyugin; Svitlana Samiylenko; Dmytro Hovorun; Jerzy Leszczynski
Journal:  J Mol Model       Date:  2014-02-20       Impact factor: 1.810

5.  Modeling the noncovalent interactions at the metabolite binding site in purine riboswitches.

Authors:  Purshotam Sharma; Sitansh Sharma; Mohit Chawla; Abhijit Mitra
Journal:  J Mol Model       Date:  2009-01-10       Impact factor: 1.810

6.  Anion-π interactions in complexes of proteins and halogen-containing amino acids.

Authors:  Sunčica Z Borozan; Mario V Zlatović; Srđan Đ Stojanović
Journal:  J Biol Inorg Chem       Date:  2016-02-24       Impact factor: 3.358

7.  Parameterization of a B3LYP specific correction for non-covalent interactions and basis set superposition error on a gigantic dataset of CCSD(T) quality non-covalent interaction energies.

Authors:  Severin T Schneebeli; Arteum D Bochevarov; Richard A Friesner
Journal:  J Chem Theory Comput       Date:  2011-03-08       Impact factor: 6.006

Review 8.  Cooperativity Principles in Self-Assembled Nanomedicine.

Authors:  Yang Li; Yiguang Wang; Gang Huang; Jinming Gao
Journal:  Chem Rev       Date:  2018-04-25       Impact factor: 60.622

9.  A theoretical investigation of the characteristics of hydrogen/halogen bonding interactions in dibromo-nitroaniline.

Authors:  Mehdi D Esrafili
Journal:  J Mol Model       Date:  2012-12-08       Impact factor: 1.810

10.  DNA-protein π-interactions in nature: abundance, structure, composition and strength of contacts between aromatic amino acids and DNA nucleobases or deoxyribose sugar.

Authors:  Katie A Wilson; Jennifer L Kellie; Stacey D Wetmore
Journal:  Nucleic Acids Res       Date:  2014-04-17       Impact factor: 16.971

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