Literature DB >> 15479106

A sequential molecular mechanics/quantum mechanics study of the electronic spectra of amides.

Nicholas A Besley1, Mark T Oakley, Alexander J Cowan, Jonathan D Hirst.   

Abstract

We report gas-phase electronic spectra of formamide, N-methyformamide, acetamide, and N-methylacetamide at 300 K calculated using a combination of classical molecular dynamics and time-dependent density functional theory (TDDFT). In comparison to excitation energies computed using the global minima structures, the valence npi* and pi(nb)pi* states show a significant red-shift of 0.1-0.35 eV, while smaller shifts are found for the n3s and pi(nb)3s Rydberg states. In this work, we have identified the physical origin of these shifts arising from variations of the molecular structure. We present simple relationships between key geometrical parameters and spectral shifts. Consequently, electronic spectra can be generated directly from ground-state structures, without additional quantum chemical calculations. The electronic spectrum of formamide in aqueous solution is computed using TDDFT using an explicit solvent model. This provides a quantitative determination of the condensed-phase spectrum. In general, this study shows that temperature effects can change the predicted excitation energies significantly and demonstrates how electronic spectra at elevated temperatures can be computed in a computationally efficient way.

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Year:  2004        PMID: 15479106     DOI: 10.1021/ja047603l

Source DB:  PubMed          Journal:  J Am Chem Soc        ISSN: 0002-7863            Impact factor:   15.419


  4 in total

1.  Ultraviolet spectroscopy of protein backbone transitions in aqueous solution: combined QM and MM simulations.

Authors:  Jun Jiang; Darius Abramavicius; Benjamin M Bulheller; Jonathan D Hirst; Shaul Mukamel
Journal:  J Phys Chem B       Date:  2010-06-24       Impact factor: 2.991

2.  Two Dimensional Electronic Correlation Spectroscopy of the npi* and pipi* Protein Backbone Transitions: A Simulation Study.

Authors:  Zhenyu Li; Darius Abramavicius; Wei Zhuang; Shaul Mukamel
Journal:  Chem Phys       Date:  2007-11-15       Impact factor: 2.348

3.  A neural network protocol for electronic excitations of N-methylacetamide.

Authors:  Sheng Ye; Wei Hu; Xin Li; Jinxiao Zhang; Kai Zhong; Guozhen Zhang; Yi Luo; Shaul Mukamel; Jun Jiang
Journal:  Proc Natl Acad Sci U S A       Date:  2019-05-30       Impact factor: 11.205

4.  Geometry and Excitation Energy Fluctuations of NMA in Aqueous Solution with CHARMM, AMBER, OPLS, and GROMOS Force Fields: Implications for Protein Ultraviolet Spectra Simulation.

Authors:  Zhenyu Li; Haibo Yu; Wei Zhuang; Shaul Mukamel
Journal:  Chem Phys Lett       Date:  2008-02-04       Impact factor: 2.328

  4 in total

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