IR Spectra of Crystalline Nucleobases: Combination of Periodic Harmonic Calculations with Anharmonic Corrections Based on Finite Models

被引:20
作者
Bec, Krzysztof B. [1 ,2 ]
Grabska, Justyna [1 ]
Czarnecki, Miroslaw A. [2 ]
Huck, Christian W. [1 ]
Wojcik, Marek. J. [3 ]
Nakajima, Takahito [4 ]
Ozaki, Yukihiro [5 ]
机构
[1] Univ Innsbruck, Inst Analyt Chem, A-6020 Innsbruck, Austria
[2] Univ Wroclaw, Fac Chem, F Joliot Curie 14, PL-50383 Wroclaw, Poland
[3] Jagiellonian Univ, Fac Chem, Gronostajowa 2, PL-30387 Krakow, Poland
[4] RIKEN Ctr Computat Sci, Chuo Ku, 7-1-26 Minatojima Minami Machi, Kobe, Hyogo 6500047, Japan
[5] Kwansei Gakuin Univ, Sch Sci & Technol, Dept Chem, Sanda, Hyogo 6691337, Japan
关键词
LASER-RAMAN SPECTRA; NUCLEIC-ACID BASES; DENSITY-FUNCTIONAL THEORY; INFRARED-SPECTRA; FT-IR; VIBRATIONAL SPECTROSCOPY; MOLECULAR-STRUCTURE; MATRIX-ISOLATION; DNA; GUANINE;
D O I
10.1021/acs.jpcb.9b06285
中图分类号
O64 [物理化学(理论化学)、化学物理学];
学科分类号
070304 ; 081704 ;
摘要
This work reports a theoretical study of infrared (IR) spectra of four nucleobases (adenine, cytosine, guanine, and thymine) in the crystalline state. The effects responsible for the fine spectral features were revealed, and the nonfundamental bands significantly contributing to the IR fingerprint region were successfully reproduced. Additionally, we compared the fundamental bands simulated for periodic models in harmonic approximation with the results obtained for finite models in anharmonic approximation. On this basis, we concluded that accurate description of the chemical neighborhood is more essential for the IR fingerprint region than the anharmonicity. Comparison with previous results indicates that the vibrational properties and the nature of intermolecular interactions of nucleobases in the crystalline state remain similar to those in solution. Therefore, the conclusions obtained for well-defined crystalline structures of nucleobases are general and helpful in understanding the vibrational spectra and properties of nucleobases and their derivatives. Finally, this work evidences that anharmonic force field based on finite models may be applied as an inexpensive correction to the harmonic spectrum of an infinite periodic system.
引用
收藏
页码:10001 / 10013
页数:13
相关论文
共 95 条
  • [31] Toward Feasible and Comprehensive Computational Protocol for Simulation of the Spectroscopic Properties of Large Molecular Systems: The Anharmonic Infrared Spectrum of Uracil in the Solid State by the Reduced Dimensionality/Hybrid VPT2 Approach
    Fornaro, Teresa
    Carnimeo, Ivan
    Biczysko, Malgorzata
    [J]. JOURNAL OF PHYSICAL CHEMISTRY A, 2015, 119 (21) : 5313 - 5326
  • [32] Hydrogen-Bonding Effects on Infrared Spectra from Anharmonic Computations: Uracil-Water Complexes and Uracil Dimers
    Fornaro, Teresa
    Burini, Diletta
    Biczysko, Malgorzata
    Barone, Vincenzo
    [J]. JOURNAL OF PHYSICAL CHEMISTRY A, 2015, 119 (18) : 4224 - 4236
  • [33] Dispersion corrected DFT approaches for anharmonic vibrational frequency calculations: nucleobases and their dimers
    Fornaro, Teresa
    Biczysko, Malgorzata
    Monti, Susanna
    Barone, Vincenzo
    [J]. PHYSICAL CHEMISTRY CHEMICAL PHYSICS, 2014, 16 (21) : 10112 - 10128
  • [34] Frisch M. J., 2016, GAUSSIAN 16 REVISION
  • [35] CRYSTAL-FIELD EFFECTS ON THE TOPOLOGICAL PROPERTIES OF THE ELECTRON-DENSITY IN MOLECULAR-CRYSTALS - THE CASE OF UREA
    GATTI, C
    SAUNDERS, VR
    ROETTI, C
    [J]. JOURNAL OF CHEMICAL PHYSICS, 1994, 101 (12) : 10686 - 10696
  • [36] Distinct Difference in Sensitivity of NIR vs. IR Bands of Melamine to Inter-Molecular Interactions with Impact on Analytical Spectroscopy Explained by Anharmonic Quantum Mechanical Study
    Grabska, Justyna
    Bec, Krzysztof B.
    Kirchler, Christian G.
    Ozaki, Yukihiro
    Huck, Christian W.
    [J]. MOLECULES, 2019, 24 (07):
  • [37] Correlations between Structure and Near-Infrared Spectra of Saturated and Unsaturated Carboxylic Acids. Insight from Anharmonic Density Functional Theory Calculations
    Grabska, Justyna
    Ishigaki, Mika
    Bec, Krzysztof B.
    Wojcik, Marek J.
    Ozaki, Yukihiro
    [J]. JOURNAL OF PHYSICAL CHEMISTRY A, 2017, 121 (18) : 3437 - 3451
  • [38] Temperature Drift of Conformational Equilibria of Butyl Alcohols Studied by Near-Infrared Spectroscopy and Fully Anharmonic DFT
    Grabska, Justyna
    Bec, Krzysztof B.
    Ozaki, Yukihiro
    Huck, Christian W.
    [J]. JOURNAL OF PHYSICAL CHEMISTRY A, 2017, 121 (09) : 1950 - 1961
  • [39] Effect of the Damping Function in Dispersion Corrected Density Functional Theory
    Grimme, Stefan
    Ehrlich, Stephan
    Goerigk, Lars
    [J]. JOURNAL OF COMPUTATIONAL CHEMISTRY, 2011, 32 (07) : 1456 - 1465
  • [40] The Cambridge Structural Database
    Groom, Colin R.
    Bruno, Ian J.
    Lightfoot, Matthew P.
    Ward, Suzanna C.
    [J]. ACTA CRYSTALLOGRAPHICA SECTION B-STRUCTURAL SCIENCE CRYSTAL ENGINEERING AND MATERIALS, 2016, 72 : 171 - 179