Raman spectroscopy study and first-principles calculations of the interaction between nucleic acid bases and carbon nanotubes

Stepan G. Stepanian, Maksym V. Karachevtsev, Alexander Yu Glamazda, Victor A. Karachevtsev, Ludwik Adamowicz

Research output: Contribution to journalArticle

43 Citations (Scopus)

Abstract

In this work, we have used Raman spectroscopy and quantum chemical methods (MP2 and DFT) to study the interactions between nucleic acid bases (NABs) and single-walled carbon nanotubes (SWCNT). We found that the appearance of the interaction between the nanotubes and the NABs is accompanied by a spectral shift of the high-frequency component of the SWCNT G band in the Raman spectrum to a lower frequency region. The value of this shift varies from 0.7 to 1.3 cm -1 for the metallic nanotubes and from 2.1 to 3.2 cm -1 for the semiconducting nanotubes. Calculations of the interaction energies between the NABs and a fragment of the zigzag(10,0) carbon nanotube performed at the MP2/6-31++G(d,p)[NABs atoms] 163 IG(d) [nanotube atoms] level of theory while accounting for the basis set superposition error during geometry optimization allowed us to order the NABs according to the increasing interaction energy value. The order is: guanine (-67.1 kJ mol -1) > adenine (-59.0 kJ mol -1) > cytosine (-50.3 kJ mol -1) % thymine (-50.2 kJ mol -1) > uracil (-44.2 kJ mol -1). The MP2 equilibrium structures and the interaction energies were used as reference points in the evaluation of the ability of various functionals in the DFT method to predict those structures and energies. We showed that the M05, MPWBlK, and MPW1B95 density functionals are capable of correctly predicting the SWCNT-NAB geometries but not the interaction energies, while the M05-2X functional is capable of correctly predicting both the geometries and the interaction energies.

Original languageEnglish (US)
Pages (from-to)3621-3629
Number of pages9
JournalJournal of Physical Chemistry A
Volume113
Issue number15
DOIs
StatePublished - Apr 16 2009

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Carbon Nanotubes
nucleic acids
Nucleic Acids
Raman spectroscopy
nanotubes
carbon nanotubes
Nanotubes
Single-walled carbon nanotubes (SWCN)
interactions
Discrete Fourier transforms
Geometry
functionals
energy
geometry
Atoms
Thymine
Uracil
Cytosine
Guanine
Adenine

ASJC Scopus subject areas

  • Physical and Theoretical Chemistry

Cite this

Raman spectroscopy study and first-principles calculations of the interaction between nucleic acid bases and carbon nanotubes. / Stepanian, Stepan G.; Karachevtsev, Maksym V.; Glamazda, Alexander Yu; Karachevtsev, Victor A.; Adamowicz, Ludwik.

In: Journal of Physical Chemistry A, Vol. 113, No. 15, 16.04.2009, p. 3621-3629.

Research output: Contribution to journalArticle

Stepanian, Stepan G. ; Karachevtsev, Maksym V. ; Glamazda, Alexander Yu ; Karachevtsev, Victor A. ; Adamowicz, Ludwik. / Raman spectroscopy study and first-principles calculations of the interaction between nucleic acid bases and carbon nanotubes. In: Journal of Physical Chemistry A. 2009 ; Vol. 113, No. 15. pp. 3621-3629.
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abstract = "In this work, we have used Raman spectroscopy and quantum chemical methods (MP2 and DFT) to study the interactions between nucleic acid bases (NABs) and single-walled carbon nanotubes (SWCNT). We found that the appearance of the interaction between the nanotubes and the NABs is accompanied by a spectral shift of the high-frequency component of the SWCNT G band in the Raman spectrum to a lower frequency region. The value of this shift varies from 0.7 to 1.3 cm -1 for the metallic nanotubes and from 2.1 to 3.2 cm -1 for the semiconducting nanotubes. Calculations of the interaction energies between the NABs and a fragment of the zigzag(10,0) carbon nanotube performed at the MP2/6-31++G(d,p)[NABs atoms] 163 IG(d) [nanotube atoms] level of theory while accounting for the basis set superposition error during geometry optimization allowed us to order the NABs according to the increasing interaction energy value. The order is: guanine (-67.1 kJ mol -1) > adenine (-59.0 kJ mol -1) > cytosine (-50.3 kJ mol -1) {\%} thymine (-50.2 kJ mol -1) > uracil (-44.2 kJ mol -1). The MP2 equilibrium structures and the interaction energies were used as reference points in the evaluation of the ability of various functionals in the DFT method to predict those structures and energies. We showed that the M05, MPWBlK, and MPW1B95 density functionals are capable of correctly predicting the SWCNT-NAB geometries but not the interaction energies, while the M05-2X functional is capable of correctly predicting both the geometries and the interaction energies.",
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