Physical and chemical aspects of the study of clusters, nanostructures and nanomaterials. Founded at 2009


Comparative description of binding thermodynamic parameters of perfluorinated alkanes with polyaromatic hydrocarbons. The quantum chemical approach

E.S. Kartashynska

L.M. Litvinenko Institute of Physical Organic and Coal Chemistry

DOI: 10.26456/pcascnn/2025.17.419

Original article

Abstract: The paper presents a comparative analysis of the binding thermodynamic parameters for CnH2n+2 alkanes and their perfluorinated analogues CnF2n+2 (n = 2-14) with a graphene-like surface. The model structures of the graphene surface are performed by polyaromatic hydrocarbons of the coronene series: coronene and tricircumcoronene. The calculations are done using the quantum chemical semiempirical PM6-DH2 method, and supplemented by the results of density functional theory calculations using hybrid functionals B3LYP/6-311G** and wB97X-D4/cc-pVDZ. It has been shown that the binding of perfluorinated alkanes to a graphene surface is more energetically advantageous than conventional alkanes, which is consistent with the few experimental data on the isosteric heat of adsorption of regarded compounds. Thus, the contributions of the intermolecular C–H∙∙∙π and C–F∙∙∙π interactions to the binding enthalpy are almost identical. However, in terms of the entropy factor, these interactions differ by about two times in favor of the C–F∙∙∙π interactions. As a result, the latter ones turn out to be about 60% more energetically preferable than the C–H∙∙∙π analogues according to the binding Gibbs energy criterion.

Keywords: perfluorinated alkanes, polyaromatic hydrocarbons, adsorption, thermodynamic binding parameters, C–Fꞏꞏꞏπ interactions, semiempirical methods, density functional theory

  • Elena S. Kartashynska – Dr. Sc., Leading Researcher of Supramolecular Chemistry Department, L.M. Litvinenko Institute of Physical Organic and Coal Chemistry

For citation:

Kartashynska E.S. Sravnitelnoe opisanie termodinamicheskikh parametrov svyazyvaniya perftorirovannykh alkanov s poliaromaticheskimi uglevodorodami. Kvantovo-khimicheskij podkhod [Comparative description of binding thermodynamic parameters of perfluorinated alkanes with polyaromatic hydrocarbons. The quantum chemical approach], Fiziko-khimicheskie aspekty izucheniya klasterov, nanostruktur i nanomaterialov [Physical and chemical aspects of the study of clusters, nanostructures and nanomaterials], 2025, issue 17, pp. 419-432. DOI: 10.26456/pcascnn/2025.17.419.

Full article (in Russian): download PDF file

References:

1. Riess J.G. Oxygen carriers («blood substitutes») – raison d'etre, chemistry, and some physiology. Blut ist ein ganz besondrer saft, Chemical Review, 2001, vol. 101, issue 9, pp. 2797-2920. DOI: 10.1021/cr970143c.
2. Reiss J.G. Highly fluorinated amphiphilic molecules and self–assemblies with biomedical potential, Current Opinion in Colloid & Interface Science, 2009, vol. 14, issue 5, pp. 294-304. DOI: 10.1016/j.cocis.2009.05.008.
3. Brahana P.J., Patel, R., Bharti, B. Surface science view of perfluoroalkyl acids (PFAAs) in the environment, ACS Environmental Au, 2024, vol. 4, issue 4, pp. 173-185. DOI: 10.1021/acsenvironau.3c00079.
4. Pilli S., Pandey A. K., Pandey V. et al. Detection and removal of poly and perfluoroalkyl polluting substances for sustainable environment, Journal of Environmental Management, 2021, vol. 297, art. no. 113336, 17 p. DOI: 10.1016/j.jenvman.2021.113336.
5. Vujic E., Ferguson S.S., Brouwer K.L.R. Effects of PFAS on human liver transporters: implications for health outcomes, Toxicological Sciences, 2024, vol. 200, issue 2, pp. 213-227. DOI: 10.1093/toxsci/kfae061.
6. Gesquière A., Abdel–Mottaleb M.M., De Schryver F.C., Sieffert M., Müllen K. Imaging of a fluorine–substituted isophthalic acid derivative on graphite with scanning tunneling microscopy, Langmuir, 1999, vol. 15, issue 20, pp. 6821-6824. DOI: 10.1021/la9903393.
7. Gordeev E.G., Polynski M.V., Ananikov V.P. Fast and accurate computational modeling of adsorption on graphene: a dispersion interaction challenge, Physical Chemistry Chemical Physics, 2013, vol. 15, issue 43, pp. 18815-18821. DOI: 10.1039/c3cp53189a.
8. Janowski T., Ford A. R., Pulay P. Accurate correlated calculation of the intermolecular potential surface in the coronene dimer, Molecular Physics, 2010, vol. 108, issue 3-4, pp. 249-257. DOI: 10.1080/00268970903397249.
9. Pykal M., Jurecka P., Karlicky F., Otyepka M. Modelling of graphene functionalization. Physical Chemistry Chemical Physics, 2016, vol. 18, issue 9, pp. 6351-6372. DOI:10.1039/c5cp03599f.
10. Kikkawa Y., Tsuzuki S. Analysis of intermolecular interactions of n-perfluoroalkanes with circumcoronene using dispersion–corrected DFT calculations: comparison with those of n-alkanes, Physical Chemistry Chemical Physics, 2023, vol. 25, issue 16, pp. 11331-11337. DOI: 10.1039/D3CP00790A.
11. Bruch L.W. Monolayer solids of short alkanes and perfluoroalkanes. The Journal of Physical Chemistry C, 2009, vol. 113, issue 40, pp. 17399-17406. DOI: 10.1021/jp904743z.
12. Parker J.E., Clarke S.M. Solid monolayers of fluorocarbons adsorbed on graphite from liquids. Colloids and Surfaces A: Physicochemical and Engineering Aspects, 2007, vol. 298, issue 1-2, pp. 145-147. DOI: 10.1016/j.colsurfa.2006.12.005.
13. Morishige K., Takami Y., Yokota Y. Structures of alkanes and alkanols adsorbed on graphite in solution: Comparison with scanning–tunneling–microscopy images. Physical Reiew B, 1993, vol. 48, issue 11, pp. 8277-8281. DOI:10.1103/PhysRevB.48.8277.
14. Stewart J.J.P. MOPAC2016, version 19.168W. Available at: http://OpenMOPAC.net (accessed 10.05.2025).
15. Kartashynska E.S. Quantum chemical modeling of alkane 2D monolayer formation, Journal of Colloid and Interface Science Open, 2024, vol. 15, art. no. 100117, 12 p. DOI: 10.1016/j.jciso.2024.100117.
16. Kartashynska E.S. Thermodynamics and structure of 2D aliphatic alcohol monolayers on graphene within semi empirical quantum chemical approach, Theoretical Chemistry Accounts, 2025, vol. 144, issue 4, art. no. 25, 16 p. DOI: 10.1007/s00214-025-03181-w.
17. Neese F. Software update: The ORCA program system – Version 5.0, Wiley Interdisciplinary Reviews: Computational Molecular Science, 2022, vol. 12, issue 5, art. no. e1606, 15 p. DOI: 10.1002/wcms.1606.
18. Kirsch P. Modern fluoroorganic chemistry. Synthesis, reactivity, applications. New York, Wiley-VCH, 2013. 379 p. DOI: 10.1002/9783527651351.
19. Fournier J.A., Bohn R.K., Montgomery J.A. Jr., Onda M. Helical C2 structure of perfluoropentane and the C2v structure of perfluoropropane, The Journal of Physical Chemistry A, 2010, vol. 114, issue 2, pp. 1118-1122. DOI: 10.1021/jp9093035.
20. Vysotsky Yu.B., Bryantsev V.S., Boldyreva F.L. et al. Quantum chemical semiempirical approach to the structural and thermodynamic characteristics of fluoroalkanols at the air/water interface, The Journal of Physical Chemistry, 2005, vol. 109, issue 2, pp. 454-462. DOI: 10.1021/jp048240e.
21. Jang S.S., Blanco M., Goddard III W.A., Caldwell G., Ross R.B. The source of helicity in perfluorinated n–alkanes, Macromolecules, 2003, vol. 36, issue 14, pp. 5331-5341. DOI:10.1021/ma025645t.
22. Röthlisberger U., Laasonen K., Klein M. L., Sprik M. The torsional potential of perfluoro n–alkanes: a density functional study, The Journal of Chemical Physics, 1996, vol. 104, issue 10, pp. 3692-3700. DOI: 10.1063/1.471023.
23. Clark E.S. Unit cell information on some important polymers, Physical properties of polymers handbook, ed. by J.E. Mark. New York, Springer, 2007, chapter 38, pp. 619-624. DOI: 10.1007/978-0-387-69002-5_38.
24. Dean J. Lange’s handbook of chemistry. New York, McGraw–Hill, Inc., 1999. 1291 p.
25. McGonigal G.C., Bernhardt R.H., Thomson D.J. Imaging alkane layers at the liquid/graphene interface with the scanning tunneling microscopy, Applied Physics Letters, 1990, vol. 57, issue 1, pp. 28-30 DOI: 10.1063/1.104234.
26. Faglioni F., Claypool C.L., Lewis N.S., Goddard W.A. Theoretical description of the images of alkanes and substituted alkanes adsorbed on graphite, The Journal of Physical Chemistry B, 1997, vol. 101, issue 31, pp. 5996-6020. DOI: 10.1021/jp9701808.
27. Yang T., Berber S., Liu J.–F., Miller G. P., Tomanek D. Self-assembly of long chain alkanes and their derivatives on graphite, The Journal of Chemical Physics, 2008, vol. 128, issue 12, art. no. 124709, 8 p. DOI: 10.1063/1.2841478.
28. De Feyter S., De Schryver F. C. Self-assembly at the liquid/solid interface: STM reveals, The Journal of Physical Chemistry B, 2005, vol. 109, issue 10, pp. 4290-4302. DOI: 10.1021/jp045298k.
29. Stabel A., Dasaradhi L., O'Hagan D., Rabe J. P. Scanning tunneling microscopy imaging of single fluorine atom substitution in stearic acid, Langmuir, 1995, vol. 11, issue 5, pp. 1427-1430. DOI: 10.1021/la00005a003.
30. Conti S., Cecchini M. Accurate and efficient calculation of the desorption energy of small molecules from graphene, The Journal of Physical Chemistry C, 2015, vol. 119, issue 4, pp. 1867-1879. DOI: 10.1021/jp5104774.

⇐ Prevoius journal article | Content | Next journal article ⇒