| Literature DB >> 28145699 |
František Karlický1, Eva Otyepková1, Rabindranath Lo2, Michal Pitoňák3,4, Petr Jurečka1, Martin Pykal1, Pavel Hobza1,2, Michal Otyepka1.
Abstract
Understanding strength and nature of noncovalent binding to surfaces imposes significant challenge both for computations and experiments. We explored the adsorption of five small nonpolar organic molecules (Entities:
Year: 2017 PMID: 28145699 PMCID: PMC5352977 DOI: 10.1021/acs.jctc.6b01130
Source DB: PubMed Journal: J Chem Theory Comput ISSN: 1549-9618 Impact factor: 6.006
Saturated Adsorption Enthalpies ΔH (in kcal/mol) and Entropies ΔS (in cal/molK) of Molecules on Fluorographite and Their Respective Confidence Intervals (for a 5% Level of Significance) Obtained by Inverse Gas Chromatography
| compound | Δ | Δ | Δ | Δ | |
|---|---|---|---|---|---|
| acetone | –9.9 ± 0.5 | –28 ± 1 | 303–333 | –(7.3–7.0) | –8.2 ± 0.3[ |
| acetonitrile | –9.1 ± 0.4 | –26 ± 1 | 303–328 | –(8.3–8.1) | –7.6 ± 0.3[ |
| dichloromethane | –6.9 ± 1.3 | –19 ± 4 | 303–323 | –(7.3–6.9) | –5.9 ± 0.5[ |
| ethanol | –12.8 ± 1.0 | –36 ± 3 | 303–353 | –(10.1–9.2) | –12.0 ± 0.4[ |
| ethyl acetate | –12.4 ± 0.5 | –32 ± 1 | 303–363 | –(8.4–7.4) | –11.5 ± 0.2[ |
Averaged over coverage values greater than 10%.
Averaged over coverage values over 2–20%.
The temperature interval Tmin-Tmax (in K) was used for data fitting (see the Supporting Information).
Standard enthalpies of condensation ΔHcond (negative standard enthalpies of vaporization in kcal/mol) for Tmin and Tmax were adopted from the literature.[71]
Adsorption enthalpies (in kcal/mol) of the same molecules on graphene ΔHgr. were taken from previous works.[12,18,19]
Figure 1Isosteric adsorption enthalpies ΔH (top) and entropies ΔS (bottom) for five organic molecules on fluorographite obtained from inverse gas chromatography as a function of surface coverage. The dotted lines are eye-guides.
Interaction Energies ΔEi (in kcal/mol) of Five Organic Molecules with Perfluorohexamethylcyclohexane (C12F24)
| compound | CCSD(T) | MP2.5 | PBE-D2 | PBE-D3 | PBE-TS | PBE-TS+SCS | optB86b-vdW | vdW-DF | vdW-DF2 |
|---|---|---|---|---|---|---|---|---|---|
| dichloromethane | –2.7, | –2.4, | –3.0 | –2.6 | –2.7 | –2.5 | –3.8 | –3.8 | –2.9 |
| ethanol | –3.1, | –2.7, | –3.8 | –3.3 | –3.5 | –3.3 | –4.3 | –4.2 | –3.4 |
Using MP2-F12/cc-pVDZ-F12 ΔE.
Using MP2/CBS ΔE.
Figure 2Models of fluorographene (top) and their interaction energies ΔEi with dichloromethane, showing the dependence of the interaction energy on the size of the model system and the computational method used (bottom). Dark gray and green represent C and F atoms, respectively.
Interaction Energies ΔEi (in kcal/mol) of Five Organic Molecules to Perfluorotetracosahydrocoronene (C24F36)b
| compound | MP2.5/CBS | B97-D3/TZVPP | B3LYP-D3/TZVPP | M06-2X/cc-pVTZ | PBE-D3/TZVPP | PBE-D3/PW | PBE-D2/PW | PBE-TS/PW | PBE-TS+SCS/PW | optB86b-vdW/PW | vdW-DF/PW | vdW-DF2/PW |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| acetone | –4.6 | –3.1 | –4.6 | –4.2 | –4.7 | –4.6 | –5.0 | –5.7 | –5.1 | –7.0 | –7.2 | –5.2 |
| (−33%) | (0%) | (−9%) | (2%) | (0%) | (8%) | (23%) | (11%) | (51%) | (56%) | (13%) | ||
| acetonitrile | –3.6 | –2.5 | –3.5 | –3.1 | –3.7 | –3.7 | –3.9 | –4.5 | –4.2 | –5.3 | –5.6 | –4.1 |
| (−31%) | (−3%) | (−14%) | (3%) | (3%) | (8%) | (25%) | (16%) | (48%) | (56%) | (14%) | ||
| dichloromethane | –3.2 | –2.5 | –3.5 | –2.5 | –3.5 | –3.3 | –3.6 | –3.9 | –3.5 | –5.1 | –5.2 | –3.8 |
| (−22%) | (9%) | (−22%) | (9%) | (4%) | (13%) | (21%) | (9%) | (61%) | (62%) | (18%) | ||
| ethanol | –3.5 | –2.9 | –4.3 | –3.7 | –4.3 | –4.1 | –4.5 | –5.1 | –4.7 | –5.7 | –5.7 | –4.4 |
| (−17%) | (23%) | (6%) | (23%) | (16%) | (29%) | (45%) | (36%) | (63%) | (62%) | (25%) | ||
| ethyl acetate | –5.7 | –3.9 | –5.9 | –5.2 | –6.0 | –6.0 | –6.5 | –7.3 | –6.7 | –9.2 | –9.4 | –6.9 |
| (−32%) | (4%) | (−9%) | (5%) | (5%) | (14%) | (28%) | (18%) | (61%) | (65%) | (20%) | ||
| average of percentage error | –27% | 7% | –10% | 8% | 6% | 15% | 28% | 18% | 57% | 60% | 18% |
We obtained near-identical PBE-D3 interaction energies by two different approaches: using localized Gaussian orbitals (the TZVPP basis set) as implemented in Turbomole and using plane waves (PW) as implemented in VASP (see also the Methods section).
The relative deviation from the MP2.5 energy, (ΔEiDFT-ΔEiMP2.5)/ΔEiMP2.5, is given in parentheses.
Figure 3Adsorption geometries of acetone, acetonitrile, dichloromethane, ethanol, and ethyl acetate (from the top to the bottom, respectively) on perfluorinated tetracosahydrocoronene (left column) and fluorographene (right column). Structures shown in the left and right columns were obtained by optimization with the B97D and optB86b-vdW density functionals, respectively. Dark gray, green, red, blue, yellow, and white represent C, F, O, N, Cl, and H atoms, respectively.
Figure 4Decomposition of the total attractive energy into dispersion, induction, and electrostatic contributions calculated by DFT-SAPT for the small model system C24F36.
Adsorption Energies (in kcal/mol) and Other Quantitiesa Characterizing the Adsorption of Five Organic Molecules on Perfluorinated Tetracosahydrocoronene
| compound | Δ | Δ | Δ | Δ | Δ | ΔΔ | ΔΔ | ΔΔ | ΔΔ | Δ | Δ |
|---|---|---|---|---|---|---|---|---|---|---|---|
| acetone | –6.3 | –5.4 | –4.2 | –4.8 | 5.1 | 0.9 | 1.2 | –0.6 | 9.9 | 1.5 | –31.7 |
| acetonitrile | –4.4 | –4.0 | –2.6 | –3.2 | 3.4 | 0.4 | 1.4 | –0.6 | 6.6 | 1.2 | –21.1 |
| dichloromethane | –4.5 | –4.3 | –2.6 | –3.3 | 3.4 | 0.2 | 1.7 | –0.6 | 6.6 | 1.3 | –21.2 |
| ethanol | –6.3 | –5.5 | –4.2 | –4.8 | 3.9 | 0.8 | 1.3 | –0.6 | 8.6 | 1.5 | –27.6 |
| ethyl acetate | –8.6 | –7.8 | –6.5 | –7.1 | 3.0 | 0.7 | 1.3 | –0.6 | 10.1 | 1.5 | –32.3 |
ΔE and ΔE0 with and without ZPE, respectively, internal energies ΔU, enthalpies ΔH, Gibbs energies ΔG, and entropies ΔS (in cal/molK), and the contributions of the zero-point energy (ΔΔE0), thermal (ΔΔET), enthalpy (ΔΔEH), and Gibbs energy corrections (ΔΔEG). The adsorption process C24F36 + X → C24F36···X was modeled at 313.15 K and 101.325 kPa using the B97D functional.
Adsorption Energies and Enthalpies of Five Organic Molecules on Periodic Fluorographene in kcal/mol Calculated with Various Density Functionalsa
| PBE-D2 | PBE-D3 | PBE-TS | PBE-TS+SCS | optB86b-vdW | vdW-DF | vdW-DF2 | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| compound | Δ | Δ | Δ | Δ | Δ | Δ | Δ | Δ | Δ | Δ | Δ | Δ | Δ | Δ |
| acetone | –6.6 | –5.1 | –7.6 | –6.1 | –8.0 | –6.5 | –8.5 | –7.0 | –10.7 | –9.3 | –9.7 | –8.3 | –9.9 | –8.4 |
| acetonitrile | –6.6 | –5.4 | –6.1 | –4.9 | –6.2 | –5.0 | –6.6 | –5.5 | –7.8 | –6.6 | –7.0 | –5.8 | –7.6 | –6.4 |
| dichloromethane | –6.4 | –5.1 | –6.1 | –4.8 | –6.3 | –5.1 | –6.9 | –5.6 | –7.9 | –6.7 | –6.8 | –5.5 | –7.4 | –6.2 |
| ethanol | –7.6 | –6.1 | –6.8 | –5.3 | –7.0 | –5.5 | –7.5 | –6.0 | –8.7 | –7.2 | –7.5 | –6.1 | –8.4 | –6.9 |
| ethyl acetate | –10.4 | –9.0 | –9.5 | –8.0 | –10.4 | –8.9 | –11.4 | –10.0 | –13.8 | –12.3 | –12.8 | –11.3 | –12.2 | –10.8 |
The correction to the adsorption enthalpy was obtained from calculations on perfluorotetracosahydrocoronene (Table ).
Figure 5Adsorption geometries of an ethanol molecule on multilayer fluorographene and a fluorographene step/edge (top). Adsorption geometries of an ethanol molecule on fluorographene with vacancy defects and a Stone–Wales defect (middle). Clustering of ethanol molecules (bottom). All adsorption energies were obtained with the optB86b-vdW density functional. For molecular clusters, the quoted energies are normalized to one molecule.
Adsorption Energies (in kcal/mol) of Five Organic Molecules on Fluorographene Steps and Defect-Free Surfacesa
| compound | Δ | Δ | difference |
|---|---|---|---|
| acetone | –13.3 (−8.1) | –10.7 (−7.6) | –2.6 (−0.5) |
| acetonitrile | –11.2 (−6.3) | –7.8 (−6.1) | –3.4 (−0.2) |
| dichloromethane | –11.6 (−7.1) | –7.9 (−6.1) | –3.7 (−1.0) |
| ethanol | –10.7 (−6.6) | –8.7 (−6.8) | –2.0 (0.2) |
| ethyl acetate | –16.8 (−10.2) | –13.8 (−9.5) | –3.1 (−0.7) |
Calculated with the optB86b-vdW density functional (results obtained with PBE-D3 in parentheses).
Figure 6Top (top) and side (bottom) views of the adsorption geometries of acetonitrile (left) and acetone (right) trimers on fluorographene. Selected weak bonds between molecules in clusters (top) and between molecules and surfaces (bottom) are highlighted by red dotted lines. Structures were obtained by optimization with the optB86b-vdW density functional.
Scheme 1Thermodynamic Cycle for the Creation of an Adsorbed Ethanol Tetramer (Left) and Ethyl Acetate Dimer (Right) on a Fluorographene/Fluorographite Surface Evaluated Using a Periodic Model
All energies (in kcal/mol) are normalized to one ethanol (ethyl acetate) molecule.
Figure 7Experimental (Table , including error bar) and calculated adsorption enthalpies (ΔH). Calculated values corresponding to molecular adsorption (squares) were corrected for the effect of clustering (triangles). The red line represents perfect agreement between experiments and calculations. The calculated enthalpies are based on energies obtained with the optB86b-vdW density functional.