One of the goals of the present manuscript was to know the effect of several substituents on the molecular structure and atomic charge distribution of the triazole ring. Its acknowledgement will facilitate the selection of the substituents on the triazole ring for synthesis of new bioactive compounds. In the present paper, we have tested few substituents in
para-position of the aryl ring,
Figure 1. Of these compounds, 2-aryltriazole acids,
1a and
1b, and their corresponding anionic forms were synthesized previously and studied their NMR and fluorescent properties [
3]. The molecular structure and vibrational spectra of
1a (R = OCH
3) and its anion form
2a was interpretated in detail in the present manuscript, including their dimer forms
2.1. Molecular Geometries in the Monomer form of 1a and 2a
In the monomer form, four conformers appear stable in
1a by rotation of both, the methyl group around the C
1-O bond and the -COOH group. The most stable one (conformer
1) is that plotted in
Figure 2 and their values were only discussed in the present manuscript. By rotation around C
1-O bond we obtain conformer
2, which was included in
Figure 1-SUP (Supplementary Material). The energy difference between both conformers is very small, 0.01 kJ/mol at MP2 level. However, the rotation around the -COOH group leads to a larger difference, 10.6 kJ/mol, conformers
3 and
4. To this feature contributes the increases of the out-of-planarity of this COOH group with a torsional angle C
8-C
9-C
11=O
12 of 28.2º. Because their lower stability, these conformers were not analyzed in the present work.
Several selected optimized geometrical parameters, namely bond lengths, bond angles and torsional angles calculated using the B3LYP and MP2 methods and the 6-31G(d,p) basis set are collected in
Table 1 for
1a and
2a, as well as with all the molecules of
Figure 1, but only at the MP2 level for simplicity. In
Table 1-SUP is collected more geometrical parameters. The optimized structure in the neutral form
1a and its anion form
2a are shown in
Figure 2, while those corresponding to molecules
1b (R = CL) substitution),
1c (R = OH),
1d (R = ONH
2), and
1e (R = OCF
3) are included in
Figure 3. The label of the atoms is in accordance to that reported in a previous study [
3]. Few values of several bond lengths of interest are also included in these figures. In the bottom of each
Figure 2 is shown the total energy (
E) values, which includes the ZPE (zero-point vibrational energy) correction, and the Gibbs energy (
G). In
Figure 3, the energy values by MP2 were only included, for simplicity.
Figure 2.
Labeling of the atoms and plot of the structure of: (a) 2-(4-methoxyphenyl)-5-(pyrrolidin-1-yl)-2H-1,2,3-triazole-4-carboxylic acid (in short 1a). (b) sodium 2-(4-methoxyphenyl)-5-(pyrrolidin-1-yl)-2H-1,2,3-triazole-4-carboxylate (in short 2a), with front and lateral views forms. Several bond lengths and intramolecular H-bond values of interest calculated at the MP2/6-31G(d,p) level are included in the figure. The energy values correspond to the B3LYP and MP2 methods, 1 AU = 2625.5 kJ/mol.
Figure 2.
Labeling of the atoms and plot of the structure of: (a) 2-(4-methoxyphenyl)-5-(pyrrolidin-1-yl)-2H-1,2,3-triazole-4-carboxylic acid (in short 1a). (b) sodium 2-(4-methoxyphenyl)-5-(pyrrolidin-1-yl)-2H-1,2,3-triazole-4-carboxylate (in short 2a), with front and lateral views forms. Several bond lengths and intramolecular H-bond values of interest calculated at the MP2/6-31G(d,p) level are included in the figure. The energy values correspond to the B3LYP and MP2 methods, 1 AU = 2625.5 kJ/mol.
In general, comparing the geometric parameters of the most stable forms of 1a and 2a, it is noted that the change of –COOH in 1a (neutral form) by –COO in 2a (anion form) leads to large differences in the whole molecular structure. These differences are noticeable larger than if different substituents are inserted in the para-position (on C1) of the aryl ring, molecules 1b to 1e.
Figure 3.
Two views of the optimized structure in the neutral form of 1b (with chlorine substitution), 1c (with hydroxyl substitution), 1d (with the oxo-amino group), and 1e (with the oxo-trifluoromethyl group). The MP2 energy value was included in the bottom of each figure.
Figure 3.
Two views of the optimized structure in the neutral form of 1b (with chlorine substitution), 1c (with hydroxyl substitution), 1d (with the oxo-amino group), and 1e (with the oxo-trifluoromethyl group). The MP2 energy value was included in the bottom of each figure.
In these molecules both the aryl and triazole rings show a full planar structure, as can be seen from the side views of these figures. However, the pyrrolidine ring is clearly non-planar as it expected. This non-planarity measured in the torsional angle N14-C15-C16-C17 is higher in 7.5˚ (B3LYP) and 17.8˚ (MP2) in the neutral 1a than in the anionic form 2a.
The substituents on the triazole ring are not coplanar with it. Thus, the aryl ring appears noticeable rotated related to the triazole ring, with values of the torsional angle C5-C4-N4-N10 remarkably higher in the neutral form 1a (-14.2º by MP2) than in the anionic form 2a (-3.0º). B3LYP fails in the calculation of this angle with very low values. The pyrrolidine ring plane is also out of the triazole ring plane with values of the torsional angle C9-C8-N14-C18 of 26.4º by MP2 in 1a and 35.6º in 2a. B3LYP also fails in the calculation of this angle with lower values. This non-coplanarity of the triazole substituents was also observed in molecules 1b to 1e with small differences in the torsional angles, around 2-3º.
The carboxylic group appears remarkably rotated related to the triazole ring, while the coplanar form corresponds to a saddle point. This rotation is especially large in the anionic form
2a with a value by MP2 of the torsional angle C
8-C
9-C=O
12 of 26.5º, vs 15.0º in
1a. This feature can be explained by a larger flexibility of the carboxylic oxygens in
2a form with a longer C=O
12 bond length of 1.268 Å vs 1.225 Å in
1a. This flexibility is regulated by a strong O
12···H
18 H-bond, which is shortening in the anionic form compared to the neutral form by 0.151 Å (
Figure 2). This hydrogen bond little changes in the triazoles
1b-e. However, this non-planarity of the structure is expected to be reduced in the solid state because of the intermolecular H-bonds and packing forces of the crystal will tend to compress the structure.
Table 1.
Several selected optimized geometrical parameters calculated in the monomer form with the 6-31G(d,p) basis set. Bond lengths (r) in Å, bond angles and dihedral angles (∠) in degrees.
Table 1.
Several selected optimized geometrical parameters calculated in the monomer form with the 6-31G(d,p) basis set. Bond lengths (r) in Å, bond angles and dihedral angles (∠) in degrees.
Parameters |
-OCH3
|
-CL |
-OH |
-ONH2
|
-OCF3
|
B3LYP |
MP2 |
MP2 |
MP2 |
MP2 |
MP2 |
1a |
2a |
1a |
2a |
1b |
1c |
1d |
1e |
r(C4-N4) r(N4-N7) r(N4-N10) r(C8-C9) r(C9-N10) r(C9-C11) O12…H18 ∠(C4-N4-N10) ∠N-N-N) ∠(N10-C9-C11) ∠(C9-C8-N14) ∠(C9-C11=O12) ∠(C9-C11-O13) ∠(O=C=O) ∠(C5-C4-N4-N10) ∠(N4-N10-C9-C11) ∠(N10-N4-N7-C8) ∠(N10-C9-C=O12) ∠(N10-C9-C-O13) ∠(C8-C9-C=O12) ∠(C11-C9-C8-N14) ∠(C9-C8-N14-C18) ∠(C8-N14-C15-C16) ∠(N14-C15-C16-C17) |
1.421 1.349 1.311 1.440 1.347 1.465 2.152 122.5 115.9 119.7 133.2 126.1 112.4 121.4 -1.6 175.6 -0.4 -165.9 13.0 9.6 4.8 19.7 -163.0 -21.5 |
1.398 1.357 1.343 1.448 1.329 1.549 1.980 122.7 115.0 121.0 131.0 113.9 115.7 130.3 -1.1 175.3 -1.1 -145.7 32.8 29.1 4.4 22.2 -169.6 -14.0 |
1.418 1.340 1.334 1.422 1.358 1.466 2.181 121.7 116.7 119.2 132.6 125.7 111.9 122.4 -14.2 173.6 -0.9 -157.1 21.9 15.0 8.0 26.4 -151.8 -22.9 |
1.401 1.348 1.350 1.427 1.350 1.541 2.030 122.0 116.1 120.7 131.0 113.6 115.3 131.0 -3.0 176.1 -1.4 -149.3 29.8 26.5 2.5 35.6 -163.7 -5.1 |
1.417 1.340 1.334 1.423 1.357 1.467 2.186 121.7 116.8 119.2 132.7 125.6 111.8 122.6 -10.3 173.7 -0.8 -156.3 22.6 16.0 8.0 24.9 -152.0 -23.6 |
1.418 1.340 1.334 1.422 1.358 1.466 2.181 121.7 116.7 119.2 132.6 125.7 111.9 122.4 -13.7 173.6 -0.9 -157.1 21.9 15.0 8.0 26.4 -151.8 -22.9 |
1.419 1.340 1.334 1.422 1.358 1.466 2.180 121.8 116.7 119.3 132.6 125.7 111.9 122.4 -14.9 173.6 -0.9 -157.3 21.7 14.7 8.1 27.0 -151.7 -22.6 |
1.417 1.340 1.334 1.424 1.356 1.468 2.188 121.7 116.8 119.2 132.7 125.6 111.8 122.6 -10.7 173.7 -0.8 -156.1 22.9 16.4 8.0 24.4 -152.0 -23.8 |
The loose of the H
13 proton in the anionic form leads to a noticeable effect on the molecular structure. Indeed, the loss of the H
13 proton in the anionic form leads to a noticeable effect on the structure of the molecule. It is confirmed by the charge values on the carboxylic group atoms, with larger negative charge localization on the oxygen atoms O
12 (-0.889
e) and O
13 (-0.843
e), with arrangement of C
11-O
13 (1.252 Å) and C
11-O
12 (1.268 Å) bonds and increase of C
9-C
11 bond length up to 1.549 Å and with a higher flexibility of this group (
Table 1 and
Table 2). This lengthening of the C
9-C
11 bond in the anionic form leads to an increment of the double bond character of N
7=C
8 and C
9=N
10 of the triazole ring and consequently the C
4-N
4, N-N and C
8-N
14 bonds are lengthened. This feature modifies in ca. 2º the bond angles of this triazole ring and in special the torsional angles and the non-planarity with its substituents,
Table 1.
In the neutral form of these molecules the highest negative charge corresponds to the hydroxyl oxygen O
13 (-0.776
e),
Table 2. O
12 and O
1 oxygens have also a large negative charge and they can take part in the binding of these molecules with biological targets. The negative charge on the nitrogen atoms N
7 and N
14 is lower (-0.188
e and -0.388
e, respectively) but it is expected that they can also affect the biological behavior of these molecules. By contrast, the highest positive charge appears in the carbon atoms C
8 and C
11 because they are bonded to large negative atoms.
Table 2.
Natural atomic charges (in e) calculated in the monomer form at the MP2/6-31G(d,p) level.
Table 2.
Natural atomic charges (in e) calculated in the monomer form at the MP2/6-31G(d,p) level.
|
-OCH3
|
-CL |
-OH |
-ONH2
|
-OCF3
|
atom |
1a |
2a |
1b |
1c |
1d |
1e |
O1 C1 C4 N4 N7 C8 C9 N10 C11 =O12 O13 N14 C18 H18
|
-0.606 0.378 0.117 0.004 -0.380 0.458 -0.099 -0.188 0.979 -0.724 -0.776 -0.561 -0.211 0.263 |
-0.615 0.332 0.167 -0.064 -0.398 0.409 0.019 -0.240 0.956 -0.889 -0.843 -0.558 -0.219 0.297 |
-0.012* -0.052 0.160 -0.005 -0.381 0.462 -0.091 -0.183 0.979 -0.720 -0.775 -0.560 -0.211 0.263 |
-0.756 0.385 0.115 0.004 -0.380 0.458 -0.099 -0.188 0.979 -0.724 -0.776 -0.561 -0.211 0.263 |
-0.472 0.368 0.117 0.005 -0.380 0.457 -0.101 -0.185 0.979 -0.725 -0.776 -0.561 -0.211 0.263 |
-0.651 0.288 0.163 -0.007 -0.381 0.462 -0.089 -0.182 0.978 -0.719 -0.775 -0.560 -0.211 0.263 |
2.2. Relationships Stablished between the Molecular Parameters
Several relationships were stablished with the optimized values of the five neutral compounds shown in
Figure 1. The different
para-substituents on the phenyl ring leads to a noticeable change in the negative NBO natural atomic charge of O1 oxygen, which is large with the hydroxyl group, and lower with the oxo-amino group,
Table 2. The lowest value corresponds to the chlorine substituent
1b. With the exception of this substituent, their values appear linear related to the dipole moment of the molecule,
Figure 4a. A decrease in its negative value leads to an increment in the dipole moment, as it is expected due to the large negative charge of the other side of the molecule with the -COOH group.
With the exception of
1b (R = CL) and
1e (R = OCF
3), a decrease in the negative charge on O1 leads to a slight increment in the intramolecular distance of the most reactive O1 and O12 atoms,
Figure 4b. If this distance is increased, it could affect to its arrangement and further interaction with the protein cavity aminoacids, and therefore its anticancer activity and selectivity.
A change in the negative charge on O
1 with the different
para-substituents on the aryl ring leads to a change in the positive charge on the C
1 bonded atom. The exception is
1b with a negative charge on C
1 due to there is a chlorine atom instead of O
1. This feature leads to a redistribution of the aryl group charge, which affect its aromaticity and the positive charge value on C
4. An increment in its positive value appears linear related to a shortening of the C
4-N
4 bond length,
Figure 5a. Although this change in
1b (R = CL) and
1e (R = OCF
3) looks small, it is enough to give rises to a decrease of 4º in the rotation of the aryl ring plane related to the triazole ring plane, the C
5-C
4-N
4-N
10 torsional angle. This decrease is lower in the anionic forms.
An increase in the positive charge on C
4 give rises to an increment in the charge on N
4 of the triazole ring, which is negative in
1b and
1e, and become very small positive or almost null in the other molecules
1a,
1c and
1d,
Figure 5b, and it is also related to the C
4-N
4 bond length. The variations in the N
4 charge appears to have a significant effect in the torsional angles of the triazole substituents. Therefore, an increment in its positive value is linear related to a decrease in the torsional angles C
5-C
4-N
4-N
10 (
Figure 5c), C
4-N
4-N
10-C
9 (
Figure 5d) and N
10-C
9-C
11=O
12 (
Figure 5e), and an increment in the C
9-C
8-N
14-C
18.
(
Figure 5f) and N
14-C
15-C
16-C
17 (
Figure 5g). All these results show how the different substituents affect the triazole ring structure. Although the changes observed appear small, they could be of importance in the sensitivity of these molecules to external stimulus in microenvironments, including their biological behavior.
2.3. Molecular Geometries in the Dimer Forms
In the solid state,
1a is expected to be symmetric H-bonded in a cyclic dimer form through the –COOH group as in related molecules with the carboxylic group [
5]. Thus, its dimeric structure was optimized and plotted in
Figure 6. This optimized dimer form predicted for the crystal unit cell was confirmed by comparison of the carboxylic vibrations of their IR and Raman spectra with those obtained experimentally in the solid state sample. Both molecules of dimer are almost planar, and they are H-bonded with the same bond length, 1.646 Å by B3LYP. This H-bond value is slightly longer than that reported in benzoic acid (BA) dimer, 1.616 Ǻ [
5], which can be explained be the slight decrease in the negative charge on =O
12 in
1a as compared to BA. A longer C=O bond (1.241 Ǻ vs 1.237 Ǻ in BA) and consequently a shorter C
9-C
11 bond length (1.466 Ǻ vs 1.487 Ǻ in BA) is calculated. As it is expected, a lengthening of the acceptor C=O bond (1.225 Å in monomer vs. 1.241 Å in dimer) and a shortening of the donor C-OH bond (1.357 Å in monomer vs 1.320 Å in dimer) is observed on dimer H-bond formation. This shortening in the C-OH bond is proportional to the intermolecular H-bond length [
6].
The anion
2a cannot be in cyclic dimer form in the crystal through an O-H···O bond as in
1a. Thus, several staking forms between two molecules were optimized as a simplified model, with interaction of both -COO and NNN moieties as well as π-π interactions.
Figure 7 shows the calculated two best optimum stable forms with the M06-2X method, since B3LYP fails in the staking interactions [
7]. The most stable one corresponds to form
I, and only for this form was studied the vibrational spectra. This staking form was confirmed in the further comparison of its theoretical scaled vibrational spectra with the corresponding experimental one, especially in the stretching vibrations of the -COO and NNN modes.
Form I appears stabilized by several weak H-bonds/interactions through the oxygen atoms and the out-of-plane methyl hydrogens of the pyrrolidine ring. An increment in the twist of the –COO group is observed to facilitate these intermolecular H-bonds/interactions. A high planarity appears between both monomers of this dimer form, and because of that, this structure is expected in the crystal unit cell. Form II is slightly less stable than form I, and it is also stabilized by weak H-bonds/interactions C-H···O between the –COO group and the hydrogens of the pyrrolidine ring. In addition, a weak C-H···N H-bond/interaction is observed. However, the planarity between both monomers is remarkable reduced in this dimer and thus it is expected that the crystal packing forces modify this structure. Other dimer forms were tried to be optimized with several H-bonds/interactions through the nitrogen atoms, but they were not stable.
The interaction energies were calculated in
1a and
2a dimers. Its calculation appears describe in detail in the Supplementary Material Section. The deformation energy
Edef in the
1a dimers, 18.6 kJ/mol, is slightly lower than in the most stable form of
2a, 21.8 kJ/mol. It is because of the staking interaction, although weak in the
2a dimer, affect to a larger number of atoms than in
1a dimer. This deformation energy has similar value in the
I and
II forms of
2a. The CP corrected interaction energy of the
is -82.8 kJ/mol in
1a, in accordance to that reported in the cyclic dimer of benzoic acid, -81.7 kJ/mol [
5].
2.5. Scaling the Wavenumbers
Because theoretical methods do not adequately reproduce all the experimental patterns of wavenumbers with enough accuracy, the use of scaling procedures is necessary to improve the results remarkably [
8,
9]. The linear scaling equation procedure [
10], using one (LSE) or two equations (TLSE) (for high and low wavenumbers) represents a compromise between accuracy and simplicity, and therefore they were the main procedures used to assign the experimental bands. In addition, the polynomic scaling equation procedure (PSE) was also used. These procedures use the equations calculated in simpler building molecules, which in the present study the results used were those of the benzene molecule at the same level of theory. The calculated wavenumber by the theoretical method is represented by ν
cal, and the wavenumber scaled obtained by v
scal. Thus, with the LSE equation [
10] is:
νscal = 22.1 + 0.9543 · νcal at B3LYP/6-31G(d,p) level
The equations corresponding to the TLSE procedure are:
νscal = 29.7 + 0.9509 · νcal at B3LYP/6-31G(d,p) level for the 1000-3700 cm-1 range
νscal = -16.0 + 1.0009 · νcal at B3LYP/6-31G(d,p) level for the 0-1000 cm-1 range
Finally, the scaling equation used by the PSE procedure is:
νscal = -4.2 + 0.9909 · νcal - 0.00000929· (νcal )2 at B3LYP/6-31G(d,p) level
νscal = 6.5 + 0.9694 · νcal - 0.00000612· (νcal )2 at M06-2X/6-31G(d,p) level
The equation corresponding to the M06-2X/6-31G(d,p) level was only used for the dimer form of
2a, because the lower accuracy [
10] of this M06-2X method than B3LYP in the scaled wavenumbers.
2.6. Vibrational Analysis of 1a and 2a
All the calculated wavenumbers in the most stable form
I are collected in
Table 2-SUP (Supplementary Material). A short resume of the most important values is shown in
Table 4 and
Table 5. Because the geometrical values and vibrational wavenumbers of form 2 are almost the same than those of the form
1, they were not included in the tables. Only the wavenumbers with high IR or Raman intensity, or those characteristics of the molecular structure were included. The scaled wavenumbers by two methods, the relative (%) computed IR and Raman intensities, the experimental values observed in the spectra and the main characterization of the vibrations with their % contribution of the different modes to a computed value (PEDs) are also included in the Tables. Contributions in general lower than 10% are not included. The relative intensities are obtained by normalizing each calculated value to the intensity of the strongest one.
The scaled IR and Raman spectra were mainly carried out using the TLSE and PSE scaling procedures. The LSE procedure is the worst, while the PSE procedure leads to the best results, with errors in general lower than 3%. The scaled wavenumbers are slightly worse using the LSE and TLSE procedures than the PSE. Thus, all the scaled spectra shown in the present manuscript were done with this PSE procedure, as well as the discussion with the scaled values.
A comparison of the whole FTIR experimental spectra of
1a and
2a with those corresponding to the theoretical scaled spectra by the PSE procedure in the monomer form were plotted in
Figure 2-SUP, while the comparison with the Raman values is shown in
Figure 3-SUP. For a better analysis and comparison of the different experimental and scaled vibrational wavenumbers of these figures, the spectra are divided in three regions, such as: 3700-2700 cm
-1, 1800-1000 cm
-1, and 1000-0 cm
-1 (or 1000-600 cm
-1). The IR spectra of these figures are shown in
Figure 8,
Figure 9 and
Figure 10, while for simplicity the Raman spectra are included as Supplementary Material,
Figure 4,
Figure 5 and
Figure 6-SUP. The assignment of the most intense and characteristic IR wavenumbers is included in these figures.
In a general comparison of the IR spectra of
Figure 2-SUP is observed the following: (i) A large difference between the spectra of
1a and
2a. This difference is in agreement with a significant change in the geometric parameters and charges between both molecules. Although acid and salt having almost the same chemical structure, they can differ significantly in biological effect, since they differ greatly in electronic and geometric characteristics both in the form of individual molecules and in the form of dimers. This can be manifested in their affinity to specific receptor site and in value of the effect and selectivity. (ii) The noticeable accordance between the scaled wavenumbers in the monomer form with the experimental ones, with only few significant differences. (iii) The scaled spectra in the dimer or staking forms reduce the differences theory-experiment.
It is noted that most of the modes in the compounds under study appear in the expected ranges. Due to this feature and because the difference in the observed and scaled values of most of the fundamentals is very small, the assignments in general could be considered correct. This assignment of the vibrational bands was carried out through a detailed comparison of the experimental with the scaled spectra. This assignment was discussed under the following sections: (i) The COOH and COO group modes, (ii) the OH group modes, (iii) the triazole ring modes, (iv) the phenyl ring modes, and (v) the methoxy O-CH3 modes. The discussion was carried out mainly focused on (i) and (ii) sections because they involved the most reactive groups.
2.6.1. The Carboxylic COOH Group Modes in Molecule 1a
The displacement vectors for the characterization of these modes are similar for the monomer and dimer forms, although for each dimer vibration two wavenumbers appear, one corresponds to the in-phase mode (Raman active) and another one to the out-of-phase mode (IR active).
Table 5 collects a resume of the calculated (scaled) wavenumbers, together with the experimental ones and the main characterization with the %PED. The full Table is included as
Table 3-SUP. The theoretical values mainly correspond to the monomer form of the molecules, and only when noticeable differences appear with the dimer they are included in this Table.
The experimental IR spectra of
Figure 10 are characterized by a broad and complex spectral structure around 2850 cm
-1 which is characteristic of the carboxylic acid association by hydrogen bonding. Only the internal modes of the COOH and COO groups were discussed under the following sections:
The C=O modes: The C=O stretching was calculated in the monomer form with very strong IR intensity and scaled by PSE at 1745 cm-1. However, this value noticeable differs (ca. 70-100 cm-1) of that observed at lower values in the experimental IR and Raman spectra, which is due to intermolecular H-bonds present in the solid state through the carboxylic –COOH group. In our dimer simulation, this mode was scaled at 1695 cm-1 with very strong IR intensity also. This value is slightly higher than 1675.1 cm-1 found experimentally. This feature indicates an intermolecular H-bond slightly stronger in our calculated dimer form than in the experimental sample of 1a. It is that expected and in accordance to additional intermolecular interactions with other dimer form present in staking form in the solid state crystal that slight lengthening the C=O bond length.
Another ν(C=O) stretching vibration is predicted at 1655 cm
-1 in our optimized form of
1a, but with the displacement vectors of the stretch motion appearing in-phase between both monomer forms of dimer. This kind of motion leads to an active Raman band with very strong intensity, but inactive in IR. Our predicted wavenumber in Raman is in good accordance to the experimental Raman line at 1643.2 cm
-1. In the solid state of BA this mode has been reported experimentally [
5] at 1693 cm
-1 (IR) and 1635 cm
-1 (Raman), in accordance to our results.
The C=O in-plane bending appears strongly coupled with the δ(C-OH) mode, and therefore it can be better denoted as δ(COOH) in
Table 5. It is predicted in the monomer form at 699 cm
-1. However, in the dimer form it is scaled at 780 cm
-1 (IR, out-of-phase motion) with medium IR intensity and at 761 cm
-1 (Raman, in-phase motion) with weak value, in excellent accordance to the very strong experimental IR band at 779.2 cm
-1 and to the medium intensity Raman line at 768.0 cm
-1. The discussion of the out-of-plane modes is included in the Supplementary Material Section.
The C-O13 modes: The displacement vectors correspond to the COO group instead of an isolated C-O bond and therefore it was characterized as ν
as(COO) in
Table 5. In the monomer form its stretching mode appeared scaled with strong IR intensity at 1113 cm
-1 and it could be related to the experimental bands at 1122.5 cm
-1 (IR) and 1120.6 cm
-1 (Raman). In the dimer form they were predicted with very weak IR and Raman intensities, and therefore they were not detected in the spectra. This stretching mode in
1a appears noticeable coupled with ν
s(NNN) and δ(C-H) modes and thus their experimental wavenumbers differ of that assigned to this mode in BA at 1347 cm
-1 (IR) [
11].
The νs(COO) mode appears strongly coupled with the ν(NNN) stretching of the triazole ring that difficult its identification. It was characterized in the scaled wavenumber of the monomer form at 1093 cm-1 appearing with medium-strong IR intensity and thus it was well related to the IR band with medium intensity at 1093.6 cm-1. In Raman it was predicted with weak intensity and it was related to the Raman line at 1096.5 cm-1. In the dimer form this mode was predicted with very weak and almost null intensity and therefore it was not related to experimental band.
The O13-H modes: The stretching ν(O-H) of free hydroxyl groups (monomer form) appears scaled at 3592 cm
-1 with medium IR and Raman intensity and they were related to the weak experimental IR bands at 3596.1 and 3491.0 cm
-1, and to the Raman line at 3504.2 cm
-1. It means, that free COOH groups appears in
1a, in accordance to the experimental IR band reported at 3553.3 cm
-1 in
p-methoxybenzoic acid [
12]. These features are also in accordance to that reported in BA [
5], where the monomer form is calculated by B3LYP/6-31G(d,p) at 3763 cm
-1 (scaled by PSE at 3593 cm
-1), at almost the same wavenumber that to our value in
1a at 3592 cm
-1. Although, a medium intensity band at 3567 cm
-1 has been found [
13,
14] in the experimental IR spectrum of BA molecule, which appears at slightly lower wavenumber than in
1a at 3596.1 cm
-1, perhaps due to a lengthening of the OH bond by weak interactions in the solid state. A weak and broad IR band is also detected in
1a at 3491.0 cm
-1 (at 3504.2 cm
-1 in Raman) which can be only due to the stretching of free O-H groups weakly intermolecular H-bonded to other molecules.
In H-bonded hydroxyl groups (cyclic dimer form through this group) the OH stretching wavenumber is red shifted (scaled) at 3035 cm
-1 (IR) and 2943 cm
-1 (Raman) and it is predicted with the strongest intensity of the spectra. This highest intensity in the dimer form appear in accordance to that calculated in the dimer of BA [
5], and to that reported in carboxylic acids [
15,
16], where it is usually identified by a broad stretching band near 3000 cm
-1. However, bands with strong or very strong intensity have not been observed in the stretching region of the experimental IR and Raman spectra. Perhaps due to they are included in the very broad band with weak-medium intensity observed in the IR spectrum at 3054.1 cm
-1, closely to our calculations in the dimer form. This feature, together with the red shifted of the ν(C=O) wavenumber in the dimer form and the experimental bands assigned to the δ(C=O) mode, indicates that in the solid state most of the molecules appear H-bonded in cyclic dimer forms through the COOH group but there are also molecules that remain free of H-bonds.
The in-plane bending δ(O-H) appears strongly coupled with CN and C-H modes, as well as with other modes. In the monomer form it appears scaled at 1238 cm
-1, in accordance to the experimental IR band observed at 1243.1 cm
-1 and the Raman line at 1243.0 cm
-1. In BA it was calculated at 1218 cm
-1 (scaled at 1189 cm
-1), slightly lower than our calculations and to the experimental IR value [
13,
14] at 1169 cm
-1. In the dimer form of
1a this mode appears spread out in many calculated wavenumbers, especially at 1540, 1454 and 1371 cm
-1. Because this mode does not represent the main contribution in the calculated wavenumber, their values were not included in
Table 5.
The out-of-plane bending γ(O-H) mode appears clearly characterized as an almost pure mode (81% PED) and scaled at 578 cm
-1, in accordance to the weak Raman line at 570.9 cm
-1. In the dimer form it was scaled at 998 and 942 cm
-1 but with almost null intensity. Thus, only the very weak Raman line at 932.5 cm
-1 could be tentatively assigned to this mode. In BA it was reported at 628 cm
-1 (in free O-H) and at 960 cm
-1 (in O-H bonded) [
5,
13,
14] in accordance to our results, as well as in
p-methoxybenzoic acid [
11] which was observed at 546 cm
-1.
2.6.2. The Carboxylate COO Group Modes in 2a
The ν
as(COO) stretching mode was predicted (scaled) with very strong IR intensity in the monomer form at 1710 cm
-1, but in the experimental IR spectrum was not detected bands in the 1590-2200 cm
-1 range, and the most closely band appears at 1588.3 cm
-1 with very strong intensity, which was related to this mode. This large red shifted to lower wavenumbers in the experimental spectra can be interpreted because of strong intermolecular interactions of these molecules through the COO group that lengthened the CO bond. This feature is in accordance to the strong IR absorption near 1600-1560 cm
-1 reported for the carboxylate group (COO
-) and corresponding to asymmetric stretching vibrations of solid state samples [
15,
16].
Because planar structures cannot be formed in
2a molecules, stacking forms were optimized at the M06-2X/6-31G(d,p) level, which were stabilized by several interactions/H-bonds of this COO group,
Figure 7. These interactions in the stacking form shifts the scaled wavenumbers of this mode, but not enough, and they are also far away of the experimental ones. This feature indicates that the packing crystal forces in the solid state are stronger than that in our simplified optimized model, with a shortening in the distance between planes that increase the COO group interactions and a lengthening of their CO bond lengths. Under a stronger packing, the wavenumbers will be closer to the experimental ones.
The symmetric ν
s(COO) stretching mode appears spread out and strongly coupled with other modes. The highest contribution was determined in the scaled wavenumber at 1304 cm
-1 with medium-strong IR intensity, in accordance to the IR band observed with medium intensity at 1299.9 cm
-1, and the very weak shoulder at 1348 cm
-1. However, our values also appear in strong disagreement with the IR absorption near 1420-1400 cm
-1 reported for this symmetric stretching in solid state samples of related compounds [
15,
16].
2.6.3. The Triazole Ring Modes
The NNN modes: The νs(NNN) stretching appears strongly coupled with the ν(C4-N) mode as well as with other ring modes and it is scaled at 1386 cm-1 in 1a. Because the very weak IR intensity predicted for this mode, it could not be related to an observed band in the experimental spectrum. However, it was predicted with strong Raman intensity and thus it was related to the strong line at 1383.8 cm-1. Similar wavenumber was calculated in the dimer form of 1a because the small effect of the dimer structure on the triazole ring. A large contribution of this mode was also observed in the scaled wavenumber at 1372 cm-1, whose mayor contribution corresponds to the C4-N stretching.
In 2a this mode was predicted with weak-medium IR intensity at 1356 cm-1 and almost null Raman intensity, and therefore it was well related to the experimental IR band with medium intensity at 1346.2 cm-1 and to the weak Raman line at 1356.8 cm-1. In the staking form, this mode is slight red shifted because the weak π-π interaction of this triazole ring with the COO group. This feature confirms the weak effect on the triazole ring of our staking optimized structure. Large contributions of this mode appear in the scaled wavenumbers at 1399 and 1319 cm-1 that were assigned to the C4-N stretching as the main contribution.
The C8-N14 modes: The stretching mode is predicted with the highest IR intensity and medium Raman activity in 1a is accordance to the very strong band observed in the IR spectrum and to the medium intensity line in Raman. It was scaled at 1562 cm-1 and good related to the IR band at 1565.1 cm-1 and Raman line at 1561.2 cm-1. Our scaled wavenumber remains almost unchanged in its dimer form. In 2a it is predicted with strong IR intensity at 1549 cm-1 but the closest experimental IR band appears at 1533.3 cm-1 and with weak intensity. This discrepancy can be due to the staking interactions of the solid state. Thus, in the staking form of 2a it was predicted at with strong intensity at 1587 and 1596 cm-1 and they can be inside of the very strong IR band at 1588.3 cm-1.
2.6.4. The Aryl Ring Modes
The assignments for several phenyl ring modes are obvious and require no further discussion, therefore the attention was focused only on some important modes here. To avoid a lengthened of the manuscript, this discussion is included in the Supplementary Material Section. For the assignments of the ring modes was followed the Varsanyi notation [
17] for a 1,4-disubstituted benzene.
2.6.5. The Methoxy OCH3 Modes
In general, the calculated wavenumbers of the methyl group, namely νas, νs, δas, δs, γas, γs agree well with the experimental values. The stretching modes are calculated as pure modes (100% PED) and with weak IR intensity, as well as the antisymmetric in-plane deformations. The symmetric in-plane mode appears as almost pure (87% PED), as well as the γas modes. However, the symmetric out-of-plane mode appears spread out in many calculated vibrations.
The C1-O1 stretching is predicted strongly coupled with phenyl ring modes. By the displacement vectors of the phenyl atoms in 2a it was assigned as mode 7a. It is predicted at 1266 cm-1 in 1a and at 1245 cm-1 in 2a with strong-very strong IR intensity in accordance to strong IR band observed at 1274.9 cm-1 and to the very strong band at 1247.9 cm-1, respectively. This mode was predicted in Raman weak-very weak intensity.