Abstract
Tetrel-bonded complexes of H n F4−n Si with a N-base for n = 0–4 were explored by MP2 calculations. Configurations with H–Si···N and F–Si···N linear or nearly linear alignment in complexes were considered. Nine sp 3 hybridized nitrogen bases NH3, NH2Cl, NH2F, NHCl2, NCl3, NFCl2, NHF2, NF2Cl, NF3 and nine sp ones NCNH2, NCCH3, NCOH, NP, NCCl, NCH, NCF, NCCN, N2 have been studied. It is shown that binding energies of the complexes depend strongly on the nature of the base involved in the complex. Complexes with NH3 bases present the highest binding energies. In the stronger complexes, the silicon molecules suffer important geometrical distortions. NBO and AIM methodologies have been applied in order to describe properly the intermolecular Si···N contact. F atoms in equatorial position at silicon acid provoke a deviation from linearity of the Si···N electron density bond path trajectory.
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1 Introduction
Non-covalent interactions play important roles in supramolecular assemblies [1, 2] and in biological chemistry [3, 4]. Although most related published works focus on hydrogen bonds [5–8], there are other weak interactions that have attracted the attention of chemists [9, 10]. These interactions have been denoted as σ-hole bonds based on the positive character of the electrostatic potential surrounding an atom of groups 14–17 of the periodic table [11–14]. σ-Hole bonds are commonly known by the name of the periodic table group of the atom acting as Lewis acid in the interaction: tetrel [15–17] (group 14), pnicogen [18, 19] (group 15), chalcogen [15, 20–22] (group 16) and halogen [14, 23, 24] (group 17) bonds.
In this work we focus on tetrel bonds, particularly in those cases where the silicon atom acts as electron acceptor. The Si atom has been shown to establish stable weak interactions with N atoms [25–29]. For instance, an intramolecular Si···N interaction is responsible for the coloration in the solid-state of disylazobenzenes [30] and it is crucial to the structural conformation stability of N,N-dimethylaminopropyl silane [31], trifluorosilylhydrazines [32] and silatranes [33, 34]. Recently, the existence of cooperativity between linear chains of (H3TCN) n and (H3TNC) n complexes, with T=C and Si, connected by tetrel bonds has been described [35, 36].
In 2015, we reported a theoretical study of P···N pnicogen bonds in F4−n H n P+:N-base with F-P···N linear or nearly linear [37, 38]. In this study, an exponential correlation between binding energies and P···N distances was found for the complexes formed by different Lewis bases. The binding energies of these complexes increase in absolute value with the number of fluorine atoms in the molecule: FH3P+ < F2H2P+ < F3HP+ < F4P+. A similar study on chalcogen bonded F3−n H n S+:N-base has been reported [22].
Following a similar idea, here we explored 144 F4−n H n Si:N-base (n = 0–4) neutral complexes being the N-base monomers either sp 3-hybridized bases NH3, NH2Cl, NH2F, NHCl2, NCl3, NFCl2, NHF2, NF2Cl, NF3 or sp bases NCNH2, NCCH3, NCOH, NP, NCCl, NCH, NCF, NCCN, N2. Both possible X-Si···N linear disposition configurations with X = F or H have been considered (see Fig. 1 for the schematic representation of the complexes of H2F2Si). In order to describe the Si···N interaction, binding energies, geometrical parameters, electron densities, bond critical points and charge-transfer energies of the minima were computed in those systems with F(H)ax-Si···N linear disposition.
2 Computational methods
The geometries of monomers and complexes have been fully optimized with the Gaussian 09 package [39] using the second order Møller–Plesset perturbation theory (MP2) [40] and the aug′-cc-pVTZ basis set [41]. This basis set is composed by the Dunning aug-cc-pVTZ [42] bases for the heavy atoms while removing the diffuse function from the H atoms. Harmonic frequency analyses have been performed to confirm that the geometry of the systems correspond to energetic minima.
Binding energies have been obtained as the difference between the energy of the complex and the sum of the energies of each monomer in its minimum geometry.
The electrostatic potentials of the isolated monomers have been calculated with the Gaussian-09 and analyzed with the Multiwfn 3.3.5 program [43] on the 0.001 au electron density isosurface to locate the position and value of the maxima critical points on the isosurface. The Molecular Electrostatic Potential Maps on the 0.001 au electron density isosurface have been plotted by using the Jmol program [44]. The electron density properties have been studied with the Atoms in Molecules (AIM) methodology [45–47] using the AIMAll program [48]. Bond critical points (BCPs) have been analyzed in terms of the electron density (ρBCP), its Laplacian \((\nabla^{2}{{\uprho_{\text{BCP}}}} )\) and the total electron energy density (HBCP). The Natural Bond Orbital (NBO) method has been applied to analyze the charge transfer between occupied and empty orbitals. The NBO stabilization energies due to the orbital charge transfer were calculated at B3LYP/aug′-cc-pVTZ level on the previously optimized geometries (MP2/aug′-cc-pVTZ level), employing the NBO-6 program [49].
3 Results and discussion
3.1 Monomers
Molecular electrostatic potential (MESP) of H n F4−n Si (n = 0–4) acids have been analyzed and represented in Fig. 2 on the 0.001 au electron density isosurface. Four MESP maximum are found in each molecule associated with the σ-hole along the extension either of the Si–F or Si–H axis. In all cases, the MESP value of the σ-hole along the Si–F bond is larger than that involving H atom. A global analysis of the MESP representation shows that the values of both types of σ-holes, along Si–F or Si–H axes, increase as the number of F atoms does (Fig. 1). Linear correlations between the MESP value on the σ-hole and the number of F atoms are obtained with good to moderate statistical values (R 2 = 0.98 and 0.87 for the σ-holes of the Si–H and Si–F bonds, respectively). Based on these results, it is expected that the strongest interactions with N-bases occur with SiF4 and, in a given molecule, the complexes associated to Si–F σ-holes should be stronger than those corresponding to the Si–H ones.
The MESP of the nitrogen bases shows a minimum on the 0.001 au electron density isosurface in the proximity of the nitrogen atom (Table 1). The values range between −0.063 for N≡C–NH2 to −0.005 for NF3. Thus, the complexes involving N≡C–NH2 are expected to provide the strongest interactions with the silicon acids.
3.2 Complexes
Cartesian coordinates and molecular graphs of all dimers here studied are gathered in Table S1 of the ESM. A representation of the complexes H n F4−n Si:NH3 is shown in Fig. 3. Complexes with SiF4, SiHF3, SiH3F and SiH4 present either C 3v or C s symmetry, and those with SiH2F2 have always C s symmetry. Note that the results obtained for the complexes of SiF4, SiH4 and SiH3F (with F in axial position) with NCH are similar to those previously described by Grabowski [17].
Table 2 lists the binding energies (BEs) of all complexes and their Si···N distances. In a few dimers involving a sp-base, the minima found corresponds to the interaction of the CN triple bond with the σ-hole of the silicon derivatives and not are considered in the discussion (see Table S1 of the ESM).
The complexes have been divided in two subgroups depending on the hybridization of nitrogen of the base, sp 3 or sp, and are listed according to the decreasing order of the binding energies with SiF4. In these complexes, the binding energies of sp 3 bases range between −9.1 and −45.0 kJ·mol−1, being those with NH3 and NF3 the strongest and the weakest one, respectively. In the case of sp bases the strongest interaction is found with NCNH2, with a BE of amount half of that with NH3, −20.1 kJ·mol−1. The weakest Si···N interaction is found with the N2 base (−7.6 kJ·mol−1). The extreme binding energy in each of the two N-bases series (sp 3 and sp) are in agreement with the values of the MESP of isolated bases but not when they are considered in a unique set since the MESP minima of NCNH2 is more negative than that of NH3 and the one of N2 is larger than that of NF3. These results points toward the possibility of secondary interactions especially in the complexes with sp 3 bases [50, 51].
An analysis of the data of Table 2 shows that for a given complex, the stabilization when the atom in axial position is a F atom is higher than when it is a H atom, except in the case of the SiH2F2:NHF2 and SiH3F:NHF2 complexes. For the former case the conclusion is the opposite and in the last case both BEs are equal (−14.4 kJ·mol−1). Concerning the Lewis acid, in general the rank of the BEs of each base is similar to that of the complexes with SiF4. Thus, linear correlations are found between the MESP minima of the N-base and the binding energy for the complexes of the sp bases for each given Lewis acid (R 2 > 0.9). Attempts to find a similar correlation for the sp 3 bases provide poor correlation coefficients (R 2 < 0.8).
There is not a clear relation between the binding energies and the number of F atoms in the Lewis acid, as occurred in the previous work with phosphines [37]. Nevertheless, for a given base, the strongest interactions are with SiH3Fax with some exceptions: the complexes of NH3, NH2F, NF3 and N2 with SiF4 present higher BE, while for NH2Cl and NHF2 are those with SiH2F2 (Fax) and with SiF3H (Fax), respectively. In the case of the sp bases, good linear correlations (R 2 > 0.96) are found for the different complexes, except for those with N2.
The Si···N intermolecular distances are also reported in Table 2. The calculated value for SiF4:NH3 is very close to the experimental microwave one (2.090 Å) [26]. The distances range from 2.074 in SiF4:NH3 to 3.481 Å in SiH4:N2, which correspond to the highest and lowest BE, respectively. Curiously, gaps in the Si···N distances are observed for the complexes of SiF4, SiF3H (Fax) and SiF3Hax complexes between 2.217–2.853, 2.208–2.789 and 2.104–2.958 Å, respectively. The histogram of the Si···N distances for all the complexes (Fig. 4) shows that the most frequent distances are between 3.0 and 3.2 Å with 44 cases, being the average value 3.00 Å.
As expected, BE increases as the Si···N intermolecular distances decrease. Several correlations are found between BE and Si···N distances. Figure 5a shows these trendlines for complexes with sp 3 nitrogen bases whereas in Fig. 5b those with sp bases are illustrated. Note that only complexes in which a F atom is in axial positions of the Lewis acid monomer have been included in the regression analysis. Complexes with sp 3 bases cover a range of distances larger than those with sp bases. In the case of sp 3 bases, trendlines of SiH3F complexes are exponential while they are linear in SiHF3 and SiH2F2 systems, with correlation coefficients of 0.935, 0.926 and 0.958 respectively. These three trendlines cross in a point around 2.6 Å. A R 2 lower than 0.8 is found in the case of SiF4 containing systems and the associated trendline is omitted. In the case of sp nitrogen bases the exponential correlations show R 2 values of 0.963, 0.983, 0.987 and 0.987 for systems with SiF4, SiHF3, SiH2F2 and SiH3F respectively. Note that for a particular BE the Si···N distances vary in order: SiH3F < SiH2F2 < SiF4 < SiHF3. The fact that, for a given silicon derivative, the correlations involving sp 3-bases are worse than those with sp-bases may indicate that the former present secondary interactions in addition to tetrel bonds, influencing their properties.
Interactions with nitrogen bases provoke variations in internal geometries of silicon derivatives. Table 3 lists Si–Fax, Si–Hax bond distances and relevant angles Fax–Si–Heq, Hax–Si–Feq and Fax–Si–Feq or Hax–Si–Feq of the complexes and of the isolated monomers. Let us start with complexes with F in position axial of the silicon acid. As it can be seen in Table 3 a stretch of bonds respect to the ones in isolated monomers is observed. This Si–Fax bond elongation is higher as BEs increase. For instance, in SiF4:NH3 (BE = –45 kJ·mol−1) and SiF4:N2 (BE = –7.6) the Si–Fax distance is 1.612 and 1.576 Å which is 0.038 and 0.002 Å longer than Si–F bond length in SiF4. The Si–Fax elongation correlates with the Si···N distances when the complexes are divided according to the bases (sp 3 and sp). The R 2 are between 0.94 and 0.96 for the sp and between 0.98 and 0.81 for the sp 3 (Fig. S1).
Modification of internal F–Si–F and F–Si–H bond angles is observed upon complexation; these angles are lower in complexes than in the isolated monomers being the variation more significant in complexes that present higher BE. For instance, the Fax–Si–Feq angle of SiF4 complexes with NH3 decrease around 13° respect to the isolated SiF4. In contrast, the F–Si–F angle of complexes of SiF3H (Fax) with NCCl, NCF and NCCN and F–Si–H of SiH2F2:NCOH are slightly larger, around 1° and 0.2°, than in the isolated monomer.
Analogous geometrical changes are observed in complexes in which H atom is axial in the silicon derivatives. In these cases the elongation percentage of Si–Hax is lower than that associated to Si–Fax. In the former case, the percentage rises up until 1.15% while for the latter ones, it rises up to 2.41%. For instance, in SiF3H:NH3 the elongation of Si-Fax is of 2.20% and of 1.15% of Si–Hax. In relation to the angles studied, angles are lower in complexes than in the isolated monomers.
Natural bond orbital (NBO) methodology was applied to analyze the charge-transfer energy [E(2)] between monomers. Charge transfer from the N-base to Si–Xax bond stabilized the tetrel bond. Relevant E(2) are shown in Tables S2 of ESM. In two cases, SiF4:NH3, SiF3Hax:NH3, the NBO program considers these complexes as just one molecule and the calculations of the intermolecular E(2) were not possible. In the rest of complexes, as expected, there is a charge transfer from the lone pair of N atom (NLP) of the base toward antibonding σ * SiXax orbital. In addition, charge transfer from NLP to antibonding Si–Feq and Si–Heq orbitals is found. In all complexes NLP → σ * SiFax charge-transfer energy is always dominant respect to NLP → σ * SiFeq or NLP → σ * SiHeq. In addition, the values of E(2) are affected by the number of fluorine atoms in the molecule. As can be seen in Fig. 6a, exponential relationships are found between E(2) NLP → σ * SiFax and the N···Si distance for the complexes of each silicon derivative with the sp-bases. The smallest values correspond to those of the SiF4 complexes, and they steadily increase as the number of F atoms in the molecule decreases.
A similar trend is observed for the NLP → σ * SiFeq charge-transfer energy Fig. 6b, but now the range of energies is about 5 times smaller than for the NLP → σ * SiFax ones. In addition, it is observed that in those cases that show NLP → σ * SiFeq and NLP → σ * SiHeq, the former is always larger than the latter.
Electron density properties at the Si···N bond critical point (BCP) have been analyzed by means of atoms in molecules (AIM) methodology. The electron density, ρBCP, its Laplacian, \((\nabla^{2}{{\uprho_{\text{BCP}}}} )\), and the total electron energy density, HBCP, at the intermolecular Si···N BCPs are gathered in Table S3. A critical point at Si···N bond is found in most of the complexes. However, the influence of F atoms in equatorial position of the acid is significant on the trajectory of the intermolecular bond paths. In some systems with F atoms in equatorial position at silicon acid, an intermolecular bond path Feq···N or Heq···N appears while the direct Si···N bond path is absent (see Molecular Graphs in the ESM). Thus, complexes with SiF4 acid and sp 3 bases: NH3, NH2Cl, NH2F and NCl3 show a BCP at Si···N but not in the rest of systems. For complexes with SiF3H acid, only those with NH3 base present a BCP at Si···N. While a similar BCP is found in almost all complexes with SiH2F2 when F is axial, no Si···N BCPs are found for complexes with H axial. In cases with SiH3F, when F atom is axial, all complexes show a BCP at Si···N, but this is found only in three complexes when H atom is situated in axial position. All complexes with SiH4 show a BCP at Si···N contact except with NHCl2.
Ranges of values of electron density properties at Si···N contact of complexes are listed in Table 4. Complexes are divided taking into account the nature of the located atom in axial position in the silicon acid. The range of ρBCP is greater for complexes with Hax than those with Fax. Both complex types present positive Laplacian, while in the case of complexes with F axial some of them have HBCP negative, and those with Hax, HBCP is always positive. Complexes with HBCP negative are those formed with strong sp 3 bases and present short Si···N distances (see ESM). Remember that positive Laplacian is found in covalent Si–N bonds as for instance H3Si–NH2 \((\nabla^{2}{{\uprho_{\text{BCP}}}} = + 0.615\,{\text{au}}).\)
We have found an exponential correlation between ρBCP and Si···N distance. This relationship is shown in Fig. 7a and presents a R 2 of 0.984. This type of correlation has been reported for other types of weak interactions [52–58]. In addition, Fig. 7b displays the variation of HBCP as function of the Si···N distance. It is important to note that for complexes with Si···N distances lower than 2.8 Å, the HBCP turns negative, indicating a partial covalent character of that bond in those complexes [59].
4 Conclusions
In summary, we have studied a total of 144 tetrel-bonded complexes of the type F4−n H n Si···N-bases (n = 0–4) with a X–Si···N linear or nearly linear alignment. Some of the complexes with sp hybridized N-bases evolve toward the CN π systems acting as electron donor instead of the nitrogen lone pair. The computed binding energies of complexes range between −45.0 and −7.6 kJ mol−1, being the SiF4:NH3 complex the most stable. The Si-N distances in the complexes range between 2.07 and 3.48 Å. Exponential correlations are found between the binding energy and the intermolecular distances.
The complex formation provokes modifications in internal geometries of the silicon acid such as elongation of Si–Xax bond and a decrease in the Xax–Si–Feq and Xax–Si–Heq bond angles (X = F or H). The elongation of the Si–Fax bonds correlates with the intermolecular distances found in the complexes.
Based on the NBO method, the complexes are stabilized by a NLP → σ * SiXax charge transfer and by a secondary NLP → σ * SiXeq one. The values of such stabilizations correlate exponentially with the intermolecular distance.
Atom in molecules analysis shows the presence of Si···N bond paths in most of the complexes. In some cases, the presence of F atoms in equatorial position produces a deviation of the bond path ending it in one of the atoms bonded to the silicon (Feq or Heq). An exponential correlation between the electron density at the Si···N bond critical point and the intermolecular Si···N distance has been found. The values of the Laplacian and total electron density at the BCP with strong sp 3 bases indicate that they have partial covalent character.
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Acknowledgements
This work was carried out with financial support from the Ministerio de Economía y Competitividad (Project No. CTQ2015-63997-C2-2-P) and Comunidad Autónoma de Madrid (Project FOTOCARBON, ref S2013/MIT-2841). Computer, storage and other resources from the CTI (CSIC) are gratefully acknowledged.
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Published as part of the special collection of articles derived from the 10th Congress on Electronic Structure: Principles and Applications (ESPA-2016).
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Marín-Luna, M., Alkorta, I. & Elguero, J. A theoretical study of the H n F4−n Si:N-base (n = 1–4) tetrel-bonded complexes. Theor Chem Acc 136, 41 (2017). https://doi.org/10.1007/s00214-017-2069-z
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DOI: https://doi.org/10.1007/s00214-017-2069-z