Ghodrat
Mahmoudi
ab,
Isabel
García-Santos
*c,
Roi
Fernández-Vázquez
c,
Rosa M.
Gomila
d,
Alfonso
Castiñeiras
c,
Esmail
Doustkhah
b,
Ennio
Zangrando
e and
Antonio
Frontera
*d
aDepartment of Chemistry, Faculty of Science, University of Maragheh, P.O. Box 55136-83111, Maragheh, Iran
bChemistry Department, Faculty of Engineering and Natural Sciences, Istinye University, Sarıyer, Istanbul 34396, Turkey
cDepartamento de Química Inorgánica, Facultad de Farmacia, Universidad de Santiago de Compostela, E-15782 Santiago de Compostela, Spain. E-mail: isabel.garcia@usc.es
dDepartment of Chemistry, Universitat de les Illes Balears, Crta de Valldemossa km 7.5, 07122 Palma de Mallorca, Baleares, Spain
eDepartment of Chemical and Pharmaceutical Sciences, University of Trieste, Via L. Giorgieri 1, 34127 Trieste, Italy
First published on 17th April 2024
Four lead(II) complexes featuring pyrazoylisonicotinoylhydrazone ligand paired with various anionic co-ligands (azido, thiocyanato, nitrito, and nitrato) were synthesized and thoroughly examined using structural, analytical, and spectroscopic techniques. These ligands, in their mono-deprotonated state, bind to the lead(II) ion in a tridentate manner through two nitrogen atoms and one oxygen atom. Single-crystal X-ray crystallography revealed the capacity of these molecular complexes to form larger aggregates influenced by the nature of the anion attached to the metal center. In every complex, the lead atom adopts a hemidirectional coordination environment, making it geometrically suited for tetrel bond formation. The crystal structures demonstrate that lead atoms engage in notably short interactions with nitrogen atoms, distances that are shorter than the sum of their van der Waals radii yet exceed the sum of their covalent radii. These tetrel bonds play a pivotal role in weaving the monomeric into self-assembled dimers or extended supramolecular 1D polymers. The formation and characteristics of these intriguing supramolecular structures observed in the solid state of each complex were further explored and validated through density functional theory (DFT) calculations and several computational tools like MEP, NCIPlot, QTAIM, and ELF methods.
Expanding on this concept, Cavallo et al.12 have introduced a framework for categorizing interactions based on the nature of the electrophilic site involved.13 This includes pnictogen bonds,14 chalcogen bonds,15 tetrel bonds,16 and aerogen bonds,17 among others, thus enriching the vocabulary of non-covalent bonding in chemistry. Each of these interactions offers unique perspectives on how molecules associate and assemble, influencing their structural, electronic, and dynamic properties.
The evolution of these concepts requires rigorous scholarly examination. The precise characterizations and theoretical underpinnings of such non-covalent bonds are subjects of ongoing research. In this vein, a notable initiative by the International Union of Pure and Applied Chemistry (IUPAC) aims to categorize these interactions formally. The project, entitled “Categorizing Chalcogen, Pnictogen, and Tetrel Bonds, and Other Interactions Involving Groups 14–16 Elements”,18 seeks to establish clear definitions and criteria for these bonds. Through this endeavour, IUPAC aims to standardize the terminology and understanding of these crucial interactions, reflecting the growing recognition of their significance in chemistry and material science. This effort underscores the dynamic nature of the field, where new discoveries and insights continuously reshape our comprehension of this topic.
Electron-deficient areas, known as σ-holes, are notably found on the covalently bonded heavier atoms of groups 14 to 18, extending directly from the covalent bonds.19 The characteristics of these σ-holes, specifically their size and degree of electron deficiency, are influenced by the electron-withdrawing capacity of the attached group and the polarizability of the atom hosting the σ-hole.20–22 While σ-hole interactions have been extensively explored for groups 17–15, those involving group 14 (tetrel bonding interactions) have been less frequently reported.23 Nonetheless, studies have demonstrated their considerable strength, especially involving tin and lead, the metal constituents of group IV.24 Our research team and others have previously contributed to this field by designing and synthesizing lead(II) metal–organic frameworks (MOFs) that utilize both covalent and noncovalent tetrel bonding mechanisms.25,26 In these structures, noncovalent Pb⋯S and Pb⋯N tetrel bonds play a crucial role in linking the covalently bonded components into larger supramolecular assemblies. Further investigation has underscored the significant and predictable presence of tetrel bonds in lead's solid-state chemistry, particularly when lead is hemidirectionally coordinated.27–33 It has also been demonstrated that solid-state 207Pb NMR spectroscopy is a valuable tool in studying compounds featuring lead tetrel bonds.34
In this manuscript we report the synthesis and spectroscopic characterization of four lead(II) complexes with tridentate pyrazoylisonicotinoylhydrazone ligand and different anionic co-ligands (azido, thiocyanato, nitrito, and nitrato). Single-crystal X-ray crystallography showed that these complexes can aggregate into larger structures, depending on the coordinated anion. The lead atom's hemidirectional coordination is conducive to tetrel bond formation, evident in short Pb⋯N,O,S interactions within the structures. These tetrel bonds are crucial for forming dimers and 1D supramolecular polymers, as confirmed by density functional theory (DFT) calculations and other computational analyses, including MEP, NCIPlot, QTAIM, and ELF methods. This manuscript highlights the multifaceted roles of tetrel bonding in defining molecular structures.
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Fig. 1 Top: ORTEP drawing (ellipsoid probability at 50%) of complex 1. Bottom: ORTEP drawing (ellipsoid probability at 50%) of complex 2. |
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Fig. 2 Left: ORTEP drawing (ellipsoid probability at 50%) of complex 3. Right: ORTEP drawing (ellipsoid probability at 40%) of complex 4. |
The Pb–O1, Pb–N1 and Pb–N2 bond lengths are close comparable in all structure falling in the ranges 2.338(5)–2.374(2), 2.7013(17)–2.780(6) and 2.375(3)–2.384(5) Å, respectively. The Pb–N (N3), and Pb–NCS bond distance in complexes 1 and 2 are of 2.3862(19) and 2.374(3) Å, respectively. The azide and NCS anions are differently oriented with respect to the organic ligand with N–N–Pb and C–N–Pb bond angles of 120.36(15) and 138.1(3)°, respectively. On the other hand, in 3 and 4 the nitrite and nitrate anions asymmetrically chelate the metal being Pb–O2 and Pb–O3 of 2.402 and 2.823 Å, respectively (mean values for the two complexes). The pyridine and pyrazine rings are almost coplanar, and the dihedral angle between them is larger (ca. 5.7(1)°) is observed in complex 1, indicating an electron delocalization in all ligands. These geometrical parameters are in agreement with those measured in complexes with similar organic ligands.50–53
In each complex, the covalent bonds are concentrated on one side of the coordination sphere so as to leave a space on the Pb(II) ion, which enables a close approach with N, (O, or S) atoms of symmetry-related complexes (Fig. 1 and 2) as detailed reported in Table 1. These connections in complexes 1, 2 and 4 comprise the pyrazine nitrogen N4 with Pb⋯N4 distances of 3.3724(19), 3.255(3) and 3.106(6) Å, respectively, while in complex 3 the pyrazine N4 is more distant at 3.781 Å. In addition, the metals in all species are separated from N3 of a complex related by an inversion center with Pb⋯N3 distances in a range of 3.064(6)–3.3662(17) Å.
1 | 2 | 3 | 4 | ||
---|---|---|---|---|---|
Symmetry codes: (1) #1 −x + 2, −y, −z + 2; #2 −x + 2, −y, −z + 1; #3 x − 1, y, z; (2) #1 −x, −y, −z + 2; #2 −x, −y, −z + 1; #3 x − 1, y, z; (3) #1 −x + 2, −y, −z + 1; #2 −x + 2, −y, −z + 2; (4) #1 −x + 2, −y, −z; #2 −x + 2, y + 1/2, −z + 1/2. | |||||
Pb–O(1) | 2.3600(14) | 2.346(3) | Pb–O(1) | 2.374(2) | 2.338(5) |
Pb–N(1) | 2.7013(17) | 2.717(3) | Pb–N(1) | 2.720(3) | 2.782(6) |
Pb–N(2) | 2.3765(16) | 2.375(3) | Pb–N(2) | 2.363(3) | 2.384(6) |
Pb–N(7) | 2.3862(19) | 2.374(3) | Pb–O(2) | 2.411(3) | 2.391(6) |
Pb–N(7)#1 | 3.128(2) | — | Pb–O(3) | 2.837(4) | 2.808(9) |
Pb–N(2)#2 | 3.7743(2) | 3.452(3) | Pb–N(2)#1 | 3.437(3) | 3.437(6) |
Pb–N(3)#2 | 3.3662(17) | 3.176(3) | Pb–N(3)#1 | 3.111(3) | 3.064(6) |
Pb–N(4)#3 | 3.3724(19) | 3.255(3) | Pb–N(4)#2 | 3.781(3) | 3.106(6) |
Pb–S(1)#1 | — | 3.4175(11) | Pb–O(3)#2 | 3.557(3) | — |
However, the presence of amino groups facilitates the formation of intermolecular H-bonds. In all cases the NH2 interacts via hydrogen bond with the uncoordinated N6 of a symmetry related complex with comparable N5⋯N6 distances of 2.907(3), 2.919(5), 2.945(4) and 2.954(9) Å, in 1–4, respectively. In complex 1 these N5–H⋯N6 interactions form a zig-zag 1D polymer in the crystallographic direction [201], while the second H is involved in an intramolecular interaction with N3, as displayed in Fig. 3. Each complex faces a counterpart correlated by an inversion center of adjacent polymers supporting π-stacking interactions between pyridine/pyrazine pairs (Fig. 3) as well as Pb⋯N3 tetrel bonds.
On the other hand, in 2–4, the second hydrogen of the amino group interacts with atom S1 (in complex 2) and with oxygen O2 in 3 and 4. As result, the crystal packing of complex 2 shows the formation of undulated layers (Fig. 4) developed parallel to ac plane. More appealing are the crystal packings of complexes 3 and 4 realized by H-bond interactions that, as shown in Fig. 5 and 6, result in a double 2D polymeric layers of comparable topology with complexes centro-symmetrically paired that favor π-stacking interactions between pyridine and the pyrazine rings of symmetry-related complex. All the centroid-to-centroid distances between the heterocyclic rings fall in the range 3.545(1)–3.635(2) Å. Geometrical parameters of H-bonds and π⋯stacking interactions are reported in Tables S1 and S2,† respectively.
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Fig. 5 Top: The double 2D polymeric layers built by H-bond interactions in complex 3. Bottom: A detail of paired complexes unit. |
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Fig. 6 Top: The double 2D polymeric layers built by H-bond interactions in complex 4. Bottom: A detail of paired complexes unit. |
To further understand the donor–acceptor dynamics of the Pb(II) complexes, we calculated the molecular electrostatic potential (MEP) surfaces for compounds 1–4, illustrated in Fig. 7 and 8. Intriguingly, for compounds 1 and 2, the MEP surfaces revealed the most positive region at the NH2 group (not shown in the perspective used in Fig. 7), while the most negative region was found on the pyridine's N atom rather than the expected pseudohalide ligand. This observation sheds light on the formation of the NH⋯N H-bonds. The MEP values are large and positive at the Pb-atom, showing three local MEP maxima approximately on the extension of three covalent Pb–O,N bonds.
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Fig. 7 MEP plotted onto the van der Waals surface of compounds 1 (a) and 2 (b) computed at the PBE0-D3/def2-TZP level of theory. The MEP values at selected points of the surfaces are indicated. |
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Fig. 8 MEP plotted onto the van der Waals surface of compounds 3 (a) and 4 (b) computed at the PBE0-D3/def2-TZP level of theory. The MEP values at selected points of the surfaces are indicated. |
Notably, the MEP surface analysis highlighted that MEP values over the center of pyridine and pyrimidine rings displayed contrasting signs, suggesting that the complexes will have a strong tendency to establish antiparallel π-stacking (electrostatically facilitated) between the coordinated pyrimidine and uncoordinated pyridine rings, as demonstrated in all complexes (vide infra). The MEP analysis shows a variety of electron-rich atoms apart from the pyridine N-atom and the pseudohalide ligands, which are the non-coordinated pyrimidine N-atom, the coordinated O-atom of the organic ligand (L) and the amidic N-atom, ranging from −15.7 to −22.6 kcal mol−1. The MEP surfaces of compounds 3 and 4 are shown in Fig. 8, which are similar to those of compounds 1 and 2. The main difference is in compound 4, where the minimum is located at the nitrito ligand (−40.2 kcal mol−1) instead of the pyridine N-atom (−38.3 kcal mol−1) as observed in 1–3.
Two tetrel bonding self-assembled dimers of compounds 1 and 2 have been studied using QTAIM analysis (see Fig. 9a, c, d and f). Moreover, two additional dimers extracted from 1D supramolecular chains of both compounds have been analyzed (see Fig. 9c and e). The energetic results and distribution of bond critical points (BCPs) and bond paths of all dimers are given in Fig. 9. The self-assembled dimers represented in Fig. 8a and d are formed by means of two symmetrically equivalent tetrel bonds (TtB) that are established between the lead atom and the N/S-atoms of the anionic co-ligands. Both exhibit considerable dimerization energies, −18.7 kcal mol−1 and −21.9 kcal mol−1 for 1 and 2, respectively. The stronger binding energy observed for the dimer of 2 can be related to the more intense σ-hole (Fig. 7) and the larger contribution of the ancillary H-bonds. Than is, the QTAIM analysis not only shows the bond critical points (BCPs) and bond paths connecting the Pb and N,S-atoms but also reveals the existence of CH⋯N contacts involving aromatic CH bonds and the N-atoms of the pseudohalide coligands. In red font, the contribution of each H-bond is indicated, which was estimated using Espinosa's methodology.54 It demonstrates that the HB is stronger in 2 (−1.3 kcal mol−1) than in 1 (−0.9 kcal mol−1), thus further contributing to the larger dimerization energy observed in 2. The interaction energies of the antiparallel π-stacking dimers are considerable (−23.9 kcal mol−1 and −25.0 kcal mol−1, respectively) in agreement with the MEP study that shows opposite signs for the MEP values over the coordinated pyridine and uncoordinated pyrazine rings. Consequently, these electrostatically enhanced π⋯π complexes are powerful binding motifs in the crystal structure. In fact, these motifs are common in all four structures (see Fig. 9 and 10). The QTAIM analysis (Fig. 9c and f) shows that the pyridine⋯pyrimidine stacking is characterized by two BCPs and bond paths interconnecting two atoms of the aromatic rings. The QTAIM analysis also shows BCPs and bond paths connecting the Pb-atoms to the N-atoms of the five-membered chelate rings (CRs). Additional BCPs and bond paths interconnect the chelate rings, thus disclosing that these rings are also active players in the π-binding mechanism and explain the large binding energies. Apart from the self-assembled dimers, both compounds form infinite 1D chains that propagate by means of N4⋯Pb TtBs (see Fig. 1 and Table 1).
Dimers extracted from the 1D supramolecular polymers are shown in Fig. 9b and e. The TtB is characterized by the corresponding BCP and bond path interconnecting the Pb and N-atoms. Moreover, the QTAIM analysis also reveals the presence of a concurrent CH⋯O interaction that contributes −1.7 kcal mol−1 in 1 and −1.8 kcal mol−1 to assembly. This energetic analysis evidences that the formation of these dimers (and consequently the 1D chains) is dominated by the tetrel bond, whose interaction energy is almost identical in both compounds (−6.5 and −6.4 kcal mol−1 in 1 and 2, respectively). The studied tetrel bonded dimers of compounds 3 and 4 are given in Fig. 10. As commented above, both π-stacked self-assembled dimers are also observed in both compounds, evidencing that this is a concurrent and strong binding motif in all compounds. The interaction energies are similar to those computed for compounds 1 and 2. Regarding the supramolecular 1D polymer propagated by tetrel bonds, it is only observed in compound 4. That is, the N4⋯Pb distance is very long in compound 3, 3.781 Å, see Table 1 (0.211 Å longer than the sum of van der Waals radii), and thus not considered in this study. In addition, the self-assembled TtB dimer involving the anionic coligand as the donor is only observed in compound 3. It is worth mentioning that, in both compounds, the anionic coligand is bonded to the Pb-atom by a conventional coordination Pb–O bond and a noncovalent Pb⋯O tetrel bond, that is also represented in Fig. 10. This intramolecular contact diminishes the ability of Pb to establish intermolecular tetrel bonds, explaining the long N4⋯Pb distance in 3 and the absence of Pb⋯O(NO3) contacts in 4. It can be observed that in the TtB dimers of compounds 3 (Fig. 10a) and 4 (Fig. 10c), tetrel and hydrogen bonds are concurrently established. The contribution of the H-bond is −1.1 kcal mol−1 in 3 and −1.9 kcal mol−1 in 4.
The binding energy of the self-assembled tetrel bonding dimer in 3 is −11.3 kcal mol−1 (Fig. 10a), which is significantly smaller than those of compounds 1 and 2 in line with the less intense σ-hole opposite to the Pb–O bond observed in 3 compared to 1 and 2. This difference in the MEP value is most likely due to the influence of the intramolecular Pb⋯O(NO2) interaction. The contour line diagrams of the Laplacian of electron density distribution ∇2ρ(r), bond paths, visualization of reduced density gradient (RDG) and electron localization function (ELF) 2D maps for self-assembled TtB dimers of compounds 1–3 are shown in Fig. 11. These 2D maps along the QTAIM parameters at the BCPs evidence that the Pb⋯N,S,O contacts can be classified as noncovalent and similar to previously reported systems.25–34 That is, the low magnitude of the electron density (0.0049–0.0156 a.u.), positive values of the Laplacian of electron density (0.0170–0.0380 a.u.), and positive values of total energy density (G > |V|) values are typical for weak noncovalent interactions. The Laplacian of electron density can be decomposed into the sum of contributions along the three principal axes of maximal variation, giving the three eigenvalues of the Hessian matrix (λ1, λ2, and λ3). The sign of λ2 can be utilized to distinguish bonding (attractive, λ2 < 0) weak interactions from non-bonding ones (repulsive, λ2 > 0).47 Thus, all tetrel bonds are attractive in line with the binding energies.
The 2D ELF maps are also useful to confirm the σ-hole nature of the interaction. They clearly show that the bond paths characterizing the TtBs in 1–3 cross the LP at the electron donor atom (N, S, O) and the region around the Pb-atom where the ELF is significantly reduced (σ-hole), see Fig. 11.
Footnote |
† Electronic supplementary information (ESI) available: Tables S1 to S3. CCDC 2339688–2339691. For ESI and crystallographic data in CIF or other electronic format see DOI: https://doi.org/10.1039/d4ce00325j |
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