Ghodrat
Mahmoudi
ab,
Isabel
Garcia-Santos
*c,
Alfonso
Castiñeiras
c,
Roi
Fernández-Vazquez
c,
Masoumeh
Servati Gargari
*d,
Rosa M.
Gomila
e,
Antonio
Frontera
*e and
Damir A.
Safin
*fg
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
dWestern Caspian University, Baku, Azerbaijan. E-mail: masoumehservatigargari@gmail.com
eDepartament de Química, Universitat de les Illes Balears, Crta de Valldemossa km 7.5, 07122 Palma de Mallorca, Baleares, Spain. E-mail: toni.frontera@uib.es
fUniversity of Tyumen, Tyumen, 625003, Russian Federation. E-mail: damir.a.safin@gmail.com
gScientific and Educational and Innovation Center for Chemical and Pharmaceutical Technologies, Ural Federal University named after the First President of Russia B. N. Yeltsin, Ekaterinburg, 620002, Russian Federation
First published on 17th July 2024
Two novel supramolecular heteroleptic complexes [Pb2L2(NO3)2]n (1) and {[Pb3L3](ClO4)3}n·3.25nH2O (2·3.25nH2O), obtained from N′-(piperidine-1-carbonothioyl)picolinohydrazonamide (HL) and Pb(NO3)2 or Pb(ClO4)2 in aqueous methanol are reported. A crucial role of the auxiliary ligand (NO3−vs. ClO4−) was revealed as a driving force for the formation of the resulting architecture of complexes, which, in turn, are dictated by the formation of tetrel bonds. Complex 1 is constructed from heteroleptic dinuclear centrosymmetric species [Pb2L2(NO3)2], which, in turn, are formed from the heteroleptic mononuclear symmetry related [PbL(NO3)] units, linked through a pair of bonds formed between the metal cations and the thioamide nitrogen atoms. The metal cations form a weaker tetrel bond with the symmetry related nitrate atoms, yielding a 1D polymeric chain structure. These chains are interlinked through N–H⋯O hydrogen bonds, formed between the covalently coordinated nitrate oxygen atom and the NH2 hydrogen atom, yielding a 2D supramolecular architecture. Complex 2·3.25nH2O is constructed from the trinuclear species [Pb3L3](ClO4)3. The trinuclear cation is constructed from three [PbL]+ cations interlinked through two Pb–S and two Pb–N bonds, formed with the thiocarbonyl sulfur atoms and the amide nitrogen atoms. The cations [Pb3L3]3+ are interlinked through two Pb–N and two Pb–S bonds yielding a 1D supramolecular polymeric cationic chain {[Pb3L3]3+}n. The two metal cations corresponding to two [PbL]+ units, linked through a pair of the Pb–S bonds, are additionally bridged by two oxygen atoms of one of the perchlorate anions with the formation of two Pb⋯O tetrel bonds. The coordination spheres of the metal cations are filled by one of the oxygen atoms of two different perchlorate anions with the formation of tetrel bonds. One of these perchlorates also forms the N–H⋯O hydrogen bond within the trinuclear unit [Pb3L3](ClO4)3. 1D supramolecular chains {[Pb3L3]3+}n are interlinked through a myriad of hydrogen bonds formed by the perchlorate anions and crystallized water molecules. The tetrel bonds involving the counterions (Pb⋯O) have been also analysed by DFT calculations via a MEP surface plot and 2D maps of electron localization function (ELF), Laplacian of electron density (∇2ρ) and reduced density gradient (RDG), confirming their noncovalent nature.
Numerous noncovalent interactions are well recognized in modern synthetic chemistry, and they are an effective tool for driving crystal packing. Hydrogen bonds and π-stacking interactions are doubtlessly the most well-known and extensively applied types of noncovalent interactions.15–21 About twenty years ago, the concept of a σ-hole was presented.22 Subsequently, this concept gained widespread recognition as one of the key factors determining structure. According to this concept, Lewis acid atoms' σ-holes are localized electron-deficient regions that can interact with Lewis base atoms' electron-rich regions. Tetrel bonding is one of the various forms of σ-hole interactions that has received a lot of attention. An atom belonging to group 14 forms this kind of noncovalent contact as a Lewis acid.23 The lead(II) cation (Pb2+) appears to be of special interest for its potential activity to form tetrel bonding because of its large ionic radius and a rich variety of coordination numbers. Moreover, the Pb2+ cation's 6s2 lone-pair can produce either hemidirectional or holodirectional coordination.24–27 The hemidirectional coordination environment can favor tetrel bonding and lead to the production of supramolecular architectures with extended structures. The construction and characteristics of crystal networks are largely determined by these tetrel bonding interactions. This method of approaching crystal engineering opens up new possibilities for the development of novel materials and provides profound understanding of the basic interactions that control the assembly of intricate crystal structures.
With all this in mind and in continuation of our comprehensive studies in the coordination chemistry of the supramolecular Pb2+ architectures as well in revealing of the role of noncovalent interactions in the formation of extended structures,28–37 we have directed our attention on the zwitterionic form of N′-(piperidine-1-carbonothioyl)picolinohydrazonamide (HL).38 Notably, a comprehensive search in the Cambridge Structural database (CSD) revealed only 7 known crystal structures of metal complexes derived from HL, namely [M(HL)Hal2]·DMSO (M = Zn, Hal = Br;38 M = Cd, Hal = Cl, Br, I;39 M = Hg, Hal = Br39), [Cu(HL)Cl2]·MeOH38 and [Ni(HL)Cl]Cl,40 and 6 crystal structures of metal complexes derived from the deprotonated form L, namely [ML2] (M = Zn, Cd;39 Ni40), [FeL2]ClO4,38 [NiL(OAc-O)]40 and [Zn2L2(OAc-O,O′)(OAc-O)]·solvent.38 Notably, all the reported metal complexes exhibit a discrete mononuclear structure, except the latter one, which is, although also being discrete, binuclear. Thus, the coordination chemistry of HL was poorly studied, and further research insights are required. Finally, to elucidate the nature of the Pb⋯O tetrel bonds observed in the self-assembled supramolecular dimers of [Pb2L2(NO3)2], involving the coordinated nitrate anions, DFT calculations were performed alongside MEP surface and QTAIM analyses. For [Pb3L3](ClO4)3, the tetrel bonding nature of Pb⋯ClO4− contacts was also analyzed using ELF and Laplacian of the electron density 2D maps.
Structural analysis of complex 1 revealed that it crystallizes in monoclinic space group P2/c and shows the formation of a heteroleptic dinuclear centrosymmetric species [Pb2L2(NO3)2] (1) (Fig. 1). The deprotonated ligands L coordinate the Pb2+ cations through the pyridine N1 and imine N2 nitrogen atoms, and the thiocarbonyl S1 sulfur atom with bond lengths of 2.584(2), 2.395(2) and 2.7164(8) Å, respectively (Table 1). As a result, the ligand L forms two five-membered chelate metallocycles (Fig. 1). The dinuclear species [Pb2L2(NO3)2] are formed from the two [PbL(NO3)] building units, linked through a pair of bonds formed between the metal cations and the thioamide N3′ nitrogen atoms with the bond length of 2.778(2) Å (Fig. 1, Table 1). The coordination sphere of the metal cations is filled by the oxygen atoms of the anisobidentate nitrate anion with the bond lengths of 2.593(2) and 3.062(2) Å (Fig. 1, Table 1). The metal cation exhibits a hemidirected coordination geometry that allows the formation of a weaker tetrel bond with the symmetry related nitrate atom O2 at 3.220(2) Å (Table 1). This tetrel bonding links dimeric species [Pb2L2(NO3)2] into a 1D polymeric chain structure along the a axis (Fig. 2). The polymeric chain is further strengthened by N5–H5B⋯O2 hydrogen bonds formed between the weakly coordinated nitrate oxygen atom and one of the NH2 hydrogen atoms (Fig. 2, Table 2). Furthermore, the analysis of crystal packing evidences that the polymeric chains are interlinked through N5–H5A⋯O1 hydrogen bonds, formed between the covalently coordinated nitrate oxygen atom and the second NH2 hydrogen atom, yielding an undulated 2D supramolecular architecture parallel to ac plane (Fig. 2, Table 2).
![]() | ||
Fig. 1 Molecular structures of [Pb2L2(NO3)2] (left) and [Pb3L3](ClO4)3 (right). CH hydrogen atoms and water molecules were omitted for clarity. |
Bond | Length | Type | Bond | Length | Type |
---|---|---|---|---|---|
Complex 1 | Complex 2·3.25nH2O | ||||
a Symmetry code: #1 1 − x, y, 1/2 − z; #2 2 − x, y, 1/2 − z; #3 1/2 − x, y, −z; #4 1/2 − x, 3/2 − y, 1/2 − z; #5 x, 1 + y, z. | |||||
Pb1–N1 | 2.584(2) | Covalent | Pb1–N1 | 2.585(5) | Covalent |
Pb1–N2 | 2.395(2) | Covalent | Pb1–N2 | 2.425(5) | Covalent |
Pb1–S1 | 2.7164(8) | Covalent | Pb1–S1 | 2.817(2) | Covalent |
Pb1–N3#1 | 2.778(2) | Covalent | Pb1–S2 | 2.904(2) | Covalent |
Pb1–O1 | 2.593(2) | Covalent | Pb1–N3#3 | 2.841(4) | Covalent |
Pb1⋯O2 | 3.062(2) | Tetrel | Pb1⋯O11 | 3.057(5) | Tetrel |
Pb1⋯O2#2 | 3.220(2) | Tetrel | Pb1⋯O33 | 3.317(5) | Tetrel |
Pb2–N6 | 2.575(5) | Covalent | |||
Pb2–N7 | 2.452(5) | Covalent | |||
Pb2–S2 | 2.800(2) | Covalent | |||
Pb2–S1 | 2.920(2) | Covalent | |||
Pb2–N13 | 2.865(5) | Covalent | |||
Pb2⋯O14 | 3.075(4) | Tetrel | |||
Pb2⋯O24 | 3.106(7) | Tetrel | |||
Pb3–N11 | 2.551(5) | Covalent | |||
Pb3–N12 | 2.380(5) | Covalent | |||
Pb3–S3 | 2.792(1) | Covalent | |||
Pb3–N8 | 2.716(5) | Covalent | |||
Pb3–S3#4 | 2.940(2) | Covalent | |||
Pb3⋯O22#5 | 3.125(5) | Tetrel |
D–H⋯A | d(D–H) | d(H⋯A) | d(D⋯A) | ∠(DHA) |
---|---|---|---|---|
Complex 1 | ||||
a Symmetry code: #1 1 − x, −y, −z; #2 −1 + x, y, z; #3 1/2 − x, y, −z; #4 x, y, z; #5 −1/2 + x, 1 − y, z; #6 −1/2 + x, 2 − y, z. | ||||
N5–H5A⋯O1#1 | 0.84(3) | 2.38(3) | 3.149(3) | 153(3) |
N5–H5B⋯O1#2 | 0.84(3) | 2.48(3) | 3.209(3) | 145(3) |
Complex 2·3.25nH2O | ||||
---|---|---|---|---|
N5–H5A⋯O34#3 | 0.92 | 2.25 | 3.036(7) | 143 |
N5–H5B⋯O2W#4 | 0.92 | 2.26 | 3.008(6) | 137 |
N10–H10C⋯O2W#4 | 0.93 | 2.05 | 2.948(6) | 161 |
O1W–H11W⋯O12#5 | 0.85 | 2.50 | 2.929(6) | 112 |
O2W–H12W⋯O31#6 | 0.84 | 2.09 | 2.932(6) | 175 |
O3W–H13W⋯O23#4 | 0.85 | 2.30 | 3.113(7) | 161 |
N15–H15A⋯O1W#4 | 0.93 | 1.98 | 2.896(7) | 167 |
N15–H15B⋯O21#4 | 0.92 | 2.21 | 3.011(7) | 146 |
O1W–H21W⋯O3W#4 | 0.85 | 1.95 | 2.802(6) | 175 |
O2W–H22W⋯O32#3 | 0.88 | 2.34 | 3.155(6) | 153 |
O3W–H23W⋯O33#5 | 0.82 | 2.30 | 3.088(8) | 161 |
Complex 2·3.25nH2O is built from the trinuclear species [Pb3L3](ClO4)3 comprising a homoleptic cation [Pb3L3]3+ counterbalanced by three perchlorate anions (Fig. 1). The trinuclear cation is constructed from three [PbL]+ cations interlinked through two Pb–S and two Pb–N bonds, formed with the thiocarbonyl sulfur atoms and the amide nitrogen atoms (Fig. 1). The Pb–N bonds formed with the pyridine and imine nitrogen atoms within the three [PbL]+ units in the structure of [Pb3L3](ClO4)3 are similar to those in the structure of [Pb2L2(NO3)2] (Table 1). However, the Pb–S bonds are about 0.08–0.1 Å longer in the structure of [Pb3L3](ClO4)3 compared to the structure of [Pb2L2(NO3)2] (Table 1). This is explained by the formation of bridging Pb–S bonds, which are, in turn, even longer and of about 2.90–2.94 Å (Table 1), both within the structure of [Pb3L3](ClO4)3 and between the units [Pb3L3](ClO4)3 (Fig. 1 and 2). The bridging Pb–N bonds, formed with the thioamide nitrogen atoms, are 2.716(5) and 2.865(5) Å within the structure of [Pb3L3](ClO4)3, and 2.841(4) Å between the units [Pb3L3](ClO4)3 (Table 1). Thus, the homoleptic trinuclear cations [Pb3L3]3+ are interlinked through two Pb–N and two Pb–S bonds yielding a 1D supramolecular polymeric cationic chain {[Pb3L3]3+}n (Fig. 2).
The Pb1 and Pb2 cations corresponding to two [PbL]+ units, linked through a pair of the Pb–S bonds, are further interlinked through two oxygen atoms of one of the perchlorate anions with the formation of two Pb⋯O tetrel bonds of about 3.06–3.08 Å (Fig. 1, Table 1). The coordination spheres of the metal cations are filled by one of the oxygen atoms of two different perchlorate anions with the formation of tetrel bonds of about 3.11–3.32 Å (Fig. 1 and 2, Table 1). One of these perchlorates also forms the N15–H15B⋯O21 hydrogen bond further strengthening the trinuclear unit [Pb3L3](ClO4)3 (Fig. 1 and 2, Table 1). Finally, 1D supramolecular polymeric cationic chains {[Pb3L3]3+}n are interlinked through a myriad of hydrogen bonds formed by the perchlorate anions and crystallized water molecules (Table 2).
The first part of the theoretical study focuses on analyzing a self-assembled dimer of [Pb2L2(NO3)2], extracted from the 2D supramolecular layer, which is formed by two symmetrically equivalent Pb⋯ONO2 interactions (Fig. 2, magenta dashed lines). Initially, we computed the molecular electrostatic potential (MEP) surface of [Pb2L2(NO3)2] to identify the nucleophilic and electrophilic regions of the complex. The MEP surface of [Pb2L2(NO3)2] shows a minimum at the nitrate oxygen atoms (−55.2 kcal mol−1) and a maximum at the NH2 groups (64.4 kcal mol−1) (Fig. 3). This distribution explains the formation of the N–H⋯O bonds (Fig. 2, Table 2), that interconnect the 1D chains propagated by Pb⋯O contacts. The MEP at the Pb atom is anisotropic and presents a region where the MEP is a local maximum (σ-hole), which becomes evident when a reduced scale is applied (Fig. 3). The MEP value at the σ-hole is a modest 6.3 kcal mol−1.
![]() | ||
Fig. 3 The MEP surface of [Pb2L2(NO3)2] at the PBE0-D3/def2-TZVP level of theory. The MEP at the Pb atom using a reduced scale is represented in the bottom-right part of the figure. |
Using quantum theory of atoms in molecules (QTAIM) analysis, we examined the centrosymmetric dimer, which is stabilized by hydrogen bonds and tetrel bonds (Fig. 3). The analysis reveals that the monomers are interconnected by six bond critical points and bond paths (Fig. 4). In addition to these intermolecular bond paths, we also show for comparison two intramolecular bond critical points (BCPs) and bond paths that characterize the Pb1⋯O2 contacts (Fig. 4). Therefore, each nitrate anion's O2 atom establishes four contacts: two hydrogen bonds (N–H⋯O and C–H⋯O), one intermolecular tetrel bond and one intramolecular tetrel bond. This arrangement results in a dimerization energy of −29.9 kcal mol−1, highlighting the significant role of this intricate combination of interactions in the solid-state structure of [Pb2L2(NO3)2].
![]() | ||
Fig. 4 QTAIM analysis of the dimer of [Pb2L2(NO3)2]. Bond critical points are shown as magenta spheres and bond paths are shown as dashed lines. The dimerization energy is indicated. |
In the second part of the theoretical study, we further investigated the attractive and noncovalent nature of the Pb⋯Oanion contacts in [Pb2L2(NO3)2] (nitrate) and [Pb3L3](ClO4)3 (perchlorate). This was achieved using a combination of 2D plots of the Laplacian of electron density (∇2ρ) and 2D reduced density gradient (RDG) maps (Fig. 5 and 6). The ∇2ρ 2D plot provides insights into the covalency of the interaction, while the RDG maps effectively identify regions of noncovalent interactions, making these combined maps highly useful for a comprehensive understanding of the bonding characteristics. Additionally, the sign of the second eigenvalue of the Hessian matrix of ∇2ρ(λ2) within these low RDG regions indicates the presence of attractive forces, further confirming the nature of the bond. The electron localization function (ELF) 2D map was also utilized to delineate the nucleophilic and electrophilic regions within the tetrel-bonded homodimer in [Pb2L2(NO3)2] and heterotrimer in [Pb3L3](ClO4)3.
For [Pb2L2(NO3)2], the 2D plots are detailed in Fig. 5 and supplemented by the BCP parameters compiled in Table 3, providing insights into the electronic interactions and stability characteristics of the Pb⋯O tetrel bonds in this dimer. The QTAIM data for the BCP that characterizes the intramolecular BCP and that of the Pb–O1 coordination bond are also included for comparison purposes (Table 3). These critical points are indicated in Fig. 5.
BCP | ρ(r) | G(r) | V(r) | ∇2ρ(r) | ELF | λ 2 |
---|---|---|---|---|---|---|
a Symmetry code: #2 2 − x, y, 1/2 − z. | ||||||
[Pb2L2(NO3)2] | ||||||
Pb1⋯O1 | 0.0367 | 0.0299 | −0.0322 | 0.1106 | 0.1311 | −0.0383 |
Pb1⋯O2 | 0.0149 | 0.0111 | −0.0096 | 0.0503 | 0.0522 | −0.0115 |
Pb1⋯O2#2 | 0.0049 | 0.0070 | −0.0054 | 0.0341 | 0.0289 | −0.0064 |
[Pb3L3](ClO4)3 | ||||||
Pb2⋯O14 | 0.0127 | 0.0088 | −0.0072 | 0.0414 | 0.0482 | −0.0102 |
Pb2⋯O24 | 0.0121 | 0.0087 | −0.0070 | 0.0416 | 0.0425 | −0.0092 |
The 2D ∇2ρ analysis reveals positive values (represented by solid line isocontours) between the Pb and O atoms, indicating both coordination bonds (Pb1–O1 and Pb1#2–O1#2) and tetrel bonds (Pb1⋯O2 and Pb1⋯O2#2). This distinction is further emphasized by the 2D RDG map, which displays blue isocontours specifically in areas corresponding to the extended Pb⋯O distances (tetrel bonds), effectively differentiating them from coordination bonds. The BCPs that denote tetrel bonds are highlighted in magenta in Fig. 5, where RDG values are close to zero.
The ELF 2D map provides additional insights, highlighting the differences between Pb–O coordination bonds and Pb⋯O tetrel bonds. It reveals a peak in ELF at the lone pairs (LP) on the O atoms and underscores the electrophilic nature of the Pb atoms. The map also shows bluish regions (ELF = 0.13 at the BCP in red) between the Pb1 and O1 atoms involved in coordination bonds, suggesting some degree of electron localization indicative of electron sharing. In contrast, regions associated with tetrel bonds, marked by magenta BCPs in areas of minimal electron density (depicted in black), emphasize the characteristics of noncovalent interactions. This visualization confirms the weak noncovalent nature of the tetrel bonds.
The QTAIM and ELF parameters at the Pb⋯O BCPs of [Pb2L2(NO3)2] classify the Pb1⋯O2 and Pb1⋯O2#2 tetrel bonds as weak (Table 3). This is evidenced by electron density (ρ) values below 0.015 a.u., small and positive values of the Laplacian of electron density (∇2ρ), and a smaller absolute value of the potential energy density (|V|) compared to the kinetic energy density (G) at this BCP. Additionally, the negative value of the second eigenvalue of the Hessian matrix (λ2) indicates the presence of attractive forces. Comparative data highlight the differences between the tetrel bond and the coordination bond (Table 3). Specifically, in the Pb1–O1 coordination bond, the ρ is higher than 0.03 a.u., and the value of the total energy density is negative (H = G + V = −0.0023 a.u.), indicating some degree of covalency. Moreover, the values of ∇2ρ(r), ELF and λ2 are significantly higher for Pb2–O1, consistent with its coordination nature.
A similar analysis has been performed for [Pb3L3](ClO4)3, focusing on the bifurcated Pb2⋯O14 and Pb2⋯O24 contacts. They are characterized by the corresponding BCPs (Fig. 6) and bond paths linking the Pb2 atom to both perchlorate counterions. The ELF analysis clearly shows the LPs at the O atoms (red ELF regions) pointing to the σ-holes at the Pb atoms (blue ELF regions). The 2D RDG map shows low RDG regions between the anions and the Pb atoms (Fig. 6), further confirming the noncovalent nature of these contacts. The QTAIM parameters for the Pb⋯OClO3− contacts in [Pb3L3](ClO4)3 are comparable to those for the Pb⋯ONO2− contacts in [Pb2L2(NO3)2]. Both sets of contacts exhibit electron density (ρ) values below 0.015 a.u., small and positive Laplacian of electron density (∇2ρ) and total energy density (V + G) values at these BCPs. Additionally, the negative value of the second eigenvalue of the Hessian matrix (λ2) in both BCPs confirms the presence of attractive forces.
Complexes reported in the present work highlight developments in coordination chemistry and crystal engineering, especially as it relates to lead-based supramolecular assemblies. Because of their structural characteristics, which are mostly the result of tetrel bonding, both complexes are of potential interest for the design and fabrication of new materials with intriguing optical or electrical characteristics.
Footnote |
† CCDC 2360164 and 2360165. For crystallographic data in CIF or other electronic format see DOI: https://doi.org/10.1039/d4ce00582a |
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