| Literature DB >> 32899863 |
Ghodrat Mahmoudi1, Marjan Abedi2, Simon E Lawrence3, Ennio Zangrando4, Maria G Babashkina5, Axel Klein5, Antonio Frontera6, Damir A Safin7,8,9.
Abstract
A new supramolecular class="Chemical">Pb(II) complexEntities:
Keywords: DFT calculations; Hirshfeld surface analysis; crystal structure; isonicotinohydrazide; lead(II); non-covalent interaction; tetrel bond
Mesh:
Substances:
Year: 2020 PMID: 32899863 PMCID: PMC7571010 DOI: 10.3390/molecules25184056
Source DB: PubMed Journal: Molecules ISSN: 1420-3049 Impact factor: 4.411
Chart 1Simplified diagram for holodirected and hemidirected coordination spheres around Pb(II).
Scheme 1Syntheses of [PbL(NO (this work) and [PbL’(NO [37] (tetrel bonds shown as dashed lines).
Figure 1Molecular structure of the [PbL(NO2)] unit in the structure of [PbL(NO (ellipsoids are drawn at 50% probability level). Color code: H = black, C = gold, N = blue, O = red, and Pb = magenta.
Selected bond lengths (Å) and bond and torsion angles (°) in the structures of [PbL(NO and [PbL’(NO a.
| [PbL(NO2)] | [PbL’(NO2)] | |
|---|---|---|
| Bond lengths (Å) | ||
| Pb–N1 ( | 2.583(4) (covalent) | 2.535(5) (covalent) |
| Pb–N2 ( | 2.462(4) (covalent) | 2.452(4) (covalent) |
| Pb∙∙∙N3 ( | 3.235(4) (tetrel) | 3.258(4) (tetrel) |
| Pb∙∙∙N4 ( | 3.039(5) (tetrel) | 2.752(5) (covalent) |
| Pb–O1 ( | 2.387(3) (covalent) | 2.384(5) (covalent) |
| Pb–O2 (NO2) | 2.387(4) (covalent) | 2.547(4) (covalent), 3.299(4) (tetrel) |
| Pb–O3 (NO2) | 2.768(4) (covalent) | 2.904(5) (covalent) |
| Bond angles (°) | ||
| O1–Pb–O2 | 82.35(13) | 79.90(14) |
| O1–Pb–O3 | 124.07(13) | 114.84(15) |
| O1–Pb–N1 | 128.82(12) | 130.02(14) |
| O1–Pb–N2 | 65.50(12) | 65.51(14) |
| O1–Pb–N4 | – | 91.30(14) |
| O2–Pb–O3 | 47.63(14) | 44.26(14) |
| O2–Pb–N1 | 78.05(13) | 81.12(14) |
| O2–Pb–N2 | 75.04(13) | 70.61(14) |
| O2–Pb–N4 | – | 148.15(13) |
| O3–Pb–N1 | 70.93(12) | 79.40(16) |
| O3–Pb–N2 | 112.30(13) | 109.41(14) |
| O3–Pb–N4 | – | 153.72(15) |
| N1–Pb–N2 | 63.90(13) | 64.62(14) |
| N1–Pb–N4 | – | 81.49(14) |
| N2–Pb–N4 | – | 77.86(13) |
| Torsion angles (°) | ||
| 2-Py⋯4-/3-Py | 3.5(3) | 3.0(3) |
aHL’ = N’-(1-(pyridin-2-yl)ethylidene)nicotinohydrazide.
Figure 2View on a 1D supramolecular chain in the structure of [PbL(NO, formed through Pb⋯N=C(O) tetrel bonds, π⋯π stacking, and C–H⋯π interactions (ellipsoids are drawn at 50% probability level). Color code: H = black, C = gold, N = blue, O = red, and Pb = magenta; cyan dashed line = Pb⋯N tetrel bond, yellow dashed line = π⋯π stacking interaction, and gray dashed line = C–H⋯π interaction.
π⋯π inter-ring distances (Å) and angles (°) for [PbL(NO a.
| Cg( | Cg( |
|
|
| Slippage | Symmetry Transformation | |
|---|---|---|---|---|---|---|---|
| 2-Py | 4-Py | 3.544(3) | 3.5(3) | 19.7 | 18.1 | 1.194 | 2 − |
| 4-Py | 2-Py | 3.544(3) | 3.5(3) | 18.1 | 19.7 | 1.100 | 2 − |
a Cg(I)⋯Cg(J): distance between ring centroids of the 2-Py and 4-Py rings of the ligand L; α: dihedral angle between planes Cg(I) and Cg(J); β: angle Cg(I) → Cg(J) vector and normal to plane I; γ: angle Cg(I) → Cg(J) vector and normal to plane J; slippage: distance between Cg(I) and perpendicular projection of Cg(J) on ring I.
C–H⋯π ring interactions distances (Å) and angles (°) for [PbL(NO a.
| C–H( | Cg( | ∠ [CH( | Symmetry Transformation | |||
|---|---|---|---|---|---|---|
| C7–H7B | 0.98 | 4-Py | 2.81 | 3.657(6) | 145 | 1 – |
a H(I)⋯Cg(J): distance between the H(I) atom and ring centroid of the 4-Py ring of the ligand L; C⋯Cg(J): distance between the C atom and ring centroid; [CH(I)⋯Cg(J)]: angle between the bond C–H(I) and plane Cg(J).
Figure 3(a) View on the 2D supramolecular layer in the structure of [PbL(NO, formed through Pb⋯N=C(O) and Pb⋯N4-Py tetrel bonds (H-atoms were omitted for clarity). Color code: C = gold, N = blue, O = red, and Pb = magenta; cyan dashed line = Pb⋯N tetrel bond. (b) Simplified underlying network of [PbL(NO, considering all Pb⋯N tetrel bonds, with the uninodal 3-connected fes (Shubnikov plane net) topology defined by the point symbol of (4∙82). Color code: Pb = magenta, and L = blue.
Figure 4Two-dimensional and decomposed 2D fingerprint plots of observed contacts for [PbL(NO. The di value is the distance from the surface to the nearest atom interior to the surface, and de is the distance from the surface to the nearest atom exterior to the surface. Color code: blue = a fraction of the surface points of the corresponding contact.
Hirshfeld contact surfaces and derived “random contacts” and “enrichment ratios” for [PbL(NO a.
| H | C | N | O | Pb | |
|---|---|---|---|---|---|
| Contacts ( | |||||
| H | 27.3 | – | – | – | – |
| C | 13.7 | 5.4 | – | – | – |
| N | 13.7 | 3.3 | 1.4 | – | – |
| O | 22.2 | 1.1 | 1.6 | 0.0 | – |
| Pb | 5.3 | 0.4 | 4.5 | 0.0 | 0.0 |
| Surface ( | |||||
| 54.8 | 14.7 | 13.0 | 12.5 | 5.1 | |
| Random contacts ( | |||||
| H | 30.0 | – | – | – | – |
| C | 16.1 | 2.2 | – | – | – |
| N | 14.2 | 3.8 | 1.7 | – | – |
| O | 13.7 | 3.7 | 3.3 | 1.6 | – |
| Pb | 5.6 | 1.5 | 1.3 | 1.3 | 0.3 |
| Enrichment ( | |||||
| H | 0.91 | – | – | – | – |
| C | 0.85 | 2.45 | – | – | – |
| N | 0.96 | 0.87 | 0.82 | – | – |
| O | 1.62 | 0.30 | 0.48 | 0.00 | – |
| Pb | 0.95 | 0.27 | 3.46 | 0.00 | – |
a Values were obtained by using CrystalExplorer 3.1 [47]. b The “enrichment ratios” were not computed when the “random contacts” were lower than 0.9%, as they are not meaningful [48].
Figure 5Two views of the molecular electrostatic potential (MEP) surface of [PbL(NO2)] (isosurface 0.001 a.u.). The blue color is used for positive MEP values, and the red color for negative values, as indicated in the legend.
Figure 6Quantum theory of atoms in molecules (QTAIM) analysis of (a) the antiparallel stacking dimer in [PbL(NO as a combination of the Pb⋯N=C(O) tetrel bonds and π+⋯π− interactions and (b) of two basic coordination units in [PbL(NO forming a Pb⋯N4-Py tetrel bond and C–H⋯O bridging interaction. Bond, ring, and cage critical points are represented by red, yellow, and blue spheres, respectively. Bond paths connecting bond critical points are represented by dashed lines. ΔE = accumulated dimerization energies. ρ(r) = densities at the bond critical points.
Crystallographic data for [PbL(NO.
| Parameter | [PbL(NO2)] |
|---|---|
| Chemical formula | C13H11N5O3Pb |
| Formula weight | 492.46 |
| Crystal system | monoclinic |
| Space group | |
| 8.1660(11) | |
| 13.2850(17) | |
| 13.7842(18) | |
| 92.860(4) | |
| 1493.5(3) | |
|
| 4 |
| Dcalc (g/cm3) | 2.190 |
| 11.316 | |
| 920 | |
| 2.13–27.32 | |
| Reflections collected | 18486 |
| No. of unique data | 3318 |
|
| 0.0505 |
| Observed data [ | 2666 |
| Parameters refined | 200 |
| Goodness of fit ( | 1.033 |
| 0.0288 | |
| 0.0625 |
1R1 = Σ(||Fo| − |Fc||)/Σ|Fo|, 2 wR2 = [Σw(Fo2 − Fc2)2/Σw Fo2)2]1/2.