1
|
Pizzi A, Dhaka A, Beccaria R, Resnati G. Anion⋯anion self-assembly under the control of σ- and π-hole bonds. Chem Soc Rev 2024; 53:6654-6674. [PMID: 38867604 DOI: 10.1039/d3cs00479a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/14/2024]
Abstract
The electrostatic attraction between charges of opposite signs and the repulsion between charges of the same sign are ubiquitous and influential phenomena in recognition and self-assembly processes. However, it has been recently revealed that specific attractive forces between ions with the same sign are relatively common. These forces can be strong enough to overcome the Coulomb repulsion between ions with the same sign, leading to the formation of stable anion⋯anion and cation⋯cation adducts. Hydroden bonds (HBs) are probably the best-known interaction that can effectively direct these counterintuitive assembly processes. In this review we discuss how σ-hole and π-hole bonds can break the paradigm of electrostatic repulsion between like-charges and effectively drive the self-assembly of anions into discrete as well as one-, two-, or three-dimensional adducts. σ-Hole and π-hole bonds are the attractive forces between regions of excess electron density in molecular entities (e.g., lone pairs or π bond orbitals) and regions of depleted electron density that are localized at the outer surface of bonded atoms opposite to the σ covalent bonds formed by atoms (σ-holes) and above and below the planar portions of molecular entities (π-holes). σ- and π-holes can be present on many different elements of the p and d block of the periodic table and the self-assembly processes driven by their presence can thus involve a wide diversity of mono- and di-anions. The formed homomeric and heteromeric adducts are typically stable in the solid phase and in polar solvents but metastable or unstable in the gas phase. The pivotal role of σ- and π-hole bonds in controlling anion⋯anion self-assembly is described in key biopharmacological systems and in molecular materials endowed with useful functional properties.
Collapse
Affiliation(s)
- Andrea Pizzi
- NFMLab, Department of Chemistry, Materials, Chemical Engineering "Giulio Natta", Politecnico di Milano, via Mancinelli 7, I-20131 Milano, Italy.
| | - Arun Dhaka
- NFMLab, Department of Chemistry, Materials, Chemical Engineering "Giulio Natta", Politecnico di Milano, via Mancinelli 7, I-20131 Milano, Italy.
| | - Roberta Beccaria
- NFMLab, Department of Chemistry, Materials, Chemical Engineering "Giulio Natta", Politecnico di Milano, via Mancinelli 7, I-20131 Milano, Italy.
| | - Giuseppe Resnati
- NFMLab, Department of Chemistry, Materials, Chemical Engineering "Giulio Natta", Politecnico di Milano, via Mancinelli 7, I-20131 Milano, Italy.
| |
Collapse
|
2
|
Calabrese M, Pizzi A, Daolio A, Beccaria R, Lo Iacono C, Scheiner S, Resnati G. Osme Bond: Geometric and Energetic Features in the Adducts between OsO 4 and Lewis Bases. Chemistry 2024; 30:e202304240. [PMID: 38258620 DOI: 10.1002/chem.202304240] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2023] [Revised: 01/22/2024] [Accepted: 01/23/2024] [Indexed: 01/24/2024]
Abstract
Adducts between OsO4 and Lewis bases exert a role in important oxidation processes such as epoxidation and dihydroxylation. It has been shown that the attractive interaction driving the formation of these adducts is a σ-hole bond involving the metal as the electrophilic species; the term Osme Bond (OmB) was proposed for designating it. Here some new adducts between OsO4 and various bases have been characterized through single crystal x-ray diffraction (XRD) and computational studies (density functional theory, DFT), confirming the existence of a robust correlation between σ-hole interaction energy and deformation of the tetrahedral geometry of OsO4. Also, some adducts formed by RuO4 with nucleophiles were investigated computationally.
Collapse
Affiliation(s)
- Miriam Calabrese
- NFMLab-Department of Chemistry, Materials and Chemical Engineering "Giulio Natta", Politecnico di Milano, Via L. Mancinelli 7, I-20131, Milan, Italy
| | - Andrea Pizzi
- NFMLab-Department of Chemistry, Materials and Chemical Engineering "Giulio Natta", Politecnico di Milano, Via L. Mancinelli 7, I-20131, Milan, Italy
| | - Andrea Daolio
- NFMLab-Department of Chemistry, Materials and Chemical Engineering "Giulio Natta", Politecnico di Milano, Via L. Mancinelli 7, I-20131, Milan, Italy
| | - Roberta Beccaria
- NFMLab-Department of Chemistry, Materials and Chemical Engineering "Giulio Natta", Politecnico di Milano, Via L. Mancinelli 7, I-20131, Milan, Italy
| | - Cristina Lo Iacono
- NFMLab-Department of Chemistry, Materials and Chemical Engineering "Giulio Natta", Politecnico di Milano, Via L. Mancinelli 7, I-20131, Milan, Italy
| | - Steve Scheiner
- Department of Chemistry and Biochemistry, Utah State University, Logan, Utah, 84322-0300, United States
| | - Giuseppe Resnati
- NFMLab-Department of Chemistry, Materials and Chemical Engineering "Giulio Natta", Politecnico di Milano, Via L. Mancinelli 7, I-20131, Milan, Italy
| |
Collapse
|
3
|
Ramasami P, Murray JS. Anisotropies in electronic densities and electrostatic potentials of Halonium Ions: focus on Chlorine, Bromine and Iodine. J Mol Model 2024; 30:81. [PMID: 38393388 DOI: 10.1007/s00894-024-05869-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2023] [Accepted: 02/05/2024] [Indexed: 02/25/2024]
Abstract
CONTEXT Why are the halonium cations so effective in forming strongly-bound complexes? We directed our research to address this question and we present electrostatic potential data for the valence-state halogen atoms X and halonium cations X+, where X = Cl, Br, I. The electron densities and electrostatic potentials of the halonium cations show considerably greater anisotropy than do the valence state halogens. The distances from the electrostatic potential surface maxima to the halogen nuclei are about 0.5 Å smaller than the distances from the electrostatic potential surface minima to the nuclei, giving the halonium cations each a more disk-like shape than the corresponding neutral valence state halogens. Their surface electrostatic potentials are totally consistent with the directionalities of halonium cations in complexes and the strengths of their interactions. To add perspective to this brief report, we have included calculations of the isotropic cation K+ and noble gas Kr. METHODS The calculations of the electrostatic potentials of the valence states of the halogen atoms Cl, Br and I and the halonium cations Cl+, Br+ and I+, as well as K+ and Kr, on 0.001 au contours of their electronic densities were carried out with Gaussian O9 and the Wave Function Analysis - Surface Analysis Suite (WFA-SAS) at the M06-2X/6-31 + G(d,p) and M06-2X/3-21G* levels.
Collapse
Affiliation(s)
- Ponnadurai Ramasami
- Computational Chemistry Group, Department of Chemistry, Faculty of Science, University of Mauritius, Réduit, 80837, Mauritius
- Centre of Natural Product Research, Department of Chemical Sciences, University of Johannesburg, Doornfontein Campus, Johannesburg, 2028, South Africa
| | - Jane S Murray
- Department of Chemistry, University of New Orleans, New Orleans, LA, 70148, USA.
| |
Collapse
|
4
|
Beccaria R, Dhaka A, Calabrese M, Pizzi A, Frontera A, Resnati G. Chalcogen and Hydrogen Bond Team up in Driving Anion⋅⋅⋅Anion Self-Assembly. Chemistry 2024; 30:e202303641. [PMID: 38019113 DOI: 10.1002/chem.202303641] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2023] [Revised: 11/27/2023] [Accepted: 11/28/2023] [Indexed: 11/30/2023]
Abstract
H-selenite anions (HSeO3 - ) form in the solid unprecedented anionic supramolecular chains wherein single units are assembled via alternating short Se⋅⋅⋅O and H⋅⋅⋅O contacts. Crystallographic analyses and computational studies (the quantum theory of "atoms-in-molecules", QTAIM, and the noncovalent interaction plot, NCIPlot) consistently prove the attractive nature of these chalcogen bonds (ChBs) and hydrogen honds (HBs), the Janus-type character of HSeO3 - anions which act as both donors and acceptors of ChB and HB, and the possible stability of anion dimers in solution. The effectiveness of the ChBs herein described may lead to consider the HSeO3 - moiety as a new entry in the toolbox of crystal engineering based on ChB.
Collapse
Affiliation(s)
- Roberta Beccaria
- NFMLab, Dept. Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, Via L. Mancinelli 7, I-20131, Milano, Italy
| | - Arun Dhaka
- NFMLab, Dept. Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, Via L. Mancinelli 7, I-20131, Milano, Italy
| | - Miriam Calabrese
- NFMLab, Dept. Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, Via L. Mancinelli 7, I-20131, Milano, Italy
| | - Andrea Pizzi
- NFMLab, Dept. Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, Via L. Mancinelli 7, I-20131, Milano, Italy
| | - Antonio Frontera
- Dept. Chemistry, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, 07122, Palma de Mallorca, Baleares, Spain
| | - Giuseppe Resnati
- NFMLab, Dept. Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, Via L. Mancinelli 7, I-20131, Milano, Italy
| |
Collapse
|
5
|
Murray JS. The Formation of σ-Hole Bonds: A Physical Interpretation. Molecules 2024; 29:600. [PMID: 38338346 PMCID: PMC10856353 DOI: 10.3390/molecules29030600] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2023] [Revised: 01/17/2024] [Accepted: 01/23/2024] [Indexed: 02/12/2024] Open
Abstract
This paper discusses two quite different computational experiments relating to the formation of σ-hole bonds A···B. The first involves looking at the complex at equilibrium and finding the contour X of the electronic density which allows the iso-density envelopes of A and B to be nearly touching. This contour increases, becoming closer to the nuclei, as the strength of the interaction increases. The second experiment involves allowing A and B to approach each other, with the aim of finding the distance at which their 0.001 a.u. iso-density envelopes are nearly merging into one envelope. What is found in the second experiment may be somewhat surprising, in that the ratio of the distance between interacting atoms at this nearly merging point-divided by the sum of the van der Waals radii of these atoms-covers a narrow range, typically between 1.2 and 1.3. It is intriguing to note that for the dataset presented, approaching molecules attracted to each other appear to do so unknowing of the strength of their ultimate interaction. This second experiment also supports the notion that one should expect favorable interactions, in some instances, to have close contacts significantly greater than the sums of the van der Waals radii.
Collapse
Affiliation(s)
- Jane S Murray
- Department of Chemistry, University of New Orleans, New Orleans, LA 70148, USA
| |
Collapse
|
6
|
Yan J, Zeng Y, Meng L, Li X, Zhang X. Gold(III) derivatives as the noncovalent interaction donors: theoretical study of the π-hole regium bonds. Phys Chem Chem Phys 2023; 25:29155-29164. [PMID: 37870082 DOI: 10.1039/d3cp04354a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2023]
Abstract
Except for the well-known σ-hole regium bonds formed by metal nanoparticles and M(I) (M = Cu, Ag, and Au) derivatives, the existence of π-hole regions located above and below the Au atom in gold(III) derivatives suggests that gold(III) also functions as an efficient electrophilic site. In this study, a comprehensive analysis was conducted on the electrophilicity of trichloro-(p-toluonitrilo-N)-gold(III) derivatives AuL3(NCC6H4X) (L = Cl, Br, CN; X = NH2, CH3, CF3, NC, and CN) and the nature of π-hole regium bonds in the AuL3(NCC6H4X)⋯LB (LB = NH3, N(NH3)3, CH2O, C2H2, C2H4, C6H6) and (AuCl3(NCC6H4Y))n (Y = Cl, CN, NC, NO2; n = 2, 3)) complexes. The characteristics of the π-hole regium bonds were studied with respect to the influence of ligands and substituents, the strength of intermolecular interactions between Au(III) derivatives and Lewis bases, and those in the polymers. In the case of the AuL3(NCC6H4X)⋯NH3 complexes, the strength of the regium bonds increases gradually in the order of L = Cl < Br < CN and X = NH2 < CH3 < CF3 ≈ NC < CN. The ligands (L) attached to the Au atom exert a significant effect on the strength of the π-hole regium bonds in comparison to the substituents (X) on the benzene ring. The regium bonds are primarily dominated by electrostatic interaction, accompanied by moderate contribution from polarization. Linear relationships were identified between the electrostatic energies and the local most positive potentials over the Au atom, as well as between the polarization energies and the amount of charge transfer. Most of the π-hole regium bonds in the AuL3(NCC6H4X)⋯LB complexes exhibit the characters of closed shell noncovalent interactions. In the polymers (AuCl3(NCC6H4Y))n, weak face-to-face π-π stacking interactions are also present, in addition to regium bonds. The trimers displayed a slightly negative cooperativity in comparison to the dimers.
Collapse
Affiliation(s)
- Jiajing Yan
- College of Chemistry and Materials Science, Hebei Normal University, Shijiazhuang, 050024, P. R. China.
| | - Yanli Zeng
- Hebei Key Laboratory of Inorganic Nano-materials, Hebei Normal University, Shijiazhuang, 050024, P. R. China
| | - Lingpeng Meng
- College of Chemistry and Materials Science, Hebei Normal University, Shijiazhuang, 050024, P. R. China.
| | - Xiaoyan Li
- Hebei Key Laboratory of Inorganic Nano-materials, Hebei Normal University, Shijiazhuang, 050024, P. R. China
| | - Xueying Zhang
- College of Chemistry and Materials Science, Hebei Normal University, Shijiazhuang, 050024, P. R. China.
| |
Collapse
|
7
|
Calabrese M, Pizzi A, Beccaria R, Frontera A, Resnati G. Halogen Bonding Assembles Anion⋅⋅⋅Anion Architectures in Non-centrosymmetric Iodate and Bromate Crystals. Chemphyschem 2023; 24:e202300298. [PMID: 37306232 DOI: 10.1002/cphc.202300298] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2023] [Revised: 06/03/2023] [Accepted: 06/09/2023] [Indexed: 06/13/2023]
Abstract
Single crystal X-ray diffraction of iodate and bromate salts shows that the I and Br atoms in IO3 - and BrO3 - anions form short and linear O-I/Br⋅⋅⋅O contacts with the O atoms of nearby anions. Non-centrosymmetric systems are formed wherein anions are orderly aligned into supramolecular 1D and 2D networks. Theoretical evidences, namely the outcome of QTAIM and NCIplot studies, prove the attractive nature of these contacts and the ability of iodate and bromate anions to act as robust halogen bond (HaB) donors. The HaB is proposed as a general and effective assisting tool to control the architecture of acentric iodate salts.
Collapse
Affiliation(s)
- Miriam Calabrese
- NFMLab, Dept. Chemistry, Materials, Chemical Engineering "Giulio Natta", Politecnico di Milano, via L. Mancinelli 7, 20131, Milano, Italy
| | - Andrea Pizzi
- NFMLab, Dept. Chemistry, Materials, Chemical Engineering "Giulio Natta", Politecnico di Milano, via L. Mancinelli 7, 20131, Milano, Italy
| | - Roberta Beccaria
- NFMLab, Dept. Chemistry, Materials, Chemical Engineering "Giulio Natta", Politecnico di Milano, via L. Mancinelli 7, 20131, Milano, Italy
| | - Antonio Frontera
- Dept. Chemistry, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, 07122, Palma de Mallorca (Baleares), Spain
| | - Giuseppe Resnati
- NFMLab, Dept. Chemistry, Materials, Chemical Engineering "Giulio Natta", Politecnico di Milano, via L. Mancinelli 7, 20131, Milano, Italy
| |
Collapse
|
8
|
Pramanik S, Chattopadhyay S. An overview of copper complexes with diamine-based N4 donor bis-pyridine Schiff base ligands: Synthesis, structures, magnetic properties and applications. Inorganica Chim Acta 2023. [DOI: 10.1016/j.ica.2023.121486] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/28/2023]
|
9
|
Michalczyk M, Wojtkowiak K, Panek JJ, Jezierska A, Zierkiewicz W. Static and Dynamical Quantum Studies of CX 3-AlX 2 and CSiX 3-BX 2 (X = F, Cl, Br) Complexes with Hydrocyanic Acid: Unusual Behavior of Strong π-Hole at Triel Center. Int J Mol Sci 2023; 24:ijms24097881. [PMID: 37175586 PMCID: PMC10177972 DOI: 10.3390/ijms24097881] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2023] [Revised: 04/20/2023] [Accepted: 04/23/2023] [Indexed: 05/15/2023] Open
Abstract
The set of TX3-TrX2 (T = C, Si, Ge; Tr = B, Al, Ga; X = F, Cl, Br) molecules offers a rather unique opportunity to study both σ-hole and π-hole dimerization on the tetrel and triel ends, respectively. According to the molecular electrostatic potential (MEP) distribution, the π-hole extrema (acidic sites) were more intense than their σ-hole counterparts. The molecules owning the most (CX3-AlX2) and least (SiX3-BX2) intense π-holes were chosen to evaluate their capacities to attract one and two HCN molecules (Lewis bases). We discovered that the energetic characteristics of π-hole dimers severely conflict with the monomers MEP pattern since the weakest π-hole monomer forms a dimer characterized by interaction energy compared to those created by the monomers with noticeably greater power in the π-hole region. This outcome is due to the deformation of the weakest π-hole donor. Furthermore, the MEP analysis for monomers in the geometry of respective dimers revealed a "residual π-hole" site that was able to drive second ligand attachment, giving rise to the two "unusual trimers" examined further by the NCI and QTAIM analyses. Apart from them, the π-hole/π-hole and σ-hole/π-hole trimers have also been obtained throughout this study and described using energetic and geometric parameters. The SAPT approach revealed details of the bonding in one of the "unusual trimers". Finally, Born-Oppenheimer Molecular Dynamics (BOMD) simulations were carried out to investigate the time evolution of the interatomic distances of the studied complexes as well as their stability.
Collapse
Affiliation(s)
- Mariusz Michalczyk
- Faculty of Chemistry, Wrocław University of Science and Technology, Wybrzeże Wyspiańskiego 27, 50-370 Wrocław, Poland
| | - Kamil Wojtkowiak
- Faculty of Chemistry, University of Wrocław, ul. F. Joliot-Curie 14, 50-383 Wrocław, Poland
| | - Jarosław J Panek
- Faculty of Chemistry, University of Wrocław, ul. F. Joliot-Curie 14, 50-383 Wrocław, Poland
| | - Aneta Jezierska
- Faculty of Chemistry, University of Wrocław, ul. F. Joliot-Curie 14, 50-383 Wrocław, Poland
| | - Wiktor Zierkiewicz
- Faculty of Chemistry, Wrocław University of Science and Technology, Wybrzeże Wyspiańskiego 27, 50-370 Wrocław, Poland
| |
Collapse
|
10
|
Middya P, Chakraborty P, Chattopadhyay S. An overview on the synthesis, structure and properties of nickel(II) and zinc(II) complexes with diamine-based N4 donor bis-pyridine and N6 donor tris-pyridine Schiff base ligands. Inorganica Chim Acta 2023. [DOI: 10.1016/j.ica.2023.121479] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/17/2023]
|
11
|
Rivoli A, Gomila RM, Frontera A, Ballester P. Interchangeability and Disorder in the Solid-State Structures of "Two Wall" Calix[4]pyrroles Equipped with Iodine and Ethynyl para-Substituents. Chem Asian J 2023; 18:e202201192. [PMID: 36485017 DOI: 10.1002/asia.202201192] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2022] [Revised: 12/07/2022] [Accepted: 12/09/2022] [Indexed: 12/14/2022]
Abstract
Herein, the synthesis and X-ray structures of three α,β "two wall" aryl-extended calix[4]pyrroles having either identical (symmetrically substituted) or different (non-symmetrically substituted) meso-aryl substituents (aryl=4-ethynylphenyl and 4-iodophenyl) are reported. The X-ray structure of the co-crystal formed by the two symmetrically substituted calix[4]pyrroles is also described. In the solid state, all studied α,β-calix[4]pyrroles exhibit a 1,3-alternate conformation with two co-crystallized acetonitrile solvent molecules H-bonded to adjacent cis-pyrrole rings. Remarkably, the 1,3-conformer of the non-symmetrically substituted iodophenyl/ethynylphenyl compound is intrinsically chiral. The two enantiomers are present in the average asymmetric unit in a 65 : 35 occupancy ratio displaying a head-to-tail directional disorder. This is due to the functional complementarity and the isosteric and isoelectronic properties of the para-substituents: iodo and ethynyl. That is, the negative belt of iodine is similar to the negative π-system of the C≡C triple bond and the σ-hole in the iodine atom is similar to the positive proton at the C≡C-H group.
Collapse
Affiliation(s)
- Andrea Rivoli
- Institute of Chemical Research of Catalonia (ICIQ) and, The Barcelona Institute of Science and Technology (BIST), Science and Technology (BIST), Avgda. Països Catalans, 16, 43007, Tarragona, Spain.,Universitat Rovira i Virgili, Departament de Química Analítica i Química Orgànica, c/Marcel⋅lí Domingo, 1, 43007, Tarragona, Spain
| | - Rosa M Gomila
- Universitat de les Illes Balears, Departament de Química, Crta de Valldemossa km 7.5, 07122, Palma de Mallorca, Baleares, Spain
| | - Antonio Frontera
- Universitat de les Illes Balears, Departament de Química, Crta de Valldemossa km 7.5, 07122, Palma de Mallorca, Baleares, Spain
| | - Pablo Ballester
- Institute of Chemical Research of Catalonia (ICIQ) and, The Barcelona Institute of Science and Technology (BIST), Science and Technology (BIST), Avgda. Països Catalans, 16, 43007, Tarragona, Spain.,ICREA, Passeig Lluís Companys, 23, 08010, Barcelona, Spain
| |
Collapse
|
12
|
Majumdar D, Roy S, Frontera A. The importance of tetrel bonding interactions with carbon in two arrestive iso-structural Cd(ii)-Salen coordination complexes: a comprehensive DFT overview in crystal engineering. RSC Adv 2022; 12:35860-35872. [PMID: 36545098 PMCID: PMC9753102 DOI: 10.1039/d2ra07080d] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2022] [Accepted: 12/01/2022] [Indexed: 12/23/2022] Open
Abstract
In this article, we describe the serendipitous synthesis of two remarkable iso-structural Cd(ii)-Salen complexes [L2Cd4(OAc)2(NCS)2] in the presence of H2L and NaSCN {where L = L1 (N,N'-bis(3-methoxysalicylidene)-1,2-diaminopropane) and L = L2 (N,N'-bis(3-methoxysalicylidene)-ethylenediamine) in 1 and 2, respectively}. The complexes were characterized by using elemental analysis, SEM-EDX, PXRD, spectroscopy, and X-ray crystallography. The X-ray crystal structure revealed that both complexes crystallize in the orthorhombic space group Pbcn, with unit cell parameters: a = 20.758(6), b = 11.022(3), c = 21.396(6) Å, V = 4895(2) Å3, and Z = 4. The inner N2O2 and outer O4 compartments are essentially occupied by two different Cd(ii) metal ions resulting from the de-protonated form of the ligand (L2-) with the Cd(1) metal ions adopting a capped octahedral geometry. At the same time, Cd(2) assumes a distorted trigonal prismatic geometry. The solid-state crystal structure involves various non-covalent supramolecular interactions delineated by Hirshfeld Surface and 2D fingerprint plot analysis. Noteworthily, interesting S⋯H, O⋯H, and N⋯H contacts were observed, which have identical percentages in both complexes. The sparse tetrel bonding interactions in the complex, involving the CH3 group, were evaluated in a new dimension of DFT. We observed this privileged bonding landscape that leads to the formation of self-assembled dimers in the crystal complexes. DFT-based MEP, RDG surface, NBO, and QTAIM/NCI plot investigation quantified such unique tetrel bonding interactions.
Collapse
Affiliation(s)
| | - Sourav Roy
- Solid State and Structural Chemistry Unit, Indian Institute of ScienceBangalore 560 012India
| | - Antonio Frontera
- Department de Quimica, Universitat de les Illes BalearsCra. de Valldemossa km 7.5Palma de Mallorca (Baleares) 07122Spain
| |
Collapse
|
13
|
Li Y, Liou Y, Oliveira JCA, Ackermann L. Ruthenium(II)/Imidazolidine Carboxylic Acid-Catalyzed C-H Alkylation for Central and Axial Double Enantio-Induction. Angew Chem Int Ed Engl 2022; 61:e202212595. [PMID: 36108175 PMCID: PMC9828380 DOI: 10.1002/anie.202212595] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2022] [Indexed: 01/12/2023]
Abstract
Enantioselective C-H activation has surfaced as a transformative toolbox for the efficient assembly of chiral molecules. However, despite of major advances in rhodium and palladium catalysis, ruthenium(II)-catalyzed enantioselective C-H activation has thus far largely proven elusive. In contrast, we herein report on a ruthenium(II)-catalyzed highly regio-, diastereo- and enantioselective C-H alkylation. The key to success was represented by the identification of novel C2-symmetric chiral imidazolidine carboxylic acids (CICAs), which are easily accessible in a one-pot fashion, as highly effective chiral ligands. This ruthenium/CICA system enabled the efficient installation of central and axial chirality, and featured excellent branched to linear ratios with generally >20 : 1 dr and up to 98 : 2 er. Mechanistic studies by experiment and computation were carried out to understand the catalyst mode of action.
Collapse
Affiliation(s)
- Yanjun Li
- Institut für Organische und Biomolekulare ChemieGeorg-August-Universität GöttingenTammanstraße 237077GöttingenGermany
| | - Yan‐Cheng Liou
- Institut für Organische und Biomolekulare ChemieGeorg-August-Universität GöttingenTammanstraße 237077GöttingenGermany
| | - João C. A. Oliveira
- Institut für Organische und Biomolekulare ChemieGeorg-August-Universität GöttingenTammanstraße 237077GöttingenGermany
| | - Lutz Ackermann
- Institut für Organische und Biomolekulare ChemieGeorg-August-Universität GöttingenTammanstraße 237077GöttingenGermany
| |
Collapse
|
14
|
Andreo L, Gomila RM, Priola E, Giordana A, Pantaleone S, Diana E, Mahmoudi G, Frontera A. Anion···Anion [AuI 4] -···[AuI 2] - Complex Trapped in the Solid State by Tetramethylammonium Cations. CRYSTAL GROWTH & DESIGN 2022; 22:6539-6544. [PMID: 36345385 PMCID: PMC9635596 DOI: 10.1021/acs.cgd.2c00749] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/02/2022] [Revised: 09/01/2022] [Indexed: 05/24/2023]
Abstract
A discrete π-hole···σ-hole dimer is synthesized and X-ray characterized. It presents a perfect thumbtack geometry where the σ-hole of the linear [AuI2]- anion points to the π-hole located above the central Au-atom of the [AuI4]- anion. Such discrete π-hole···σ-hole dimers are unprecedented in literature, since all mixed-valence gold(I/III) iodide compounds reported to date form infinite ···([AuI4]-···[AuI2]-) n ·· chains in the solid state. If an excess of iodine is used for the synthesis, triiodide [I3]- ions are partially incorporated into the [AuI2]- sites, forming infinite chains. The nature of the anion···anion interaction has been studied considering two possibilities: (i) a π-hole coinage bond or (ii) σ-hole halogen bond using high-level density functional theory calculations, the quantum theory of atoms in molecules, and the noncovalent interaction plot index.
Collapse
Affiliation(s)
- Luca Andreo
- Department of Chemistry, Università degli Studi di Torino, Via Pietro Giuria 7, 10125 Torino, Italy
| | - Rosa M Gomila
- Department of Chemistry, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, 07122 Palma de Mallorca (Baleares), Spain
| | - Emanuele Priola
- Department of Chemistry, Università degli Studi di Torino, Via Pietro Giuria 7, 10125 Torino, Italy
| | - Alessia Giordana
- Department of Chemistry, Università degli Studi di Torino, Via Pietro Giuria 7, 10125 Torino, Italy
| | - Stefano Pantaleone
- Department of Chemistry, Università degli Studi di Torino, Via Pietro Giuria 7, 10125 Torino, Italy
| | - Eliano Diana
- Department of Chemistry, Università degli Studi di Torino, Via Pietro Giuria 7, 10125 Torino, Italy
| | - Ghodrat Mahmoudi
- Department of Chemistry, Faculty of Science, University of Maragheh, Maragheh 83111-55181, Iran
| | - Antonio Frontera
- Department of Chemistry, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, 07122 Palma de Mallorca (Baleares), Spain
| |
Collapse
|
15
|
Sk W, Chattopadhyay S. An overview of the synthesis and structures lead(II) and mercury(II) complexes with diamine-based bis-pyridine Schiff base ligands. RESULTS IN CHEMISTRY 2022. [DOI: 10.1016/j.rechem.2022.100639] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
|
16
|
de Las Nieves Piña M, Mooibroek TJ, Frontera A, Bauzá A. Importance of Cu and Ag regium-π bonds in supramolecular chemistry and biology: a combined crystallographic and ab initio study. Phys Chem Chem Phys 2022; 24:24983-24991. [PMID: 36214369 DOI: 10.1039/d2cp03874a] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
Identifying and characterizing new binding events between electron donor and acceptor counterparts represents a crucial step to complete the molecular recognition and aggregation picture, which is key to chemistry and biology. In this study we interrogated both the PDB (Protein Data Bank) and CSD (Cambridge Structural Database) for the presence of Cu and Ag regium-π (Rg-π) bonds (an attractive noncovalent force between elements from group 11 and π-systems). Concretely, we found evidence of the plausible biological role of the interaction in protein-DNA systems, bacterial Ag extrusion processes and Heme group redox functionality. Furthermore, we also highlighted the implications of Rg-π bonds in the crystal packing of two host-guest systems, where this interaction is key for the binding and recognition of small organic molecules as well as for the encapsulation of organometallic complexes. Theoretical models were used to analyse the strength of the interaction (RI-MP2/def2-TZVP level of theory) together with QTAIM (Quantum Theory of Atoms in Molecules), NBO (Natural Bonding Orbital) and NCIplot (Non Covalent Interactions plot) analyses, which further assisted in the characterization of the regium-π interactions described herein. We expect the results from this study will be useful to attract the attention of chemical biologists as well as to expand the potential of the interaction to the supramolecular chemistry and crystal engineering communities.
Collapse
Affiliation(s)
- María de Las Nieves Piña
- Department of Chemistry, Universitat de les Illes Balears, Ctra de Valldemossa km 7.5, 07122 Palma de Mallorca (Baleares), Spain.
| | - Tiddo J Mooibroek
- Van't Hoff Institute for Molecular Sciences, University of Amsterdam Science Park A, 904, E1.26, 1098 XH Amsterdam, The Netherlands.
| | - Antonio Frontera
- Department of Chemistry, Universitat de les Illes Balears, Ctra de Valldemossa km 7.5, 07122 Palma de Mallorca (Baleares), Spain.
| | - Antonio Bauzá
- Department of Chemistry, Universitat de les Illes Balears, Ctra de Valldemossa km 7.5, 07122 Palma de Mallorca (Baleares), Spain.
| |
Collapse
|
17
|
Scheiner S. On the reliability of atoms in molecules, noncovalent index, and natural bond orbital to identify and quantify noncovalent bonds. J Comput Chem 2022; 43:1814-1824. [DOI: 10.1002/jcc.26983] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2022] [Accepted: 08/03/2022] [Indexed: 11/12/2022]
Affiliation(s)
- Steve Scheiner
- Department of Chemistry and Biochemistry Utah State University Logan Utah USA
| |
Collapse
|
18
|
Calabrese M, Pizzi A, Daolio A, Frontera A, Resnati G. Periodate anions as a halogen bond donor: formation of anion⋯anion dimers and other adducts. Chem Commun (Camb) 2022; 58:9274-9277. [PMID: 35904031 DOI: 10.1039/d2cc03191d] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
Single crystal X-ray analyses show that iodine in pyridinium periodates acts as a halogen bond (HaB) donor forming short and almost linear contacts with neutral and anionic electron donors. A combination of QTAIM and NCIplot computational tools proves the attractive nature of these contacts.
Collapse
Affiliation(s)
- Miriam Calabrese
- NFMLab, Department Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, via L. Mancinelli 7, I-20131 Milano, Italy.
| | - Andrea Pizzi
- NFMLab, Department Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, via L. Mancinelli 7, I-20131 Milano, Italy.
| | - Andrea Daolio
- NFMLab, Department Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, via L. Mancinelli 7, I-20131 Milano, Italy.
| | - Antonio Frontera
- Department Chemistry, Universitat de les Illes Balears, Crta, de Valldemossa km 7.5, 07122 Palma de Mallorca, Baleares, Spain.
| | - Giuseppe Resnati
- NFMLab, Department Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, via L. Mancinelli 7, I-20131 Milano, Italy.
| |
Collapse
|
19
|
Zhang Y, Wang W. Origin of the unexpected attractive interactions between positive σ-holes and positive π-lumps. COMPUT THEOR CHEM 2022. [DOI: 10.1016/j.comptc.2022.113736] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
|
20
|
Metal Coordination Enhances Chalcogen Bonds: CSD Survey and Theoretical Calculations. Int J Mol Sci 2022; 23:ijms23084188. [PMID: 35457005 PMCID: PMC9030556 DOI: 10.3390/ijms23084188] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2022] [Revised: 04/02/2022] [Accepted: 04/07/2022] [Indexed: 12/03/2022] Open
Abstract
In this study the ability of metal coordinated Chalcogen (Ch) atoms to undergo Chalcogen bonding (ChB) interactions has been evaluated at the PBE0-D3/def2-TZVP level of theory. An initial CSD (Cambridge Structural Database) inspection revealed the presence of square planar Pd/Pt coordination complexes where divalent Ch atoms (Se/Te) were used as ligands. Interestingly, the coordination to the metal center enhanced the σ-hole donor ability of the Ch atom, which participates in ChBs with neighboring units present in the X-ray crystal structure, therefore dictating the solid state architecture. The X-ray analyses were complemented with a computational study (PBE0-D3/def2-TZVP level of theory), which shed light into the strength and directionality of the ChBs studied herein. Owing to the new possibilities that metal coordination offers to enhance or modulate the σ-hole donor ability of Chs, we believe that the findings presented herein are of remarkable importance for supramolecular chemists as well as for those scientists working in the field of solid state chemistry.
Collapse
|
21
|
Ward JS, Gomila RM, Frontera A, Rissanen K. Iodine(i) complexes incorporating sterically bulky 2-substituted pyridines. RSC Adv 2022; 12:8674-8682. [PMID: 35424827 PMCID: PMC8984907 DOI: 10.1039/d2ra01390h] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2022] [Accepted: 03/14/2022] [Indexed: 11/21/2022] Open
Abstract
The silver(i) and iodine(i) complexes of the 2-substituted pyridines 2-(diphenylmethyl)pyridine (1) and 2-(1,1-diphenylethyl)pyridine (2), along with their potential protonated side products, were synthesised to investigate the steric limitations of iodine(i) complex formation. The complexes were characterised by 1H and 1H–15N HMBC NMR, X-ray crystallography, and DFT calculations. The solid-state structures for the silver(i) and iodine(i) complexes were extensively compared to the literature and analysed by DFT to examine the influence of the sterically bulky pyridines and their anions. The silver(i) and iodine(i) complexes of two sterically bulky 2-substituted pyridines, along with their potential protonated side products, were synthesised to investigate the steric limitations of iodine(i) ion formation.![]()
Collapse
Affiliation(s)
- Jas S Ward
- University of Jyvaskyla, Department of Chemistry Jyväskylä 40014 Finland
| | - Rosa M Gomila
- Department of Chemistry, Universitat de les Illes Balears Crts de Valldemossa km 7.6 07122 Palma de Mallorca Baleares Spain
| | - Antonio Frontera
- Department of Chemistry, Universitat de les Illes Balears Crts de Valldemossa km 7.6 07122 Palma de Mallorca Baleares Spain
| | - Kari Rissanen
- University of Jyvaskyla, Department of Chemistry Jyväskylä 40014 Finland
| |
Collapse
|
22
|
Piña MDLN, Burguera S, Buils J, Crespí MÀ, Morales JE, Pons J, Bauzá A, Frontera A. Substituent effects in π-hole regium bonding interactions between Au(p-X-Py)2 complexes and Lewis bases: an ab initio study. Chemphyschem 2022; 23:e202200010. [PMID: 35191571 DOI: 10.1002/cphc.202200010] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2022] [Revised: 02/09/2022] [Indexed: 11/10/2022]
Abstract
For the first time, long range substituent effects in regium bonding interactions involving Au(I) linear complexes are investigated. The Au(I) atom is coordinated to two para -substituted pyridine ligands. The interaction energy (RI-MP2/def2-TZVP level of theory) of the π-hole regium bonding assemblies is affected by the pyridine substitution. The Hammett's plot representations for several sets of Lewis bases have been carried out and, in all cases, good regression plots have been obtained (interaction energies vs. Hammett's σ parameter). The Bader's theory of "atoms-in-molecules" has been used to evidence that the electron density computed at the bond critical point that connects the Au-atom to the electron donor can be used as a measure of bond order in regium bonding. Several X-ray structures retrieved from the Cambridge Structural Database (CSD) provide some experimental support to the existence of regium π-hole bonding in [Au(Py) 2 ] + derivatives.
Collapse
Affiliation(s)
| | | | - Jordi Buils
- Universitat de les Illes Balears, Chemistry, SPAIN
| | | | | | - Jordi Pons
- Universitat de les Illes Balears, Chemistry, SPAIN
| | | | - Antonio Frontera
- Universitat Illes Balears, Chemistry, Crta de Valldemossa km 7.5, 07122, Palma de Mallorca, SPAIN
| |
Collapse
|
23
|
Sori L, Pizzi A, Demitri N, Terraneo G, Frontera A, Metrangolo P. Hydrogen- and halogen bond synergy in the self-assembly of 3,5-dihalo-tyrosines: structural and theoretical insights. CrystEngComm 2022. [DOI: 10.1039/d2ce00670g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Halogenation, generally introduced on aromatic aminoacids, is becoming a key supramolecular tool in peptides. Herein, we report the crystal structures and DFT study of two bis-halogenated tyrosines showing the subtle...
Collapse
|
24
|
Pizzi A, Calabrese M, Daolio A, Ursini M, Frontera A, Resnati G. Expanding the toolbox of coinage bond: Adducts involving new gold(III) derivatives and bioactive molecules. CrystEngComm 2022. [DOI: 10.1039/d2ce00446a] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
X-ray analyses of a small library of adducts between AuX3 (X=Cl, Br) and several pyridine derivatives indicate the systematic presence of quite short π -holes coinage bonds; computational studies reveal...
Collapse
|
25
|
Abstract
A halogen-bonded complex containing a pair of anions can be made more stable than the isolated anions if the Lewis acid is a long carbon chain, fully substituted by CN groups, with an I atom on one end and a COO− group on the other, with Cl− as base.
Collapse
Affiliation(s)
- Steve Scheiner
- Department of Chemistry and Biochemistry, Utah State University, Logan, Utah 84322-0300, USA
| |
Collapse
|
26
|
Priola E, Giordana A, Gomila RM, Zangrando E, Andreo L, Rabezzana R, Operti L, Diana E, Mahmoudi G, Frontera A. Metallophilic interactions in silver(I) dicyanoaurate complexes. Dalton Trans 2022; 51:5818-5827. [DOI: 10.1039/d2dt00615d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
This manuscript reports four new gold(I)−silver(I) complexes with 2-(2-pyridyl)-1,8-naphthyridine (pyNP) and terpyridine (terpy) as ancillary ligands, of formulation [Ag(pyNP)(Au(CN)2)]2 (1), [Ag2Au2(μ-CN)2(CN)2(pyNP)2] (2), [Ag2Au(μ-CN)2(terpy)2][Au(CN)2] (3) and [Ag4Au4(μ-CN)8(terpy)2(py)] (4). Complexes 1 and...
Collapse
|
27
|
Zierkiewicz W, Michalczyk M, Maris T, Wysokiński R, Scheiner S. Experimental and theoretical evidence of attractive interactions between dianions: [PdCl 4] 2-⋯[PdCl 4] 2. Chem Commun (Camb) 2021; 57:13305-13308. [PMID: 34807208 DOI: 10.1039/d1cc05640a] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Inspection of the arrangement of tetrachloridopalladate(II) centers in a crystalline solid places the Cl of one [PdCl4]2- directly above the Pd center of its neighbor. A survey of the CSD provides 22 more examples of such MX42-⋯MX42- complexes, with M being a Group 10 metal and X = Cl, Br, or I. Quantum calculations attribute this arrangement to a π-hole bond wherein Cl lone pairs of one unit transfer charge to vacant orbitals above the Pd center of its neighbor. The stabilizing effect of this bond must overcome the strong Coulombic repulsion between the two dianions, which is facilitated by a polarizable environment as would be present in a crystal, but much more so when the effects of the neighboring counterions are factored in. These conclusions are extended to other [MX4]2- homodimers, where M represents other members of Group 10, namely Ni and Pt.
Collapse
Affiliation(s)
- Wiktor Zierkiewicz
- Faculty of Chemistry Wrocław University of Science and Technology Wybrzeże Wyspiańskiego 27, 50-370 Wrocław, Poland.
| | - Mariusz Michalczyk
- Faculty of Chemistry Wrocław University of Science and Technology Wybrzeże Wyspiańskiego 27, 50-370 Wrocław, Poland.
| | - Thierry Maris
- Département de Chimie, Université de Montréal, Montréal, Québec, H3C 3J7, Canada
| | - Rafał Wysokiński
- Faculty of Chemistry Wrocław University of Science and Technology Wybrzeże Wyspiańskiego 27, 50-370 Wrocław, Poland.
| | - Steve Scheiner
- Department of Chemistry and Biochemistry Utah State University, Logan, Utah 84322-0300, USA
| |
Collapse
|
28
|
Gomila RM, Frontera A. Metalloid Chalcogen–pnictogen σ-hole bonding competition in stibanyl telluranes. J Organomet Chem 2021. [DOI: 10.1016/j.jorganchem.2021.122092] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
|
29
|
Priola E, Giordana A, Mazzeo PP, Mahmoudi G, Gomila RM, Zubkov FI, Pokazeev KM, Valchuk KS, Bacchi A, Zangrando E, Frontera A. On the nature of recurrent Au⋯π motifs in tris(2,2'-bipyridine)M(II) (M = Fe, Co and Ni) dicyanoaurate(I) salts: X-ray analysis and theoretical rationalization. Dalton Trans 2021; 50:16954-16960. [PMID: 34617941 DOI: 10.1039/d1dt02632a] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
This manuscript reports the synthesis, X-ray characterization and DFT study of three new [M(bipy)3]2[Au(CN)2]3(X) (M = Fe, Co, and Ni; bipy = 2,2'-bipyridine; X = anion) ionic compounds. These salts are composed of [M(bipy)3]2+ dications and [Au(CN)2]- anions in a 2 : 3 ratio. The positive charge is compensated by X = Cl- anions in compounds 1 (M = Fe) and 2 (M = Co) and X = OH- in 3 (M = Ni). The three tridentate bipyridine ligands define the coordination of the M2+ cation, resulting in a nearly octahedral coordination sphere. The linear dicyanoaurate(I) anions are completely surrounded by a cradle of aromatic rings with Au-ring centroid distances below the sum of van der Waals radii, evidencing the existence of a specific Au⋯π attraction. This interaction has been analyzed in terms of the role of the Au-atom (Lewis acid or Lewis base) using DFT calculations combined with the quantum theory of atoms in molecules (QTAIM), noncovalent interaction plot index (NCIplot) and natural bond orbital (NBO) computational tools. The NBO suggests that the Au⋯π interaction is an example of a coinage bond in spite of the anionic nature of the acceptor and the cationic nature of the donor.
Collapse
Affiliation(s)
- Emanuele Priola
- Department of Chemistry, University of Turin, Via Pietro Giuria 7, 10125 Turin, Italy
| | - Alessia Giordana
- Department of Chemistry, University of Turin, Via Pietro Giuria 7, 10125 Turin, Italy
| | - Paolo P Mazzeo
- Dipartimento di Scienze Chimiche, della Vita e della Sostenibilità Ambientale, Università di Parma, Parco Area delle Scienze 17A, 43124 Parma, Italy.,Biopharmanet-TEC, Università degli studi di Parma, via Parco Area delle Scienze 27/A, 43124 Parma, Italy
| | - Ghodrat Mahmoudi
- Department of Chemistry, Faculty of Science, University of Maragheh, P.O. Box 55181-83111, Maragheh, Iran.
| | - Rosa M Gomila
- Department of Chemistry, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, 07122 Palma de Mallorca, Baleares, Spain.
| | - Fedor I Zubkov
- Faculty of Science, Peoples' Friendship University of Russia (RUDN University), 6 Miklukho-Maklaya St., Moscow 117198, Russian Federation
| | - Kuzma M Pokazeev
- Faculty of Science, Peoples' Friendship University of Russia (RUDN University), 6 Miklukho-Maklaya St., Moscow 117198, Russian Federation
| | - Karina S Valchuk
- Faculty of Science, Peoples' Friendship University of Russia (RUDN University), 6 Miklukho-Maklaya St., Moscow 117198, Russian Federation
| | - Alessia Bacchi
- Dipartimento di Scienze Chimiche, della Vita e della Sostenibilità Ambientale, Università di Parma, Parco Area delle Scienze 17A, 43124 Parma, Italy.,Biopharmanet-TEC, Università degli studi di Parma, via Parco Area delle Scienze 27/A, 43124 Parma, Italy
| | - Ennio Zangrando
- Department of Chemical and Pharmaceutical Sciences, University of Trieste, Via L. Giorgieri 1, 34127 Trieste, Italy
| | - Antonio Frontera
- Department of Chemistry, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, 07122 Palma de Mallorca, Baleares, Spain.
| |
Collapse
|
30
|
Tu D, Li J, Sun F, Yan H, Poater J, Solà M. Cage -···Cage - Interaction: Boron Cluster-Based Noncovalent Bond and Its Applications in Solid-State Materials. JACS AU 2021; 1:2047-2057. [PMID: 34841417 PMCID: PMC8611790 DOI: 10.1021/jacsau.1c00348] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/11/2021] [Indexed: 06/13/2023]
Abstract
Carboranes are boron-carbon clusters with important applications in the fields of materials, catalysis, pharmaceuticals, etc. However, the noncovalent interactions that could determine the solid-state structures and properties of such boron clusters have rarely been investigated. Herein, inspired by the coordinate bond in metallacarborane or ferrocene, the boron cluster-based noncovalent interaction (denoted as cage-···cage- interaction) between two nido-carborane clusters was successfully realized by using a pyridinium-based molecular barrier. The X-ray diffraction studies uncover that the cage-···cage- interaction has a contacting distance of 5.4-7.0 Å from centroid to centroid in the systems reported here. Theoretical calculations validate the formation of the noncovalent interaction and disclose its repulsive bonding nature that is overcome thanks to the positively charged pyridinium-based framework. Interestingly, such bulk crystalline materials containing the cage-···cage- interaction show relevant properties such as full-color absorption in the visible light range and important photothermal effect, which are absent for the control compound without carboranes. This study may offer fundamental insights into the boron cluster-based noncovalent interactions and open a new research avenue to rationally design boron cluster-based materials.
Collapse
Affiliation(s)
- Deshuang Tu
- State
Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of
Advanced Organic Materials, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, P. R. China
| | - Jiaxin Li
- State
Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of
Advanced Organic Materials, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, P. R. China
| | - Fangxiang Sun
- State
Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of
Advanced Organic Materials, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, P. R. China
| | - Hong Yan
- State
Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of
Advanced Organic Materials, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, P. R. China
| | - Jordi Poater
- Departament
de Química Inorgànica i Orgànica & Institut
de Química Teòrica i Computacional (IQTCUB), Universitat de Barcelona, Martí i Franquès 1-11, Barcelona 08028, Catalonia, Spain
- ICREA, Pg. Lluís Companys 23, Barcelona 08010, Spain
| | - Miquel Solà
- Institut
de Química Computacional i Catàlisi and Departament
de Química, Universitat de Girona, C/Maria Aurèlia Capmany,
69, Girona 17003, Catalonia Spain
| |
Collapse
|
31
|
On the Importance of Pnictogen and Chalcogen Bonding Interactions in Supramolecular Catalysis. Int J Mol Sci 2021; 22:ijms222212550. [PMID: 34830432 PMCID: PMC8623369 DOI: 10.3390/ijms222212550] [Citation(s) in RCA: 29] [Impact Index Per Article: 9.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2021] [Revised: 11/18/2021] [Accepted: 11/19/2021] [Indexed: 12/12/2022] Open
Abstract
In this review, several examples of the application of pnictogen (Pn) (group 15) and chalcogen (Ch) bonding (group 16) interactions in organocatalytic processes are gathered, backed up with Molecular Electrostatic Potential surfaces of model systems. Despite the fact that the use of catalysts based on pnictogen and chalcogen bonding interactions is taking its first steps, it should be considered and used by the scientific community as a novel, promising tool in the field of organocatalysis.
Collapse
|
32
|
Daolio A, Pizzi A, Terraneo G, Frontera A, Resnati G. Anion⋅⋅⋅Anion Interactions Involving σ-Holes of Perrhenate, Pertechnetate and Permanganate Anions. Chemphyschem 2021; 22:2281-2285. [PMID: 34541753 PMCID: PMC9291842 DOI: 10.1002/cphc.202100681] [Citation(s) in RCA: 44] [Impact Index Per Article: 14.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2021] [Indexed: 01/14/2023]
Abstract
In this communication experimental and theoretical results are reported affording strong evidence that interactions between electron rich atoms and the metal of tetroxide anions of group 7 elements are a new case of attractive and σ‐hole interactions. Single crystal X‐ray analyses, molecular electrostatic potentials, quantum theory of atoms‐in‐molecules, and noncovalent interaction plot analyses show that in crystalline permanganate and perrhenate salts the metal in Mn/ReO4− anion can act as electron acceptors, the oxygen of another Mn/ReO4− anion can act as the donor and supramolecular anionic dimers or polymers are formed. The name matere bond (MaB) is proposed to categorize these noncovalent interactions and to differentiate them from the classical metal‐ligand coordination bond.
Collapse
Affiliation(s)
- Andrea Daolio
- Department of Chemistry, Materials and, Chemical Engineering "Giulio Natta", Politecnico di Milano, via Mancinelli 7, 20131, Milano, Italy
| | - Andrea Pizzi
- Department of Chemistry, Materials and, Chemical Engineering "Giulio Natta", Politecnico di Milano, via Mancinelli 7, 20131, Milano, Italy
| | - Giancarlo Terraneo
- Department of Chemistry, Materials and, Chemical Engineering "Giulio Natta", Politecnico di Milano, via Mancinelli 7, 20131, Milano, Italy
| | - Antonio Frontera
- Department of Chemistry, Universitat de les Illes Balears, Crta. de Valldemossa, 07122, Palma de Mallorca, Baleares, Spain
| | - Giuseppe Resnati
- Department of Chemistry, Materials and, Chemical Engineering "Giulio Natta", Politecnico di Milano, via Mancinelli 7, 20131, Milano, Italy
| |
Collapse
|
33
|
Abstract
Elements from groups 14–18 and periods 3–6 commonly behave as Lewis acids, which are involved in directional noncovalent interactions (NCI) with electron-rich species (lone pair donors), π systems (aromatic rings, triple and double bonds) as well as nonnucleophilic anions (BF4−, PF6−, ClO4−, etc.). Moreover, elements of groups 15 to 17 are also able to act as Lewis bases (from one to three available lone pairs, respectively), thus presenting a dual character. These emerging NCIs where the main group element behaves as Lewis base, belong to the σ–hole family of interactions. Particularly (i) tetrel bonding for elements belonging to group 14, (ii) pnictogen bonding for group 15, (iii) chalcogen bonding for group 16, (iv) halogen bonding for group 17, and (v) noble gas bondings for group 18. In general, σ–hole interactions exhibit different features when moving along the same group (offering larger and more positive σ–holes) or the same row (presenting a different number of available σ–holes and directionality) of the periodic table. This is illustrated in this review by using several examples retrieved from the Cambridge Structural Database (CSD), especially focused on σ–hole interactions, complemented with molecular electrostatic potential surfaces of model systems.
Collapse
|
34
|
Daolio A, Pizzi A, Calabrese M, Terraneo G, Bordignon S, Frontera A, Resnati G. Molecular Electrostatic Potential and Noncovalent Interactions in Derivatives of Group 8 Elements. Angew Chem Int Ed Engl 2021; 60:20723-20727. [PMID: 34260810 PMCID: PMC8519081 DOI: 10.1002/anie.202107978] [Citation(s) in RCA: 41] [Impact Index Per Article: 13.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2021] [Revised: 07/14/2021] [Indexed: 12/15/2022]
Abstract
This communication reports experimental and theoretical evidences of σ‐hole interactions in adducts between nitrogen or oxygen nucleophiles and tetroxides of osmium or other group 8 elements. Cocrystals between pyridine or pyridine N‐oxide derivatives and osmium tetroxide are characterized through various techniques and rationalized as σ‐hole interactions using DFT calculations and several other computational tools. We propose the term “osme bond” (OmB, Om=Fe, Ru, Os, (Hs)) for naming the noncovalent interactions wherein group 8 elements have the role of the electrophile. The word osme is the transcription of ὀσμή, the ancient Greek word for smell that was used to name the heaviest group 8 element in relation to the smoky odor of its tetroxide.
Collapse
Affiliation(s)
- Andrea Daolio
- Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, via Mancinelli 7, 20131, Milano, Italy
| | - Andrea Pizzi
- Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, via Mancinelli 7, 20131, Milano, Italy
| | - Miriam Calabrese
- Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, via Mancinelli 7, 20131, Milano, Italy
| | - Giancarlo Terraneo
- Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, via Mancinelli 7, 20131, Milano, Italy
| | | | - Antonio Frontera
- Department of Chemistry, Universitat de les Illes Balears, Crta. de Valldemossa, 07122, Palma, de Mallorca (Baleares, Spain
| | - Giuseppe Resnati
- Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, via Mancinelli 7, 20131, Milano, Italy
| |
Collapse
|
35
|
Frontera A, Bauzá A. Biological halogen bonds in protein-ligand complexes: a combined QTAIM and NCIPlot study in four representative cases. Org Biomol Chem 2021; 19:6858-6864. [PMID: 34319314 DOI: 10.1039/d1ob01212f] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
In this study, the PDB has been manually scrutinized by using a subset of all PDB entries containing organic iodinated ligands. Four structures exhibiting short IA halogen bonding (HaB) contacts (A stands for the σ-hole acceptor) have been selected and further analysed. In most hits, the sigma-hole acceptor corresponds to an O-atom of the amido group belonging to the protein backbone. In a minority of hits, the electron donors are O, S, Se or π-systems of the amino-acid side chains. A judicious selection of four PDB structures presenting all four types of HaB interactions (C-IA, A = O, S, Se, π) has been performed. For these selected structures, a comprehensive RI-MP2/def2-TZVP study has been carried out to evaluate the HaB energetically. Moreover, the interactions have been characterized by combining the quantum theory of "atoms-in-molecules" (QTAIM) and the noncovalent interaction plot (NCIPlot) and rationalized using the molecular electrostatic potential (MEP) surface.
Collapse
Affiliation(s)
- Antonio Frontera
- Departament de Química, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, 07122 Palma de Mallorca, Baleares, Spain.
| | | |
Collapse
|
36
|
Daolio A, Pizzi A, Calabrese M, Terraneo G, Bordignon S, Frontera A, Resnati G. Molecular Electrostatic Potential and Noncovalent Interactions in Derivatives of Group 8 Elements. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202107978] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Andrea Daolio
- Department of Chemistry, Materials, and Chemical Engineering “Giulio Natta” Politecnico di Milano via Mancinelli 7 20131 Milano Italy
| | - Andrea Pizzi
- Department of Chemistry, Materials, and Chemical Engineering “Giulio Natta” Politecnico di Milano via Mancinelli 7 20131 Milano Italy
| | - Miriam Calabrese
- Department of Chemistry, Materials, and Chemical Engineering “Giulio Natta” Politecnico di Milano via Mancinelli 7 20131 Milano Italy
| | - Giancarlo Terraneo
- Department of Chemistry, Materials, and Chemical Engineering “Giulio Natta” Politecnico di Milano via Mancinelli 7 20131 Milano Italy
| | | | - Antonio Frontera
- Department of Chemistry Universitat de les Illes Balears Crta. de Valldemossa 07122 Palma de Mallorca (Baleares Spain
| | - Giuseppe Resnati
- Department of Chemistry, Materials, and Chemical Engineering “Giulio Natta” Politecnico di Milano via Mancinelli 7 20131 Milano Italy
| |
Collapse
|
37
|
Tripathi A, Daolio A, Pizzi A, Guo Z, Turner DR, Baggioli A, Famulari A, Deacon GB, Resnati G, Singh HB. Chalcogen Bonds in Selenocysteine Seleninic Acid, a Functional GPx Constituent, and in Other Seleninic or Sulfinic Acid Derivatives. Chem Asian J 2021; 16:2351-2360. [PMID: 34214252 PMCID: PMC8456948 DOI: 10.1002/asia.202100545] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2021] [Revised: 07/01/2021] [Indexed: 11/24/2022]
Abstract
The controlled oxidation reaction of L-selenocystine under neutral pH conditions affords selenocysteine seleninic acid (3-selenino-L-alanine) which is characterized also by means of single-crystal X-ray diffraction. This technique shows that selenium forms three chalcogen bonds (ChBs), one of them being outstandingly short. A survey of seleninic acid derivatives in the Cambridge Structural Database (CSD) confirms that the C-Se(=O)O- functionality tends to act as a ChB donor robust enough to systematically influence the interactional landscape in the solid. Quantum Theory of Atom in Molecules (QTAIM) analysis proves the attractive nature of the short contacts observed in crystals containing the seleninic functionality and calculation of surface molecular electrostatic potential (MEP) reveals that remarkably positive σ-holes can frequently be found opposite to the covalent bonds at selenium. Both CSD searches and QTAIM and MEP approaches show that also the sulfinic acid moiety can function as a ChB donor, albeit less frequently than the seleninic acid one. These findings may contribute to a better understanding, at the atomic level, of the mechanism of action of the enzymes that control oxidative stress and ROS deactivation and that contain selenocysteine seleninic acid and cysteine sulfinic acid in the active site.
Collapse
Affiliation(s)
- Abhishek Tripathi
- Department of ChemistryIndian Institute of Technology BombayMumbai400076India
- School of ChemistryMonash UniversityClaytonVictoria3800Australia
- IITB-Monash Research AcademyMonash UniversityPowai, Mumbai400076India
| | - Andrea Daolio
- Department of Chemistry, Materials and Chemical Engineering“Giulio Natta”Politecnico di MilanoVia Luigi Mancinelli 720131MilanoItaly
| | - Andrea Pizzi
- Department of Chemistry, Materials and Chemical Engineering“Giulio Natta”Politecnico di MilanoVia Luigi Mancinelli 720131MilanoItaly
| | - Zhifang Guo
- School of ChemistryMonash UniversityClaytonVictoria3800Australia
| | - David R. Turner
- School of ChemistryMonash UniversityClaytonVictoria3800Australia
- IITB-Monash Research AcademyMonash UniversityPowai, Mumbai400076India
| | - Alberto Baggioli
- Department of Chemistry, Materials and Chemical Engineering“Giulio Natta”Politecnico di MilanoVia Luigi Mancinelli 720131MilanoItaly
| | - Antonino Famulari
- Department of Chemistry, Materials and Chemical Engineering“Giulio Natta”Politecnico di MilanoVia Luigi Mancinelli 720131MilanoItaly
| | - Glen B. Deacon
- School of ChemistryMonash UniversityClaytonVictoria3800Australia
- IITB-Monash Research AcademyMonash UniversityPowai, Mumbai400076India
| | - Giuseppe Resnati
- Department of Chemistry, Materials and Chemical Engineering“Giulio Natta”Politecnico di MilanoVia Luigi Mancinelli 720131MilanoItaly
| | - Harkesh B. Singh
- Department of ChemistryIndian Institute of Technology BombayMumbai400076India
- IITB-Monash Research AcademyMonash UniversityPowai, Mumbai400076India
| |
Collapse
|
38
|
Priola E, Mahmoudi G, Andreo J, Frontera A. Unprecedented [d 9]Cu[d 10]Au coinage bonding interactions in {Cu(NH 3) 4[Au(CN) 2]} +[Au(CN) 2] - salt. Chem Commun (Camb) 2021; 57:7268-7271. [PMID: 34195712 DOI: 10.1039/d1cc02709c] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Abstract
The X-ray structure of the {Cu(NH3)4[Au(CN)2]}+[Au(CN)2]- salt is reported showing an unprecedented [d9]Cu[d10]Au coinage bond. The physical nature of the interaction has been studied using DFT calculations, including the quantum theory of atoms-in-molecules, the noncovalent interaction plot and the natural bond orbital analysis, revealing the nucleophilic role of the [d10]Au metal and the electrophilic role of [d9]Cu metal.
Collapse
Affiliation(s)
- Emanuele Priola
- Department of Chemistry, Universitá di Torino, Via Pietro Giuria 7, Torino 10125, Italy
| | | | | | | |
Collapse
|
39
|
Daolio A, Pizzi A, Terraneo G, Ursini M, Frontera A, Resnati G. Anion⋅⋅⋅Anion Coinage Bonds: The Case of Tetrachloridoaurate. Angew Chem Int Ed Engl 2021; 60:14385-14389. [PMID: 33872450 PMCID: PMC8251892 DOI: 10.1002/anie.202104592] [Citation(s) in RCA: 39] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2021] [Indexed: 01/13/2023]
Abstract
Interactions in crystalline tetrachloridoaurates of acetylcholine and dimethylpropiothetine are characterized by Au⋅⋅⋅Cl and Au⋅⋅⋅O short contacts. The former interactions assemble the AuCl4 - units into supramolecular anionic polymers, while the latter interactions append the acetylcholine and propiothetine units to the polymer. The distorted octahedral geometry of the bonding pattern around the gold center is rationalized on the basis of the anisotropic distribution of the electron density, which enables gold to behave as an electrophile (π-hole coinage-bond donor). Computational studies prove that gold atoms in negatively charged species can function as acceptors of electron density. The attractive nature of the Au⋅⋅⋅Cl/O interactions described here complement the known aurophilic bonds involved in gold-centered interactions.
Collapse
Affiliation(s)
- Andrea Daolio
- NFMLab, Dept- Chemistry, Materials, and Chemical Engineering “Giulio Natta”Politecnico di Milanovia L. Mancinelli 720131MilanoItaly
| | - Andrea Pizzi
- NFMLab, Dept- Chemistry, Materials, and Chemical Engineering “Giulio Natta”Politecnico di Milanovia L. Mancinelli 720131MilanoItaly
| | - Giancarlo Terraneo
- NFMLab, Dept- Chemistry, Materials, and Chemical Engineering “Giulio Natta”Politecnico di Milanovia L. Mancinelli 720131MilanoItaly
| | - Maurizio Ursini
- NFMLab, Dept- Chemistry, Materials, and Chemical Engineering “Giulio Natta”Politecnico di Milanovia L. Mancinelli 720131MilanoItaly
| | - Antonio Frontera
- Dept. ChemistryUniversitat de les Illes BalearsCrta. de Valldemossa km 7.507122Palma de Mallorca (Baleares)Spain
| | - Giuseppe Resnati
- NFMLab, Dept- Chemistry, Materials, and Chemical Engineering “Giulio Natta”Politecnico di Milanovia L. Mancinelli 720131MilanoItaly
| |
Collapse
|