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García-Santos I, Krümpelmann J, Saa M, Burguera S, Frontera A, Castiñeiras A. Silver(I) Octanuclear Complexes Containing N'-(4-Oxotiazolidin-2-Iliden)picolinohydrazonamide and Nitrate as Bridge Ligands. An Example of Solvatomorphism? Inorg Chem 2024; 63:9221-9236. [PMID: 38713512 DOI: 10.1021/acs.inorgchem.4c00794] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/09/2024]
Abstract
The versatile coordination chemistry of (2Z,N'E)-N'-(4-oxothiazolidin-2-ylidene)picolinohydrazonamide (HAmDHotaz) facilitated the synthesis of new complexes with different silver(I) salts. This paper describes the synthesis and characterization, through elemental analysis and spectroscopic techniques (when solubility permits), of a series of compounds that illustrate the coordinative and structural diversity achievable with the HAmDHotaz ligand. Five silver clusters containing the [Ag8(AmDHotaz)4]4+ nucleus were structurally analyzed by single-crystal X-ray diffraction and were found to exhibit solvomorphism. The compositions of these are [Ag8(AmDHotaz)4(NO3)3(MeOH)(H2O)](NO3)·MeOH·7.5H2O (1), {[Ag8(AmDHotaz)4(NO3)3(H2O)2](NO3)·9.5(H2O)}n (2), {[Ag8(AmDHotaz)4(NO3)3(H2O)2](NO3)·11.5(H2O)}n (2a), {[Ag8(AmDHotaz)4(NO3)2(H2O)2](NO3)(OH)·6H2O}n (3), and {[Ag8(AmDHotaz)4(NO3)2(H2O)](NO3)(OH)·4.5H2O}n (3a). Argentophilic interactions are present in each of the octanuclear structures, where Ag···Ag distances range from 2.828(2) to 2.986(1) Å. These distances are influenced by crystal packing, determined by the counterion and solvent molecules in the structure. In the solvatomorphs, solvent molecules were observed to be disordered. Various hydrogen-bonding interactions, such as N-H···O-N, O-H···O, N-H···O═C, C-H···O-N, and π-π stacking interactions, contribute to the crystal packing. The influence of these weak interactions on the crystal packing was further analyzed using DFT calculations and Bader's theory of atoms-in-molecules, with a focus on argentophilic interactions and Ag···S interactions.
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Affiliation(s)
- Isabel García-Santos
- Department of Inorganic Chemistry, Faculty of Pharmacy, University of Santiago de Compostela, Santiago de Compostela 15782, Spain
| | - Julia Krümpelmann
- Department of Inorganic Chemistry, Faculty of Pharmacy, University of Santiago de Compostela, Santiago de Compostela 15782, Spain
| | - Manuel Saa
- Department of Inorganic Chemistry, Faculty of Pharmacy, University of Santiago de Compostela, Santiago de Compostela 15782, Spain
| | - Sergi Burguera
- Department de Química, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, Palma de Mallorca 07122, Spain
| | - Antonio Frontera
- Department de Química, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, Palma de Mallorca 07122, Spain
| | - Alfonso Castiñeiras
- Department of Inorganic Chemistry, Faculty of Pharmacy, University of Santiago de Compostela, Santiago de Compostela 15782, Spain
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Das K, Beyene BB, Massera C, Garribba E, El Fallah MS, Frontera A, Hung CH, Datta A. Magnetic study and DFT analysis of a doubly carboxylato-bridged Co(II) derivative anchored with a 'scorpionate' precursor as a potential electrocatalyst for heterogeneous H 2 evolution. Dalton Trans 2024. [PMID: 38757183 DOI: 10.1039/d4dt00807c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/18/2024]
Abstract
A new doubly carboxylato-bridged Co(II) dinuclear complex, [Co(bdtbpza)(NCS)]2 (1), was obtained in a satisfactory yield by employing a 'scorpionate'-type precursor, bdtbpza {bis-(3,5-di-tert-butylpyrazol-1-yl)acetate}, and was then structurally characterized. Single-crystal X-ray diffraction analysis revealed that, in 1, each Co(II) is penta-coordinated, leading to a distorted trigonal-bipyramidal geometry within the coordination environment of N3O2. Weak antiferromagnetic coupling within the Co(II) ions in 1 was found based on the isotropic spin Hamiltonian H = -J(S1·S2) for the Si = 3/2 system. For evaluating the spin density distribution and the mechanism for the magnetic exchange coupling, DFT analysis was performed, with the calculated result agreeing the experimental magnetic data. A study into electrochemical H2 evolution, involving cyclic voltammetry (CV), controlled potential electrolysis (CPE), and gas chromatographic (GC) analyses of the graphite electrode modified with the cobalt complex in a neutral aqueous solution revealed the high catalytic activity of the complex with a low overpotential toward H2O reduction. The faradaic efficiency of the catalyst was found to be 83.7% and the di-cobalt catalyst-modified electrode displayed quite an interesting H2-evolution activity compared with that of bare electrodes. These results are encouraging for the future potential application of 1 in water splitting.
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Affiliation(s)
- Kuheli Das
- Department of Chemistry, University of Calcutta, 92 A.P.C. Road, Kolkata - 700009, India
- Institute of Chemistry, Academia Sinica, Nankang - 115, Taipei, Taiwan.
| | - Belete B Beyene
- Department of Chemistry, Bahir Dar University, P.O. Box 79, Bahir Dar, Ethiopia
- Institute of Chemistry, Academia Sinica, Nankang - 115, Taipei, Taiwan.
| | - Chiara Massera
- Dipartimento di Scienze Chimiche, della Vita e della Sostenibilità Ambientale, Università degli Studi di Parma, Viale delle Scienze 17/A, 43124 Parma, Italy
| | - Eugenio Garribba
- Dipartimento di Medicina, Chirurgia e Farmacia, Università di Sassari, Viale San Pietro, I-07100 Sassari, Italy
| | - M S El Fallah
- Departament de Química Inorgànica i Orgànica, Secció Inorgànica and Institut de Nanociència i Nanotecnologia, Universitat de Barcelona, Martí i Franquès, 1-11, 08028-Barcelona, Spain
| | - Antonio Frontera
- Departament de Química, Universitat de les Illes Balears, Crta de Valldemossa km 7.5, 07122 Palma de Mallorca, Baleares, Spain
| | - Chen-Hsiung Hung
- Institute of Chemistry, Academia Sinica, Nankang - 115, Taipei, Taiwan.
| | - Amitabha Datta
- Institute of Chemistry, Academia Sinica, Nankang - 115, Taipei, Taiwan.
- Department of Chemistry, National Changhua University of Education, Changhua - 50058, Taiwan
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Middya P, Frontera A, Chattopadhyay S. The crucial role of hydrogen bonding in shaping the structures of zinc-based coordination polymers using tridentate N, N, O donor reduced Schiff base ligands and bridging acetates. RSC Adv 2024; 14:13905-13914. [PMID: 38681845 PMCID: PMC11049752 DOI: 10.1039/d4ra00550c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2024] [Accepted: 04/23/2024] [Indexed: 05/01/2024] Open
Abstract
In this manuscript we report the synthesis and characterization of two new polynuclear zinc(ii) complexes, [Zn2L1(μ-OAc)3]n·H2O (1) and [Zn2L2(μ-OAc)3]n (2) using two tridentate ligands, HL1 {4-chloro-2-(((2-(methylamino)ethyl)amino)methyl)phenol} and HL2 {2,4-dibromo-6-(((3-(methylamino)propyl)amino)methyl)phenol}. The structures were confirmed by single-crystal X-ray diffraction analysis. Both complexes form 1D chains. The energy of H-bonding interaction in the solid state structures of the complexes has been estimated by DFT calculation and the crucial role of hydrogen bonding in shaping their structures has been highlighted.
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Affiliation(s)
- Puspendu Middya
- Department of Chemistry, Jadavpur University Kolkata 700032 India
| | - Antonio Frontera
- Department of Chemistry, Universitat de les Illes Balears Crta de Valldemossa km 7.5 07122 Palma de Mallorca (Baleares) Spain
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Maity S, Bhunia S, Drew MGB, Gomila RM, Frontera A, Chattopadhyay S. Formation of H-bonding networks in the solid state structure of a trinuclear cobalt(iii/ii/iii) complex with N 2O 2 donor Schiff base ligand and glutaric acid as bridging co-ligand: synthesis, structure and DFT study. RSC Adv 2024; 14:13200-13208. [PMID: 38655483 PMCID: PMC11037027 DOI: 10.1039/d3ra07697k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2023] [Accepted: 04/09/2024] [Indexed: 04/26/2024] Open
Abstract
A trinuclear linear mixed-valence centrosymmetric cobalt(iii)-cobalt(ii)-cobalt(iii) complex, [CoII{(μ-L)(μ-Hglu)CoIII(OH2)}2](ClO4)2·6H2O has been synthesized during tetradentate N2O2 donor 'Schiff base' ligand, H2L {N,N'-bis(salicylidene)-1,3-diaminopropane} and glutaric acid (H2glu) as anionic co-ligand. The complex has been characterized by spectroscopic measurements and its solid state structure has been determined by single crystal X-ray diffraction analysis. The supra-molecular assembly formed by the hydrogen bonding interactions in the solid state of the complex has been analysed using DFT calculations.
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Affiliation(s)
- Sovana Maity
- Department of Chemistry, Jadavpur University Kolkata 700032 West Bengal India
| | - Sudip Bhunia
- Department of Chemistry, Jadavpur University Kolkata 700032 West Bengal India
| | - Michael G B Drew
- School of Chemistry, The University of Reading P.O. Box 224 Whiteknights Reading RG6 6AD UK
| | - Rosa M Gomila
- Departament de Química, Universitat de les Illes Balears Crta de valldemossa km 7.7 07122 Palma de Mallorca (Baleares) Spain
| | - Antonio Frontera
- Departament de Química, Universitat de les Illes Balears Crta de valldemossa km 7.7 07122 Palma de Mallorca (Baleares) Spain
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Gomila RM, Frontera A. On the Existence of Pnictogen Bonding Interactions in As(III) S-Adenosylmethionine Methyltransferase Enzymes. Chem Asian J 2024; 19:e202400081. [PMID: 38407495 DOI: 10.1002/asia.202400081] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2024] [Revised: 02/23/2024] [Accepted: 02/26/2024] [Indexed: 02/27/2024]
Abstract
As(III) S-adenosylmethionine methyltransferases, pivotal enzymes in arsenic metabolism, facilitate the methylation of arsenic up to three times. This process predominantly yields trivalent mono- and dimethylarsenite, with trimethylarsine forming in smaller amounts. While this enzyme acts as a detoxifier in microbial systems by altering As(III), in humans, it paradoxically generates more toxic and potentially carcinogenic methylated arsenic species. The strong affinity of As(III) for cysteine residues, forming As(III)-thiolate bonds, is exploited in medical treatments, notably in arsenic trioxide (Trisenox®), an FDA-approved drug for leukemia. The effectiveness of this drug is partly due to its interaction with cysteine residues, leading to the breakdown of key oncogenic fusion proteins. In this study, we extend the understanding of As(III)'s binding mechanisms, showing that, in addition to As(III)-S covalent bonds, noncovalent O⋅⋅⋅As pnictogen bonding plays a vital role. This interaction significantly contributes to the structural stability of the As(III) complexes. Our crystallographic analysis using the PDB database of As(III) S-adenosylmethionine methyltransferases, augmented by comprehensive theoretical studies including molecular electrostatic potential (MEP), quantum theory of atoms in molecules (QTAIM), and natural bond orbital (NBO) analysis, emphasizes the critical role of pnictogen bonding in these systems. We also undertake a detailed evaluation of the energy characteristics of these pnictogen bonds using various theoretical models. To our knowledge, this is the first time pnictogen bonds in As(III) derivatives have been reported in biological systems, marking a significant advancement in our understanding of arsenic's molecular interactions.
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Affiliation(s)
- Rosa M Gomila
- Department of Chemistry, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, 07122, Palma de Mallorca (Baleares), Spain
| | - Antonio Frontera
- Department of Chemistry, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, 07122, Palma de Mallorca (Baleares), Spain
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Grödler D, Burguera S, Frontera A, Strub E. Investigating Recurrent Matere Bonds in Pertechnetate Compounds. Chemistry 2024; 30:e202400100. [PMID: 38385852 DOI: 10.1002/chem.202400100] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2024] [Revised: 02/12/2024] [Accepted: 02/13/2024] [Indexed: 02/23/2024]
Abstract
In this manuscript we evaluate the X-ray structure of five new pertechnetate derivatives of general formula [M(H2O)4(TcO4)2], M=Mg, Co, Ni, Cu, Zn (compounds 1-5) and one perrhenate compound Zn(H2O)4(ReO4)2 (6). In these complexes the metal center exhibits an octahedral coordination with the pertechnetate units as axial ligands. All compounds exhibit the formation of directional Tc⋅⋅⋅O Matere bonds (MaBs) that propagate the [M(H2O)4(TcO4)2], into 1D supramolecular polymers in the solid state. Such 1D polymers are linked, generating 2D layers, by combining additional MaBs and hydrogen bonds (HBs). Such concurrent motifs have been analyzed theoretically, suggesting the noncovalent σ-hole nature of the MaBs. The interaction energies range from weak (~ -2 kcal/mol) for the MaBs to strong (~ -30 kcal/mol) for the MaB+HB assemblies, where HB dominates. In case of M=Zn, the corresponding perrhenate Zn(H2O)4(ReO4)2 complex, has been also synthesized for comparison purposes, resulting in the formation of an isostructural X-ray structure, corroborating the structure-directing role of Matere bonds.
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Affiliation(s)
- Dennis Grödler
- Department of Chemistry, Division of Nuclear Chemistry, University of Cologne, Zülpicher Str. 45, 50674, Cologne, Germany
| | - Sergi Burguera
- Departament de Química, Universitat de les Illes Balears, Crta. De Valldemossa km 7.5, 07122, Palma de Mallorca (Baleares), SPAIN
| | - Antonio Frontera
- Departament de Química, Universitat de les Illes Balears, Crta. De Valldemossa km 7.5, 07122, Palma de Mallorca (Baleares), SPAIN
| | - Erik Strub
- Department of Chemistry, Division of Nuclear Chemistry, University of Cologne, Zülpicher Str. 45, 50674, Cologne, Germany
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Dell'Era G, Baroni M, Frontera A, Ghiglieno C, Carbonaro M, Penela Maceda D, Romano C, Giordano F, Del Monaco G, Galimberti P, Mazzone P, Patti G. Left bundle branch area versus conventional pacing after transcatheter valve implant for aortic stenosis: the LATVIA study. J Cardiovasc Med (Hagerstown) 2024:01244665-990000000-00202. [PMID: 38625833 DOI: 10.2459/jcm.0000000000001619] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/18/2024]
Abstract
BACKGROUND Atrioventricular block (AVB) is a frequent complication in patients undergoing transcatheter aortic valve implantation (TAVI). Right apex ventricular pacing (RVP) represents the standard treatment but may induce cardiomyopathy over the long term. Left bundle branch area pacing (LBBAP) is a promising alternative, minimizing the risk of desynchrony. However, available evidence with LBBAP after TAVI is still low. OBJECTIVE To assess the feasibility and safety of LBBAP for AVB post-TAVI compared with RVP. METHODS Consecutive patients developing AVB early after TAVI were enrolled between 1 January 2022 and 31 December 2022 at three high-volume hospitals and received LBBAP or RVP. Data on procedure and at short-term follow-up (at least 3 months) were collected. RESULTS A total of 38 patients (61% men, mean age 83 ± 6 years) were included; 20 patients (53%) received LBBAP. Procedural success was obtained in all patients according to chosen pacing strategy. Electrical pacing performance at implant and after a mean follow-up of 4.2 ± 2.8 months was clinically equivalent for both pacing modalities. In the LBBAP group, procedural time was longer (70 ± 17 versus 58 ± 15 min in the RVP group, P = 0.02) and paced QRS was shorter (120 ± 19 versus 155 ± 12 ms at implant, P < 0.001; 119 ± 18 versus 157 ± 9 ms at follow-up, P < 0.001). Complication rates did not differ between the two groups. CONCLUSION In patients with AVB after TAVI, LBBAP is feasible and safe, resulting in a narrow QRS duration, either acutely and during the follow-up, compared with RVP. Further studies are needed to evaluate if LBBAP reduces pacing-induced cardiomyopathy in this clinical setting.
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Affiliation(s)
- Gabriele Dell'Era
- Clinica Cardiologica, Dipartimento Toraco-Cardio-Vascolare, Ospedale Maggiore della Carità, Novara
| | - Matteo Baroni
- Cardiologia 3. A. De' Gasperis Cardio Center, ASST GOM Niguarda Hospital
| | - Antonio Frontera
- Cardiologia 3. A. De' Gasperis Cardio Center, ASST GOM Niguarda Hospital
| | - Chiara Ghiglieno
- Clinica Cardiologica, Dipartimento Toraco-Cardio-Vascolare, Ospedale Maggiore della Carità, Novara
| | - Marco Carbonaro
- Cardiologia 3. A. De' Gasperis Cardio Center, ASST GOM Niguarda Hospital
| | | | - Carmine Romano
- Università del Piemonte Orientale Amedeo Avogadro, Italy
| | - Federica Giordano
- Cardiologia 3. A. De' Gasperis Cardio Center, ASST GOM Niguarda Hospital
| | | | | | - Patrizio Mazzone
- Cardiologia 3. A. De' Gasperis Cardio Center, ASST GOM Niguarda Hospital
| | - Giuseppe Patti
- Clinica Cardiologica, Dipartimento Toraco-Cardio-Vascolare, Ospedale Maggiore della Carità, Novara
- Università del Piemonte Orientale Amedeo Avogadro, Italy
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Milesi P, Baldelli Bombelli F, Lanfrancone L, Gomila RM, Frontera A, Metrangolo P, Terraneo G. Structural Insights on the Role of Halogen Bonding in Protein MEK Kinase-Inhibitor Complexes. Chem Asian J 2024; 19:e202301033. [PMID: 38501888 DOI: 10.1002/asia.202301033] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2023] [Revised: 02/07/2024] [Indexed: 03/20/2024]
Abstract
Kinases are enzymes that play a critical role in governing essential biological processes. Due to their pivotal involvement in cancer cell signaling, they have become key targets in the development of anti-cancer drugs. Among these drugs, those containing the 2,4-dihalophenyl moiety demonstrated significant potential. Here we show how this moiety, particularly the 2-fluoro-4-iodophenyl one, is crucial for the structural stability of the formed drug-enzyme complexes. Crystallographic analysis of reported kinase-inhibitor complex structures highlights the role of the halogen bonding that this moiety forms with specific residues of the kinase binding site. This interaction is not limited to FDA-approved MEK inhibitors, but it is also relevant for other kinase inhibitors, indicating its broad relevance in the design of this class of drugs.
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Affiliation(s)
- Pietro Milesi
- Laboratory of Supramolecular and Bio-Nanomaterials (SBNLab), Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, Via L. Mancinelli 7, 20131, Milano, Italy
- Laboratory of Innovative approaches for tissue engineering and drug delivery, Joint Research Platform "ONCO-TECH LAB - Modeling and Applications for Human Health", Politecnico di Milano - IEO "European Institute of Oncology", IRCCS, Via Adamello 16, 20139, Milano, Italy
| | - Francesca Baldelli Bombelli
- Laboratory of Supramolecular and Bio-Nanomaterials (SBNLab), Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, Via L. Mancinelli 7, 20131, Milano, Italy
- Laboratory of Innovative approaches for tissue engineering and drug delivery, Joint Research Platform "ONCO-TECH LAB - Modeling and Applications for Human Health", Politecnico di Milano - IEO "European Institute of Oncology", IRCCS, Via Adamello 16, 20139, Milano, Italy
| | - Luisa Lanfrancone
- Laboratory of Supramolecular and Bio-Nanomaterials (SBNLab), Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, Via L. Mancinelli 7, 20131, Milano, Italy
- Laboratory of Innovative approaches for tissue engineering and drug delivery, Joint Research Platform "ONCO-TECH LAB - Modeling and Applications for Human Health", Politecnico di Milano - IEO "European Institute of Oncology", IRCCS, Via Adamello 16, 20139, Milano, Italy
| | - Rosa M Gomila
- Department of Chemistry, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, 07122, Palma de Mallorca (Baleares), Spain
| | - Antonio Frontera
- Department of Chemistry, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, 07122, Palma de Mallorca (Baleares), Spain
| | - Pierangelo Metrangolo
- Laboratory of Supramolecular and Bio-Nanomaterials (SBNLab), Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, Via L. Mancinelli 7, 20131, Milano, Italy
- Laboratory of Innovative approaches for tissue engineering and drug delivery, Joint Research Platform "ONCO-TECH LAB - Modeling and Applications for Human Health", Politecnico di Milano - IEO "European Institute of Oncology", IRCCS, Via Adamello 16, 20139, Milano, Italy
| | - Giancarlo Terraneo
- Laboratory of Supramolecular and Bio-Nanomaterials (SBNLab), Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, Via L. Mancinelli 7, 20131, Milano, Italy
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Baykov SV, Semenov AV, Presnukhina SI, Tarasenko MV, Shetnev AA, Frontera A, Boyarskiy VP, Kukushkin VY. Hybrid 2D Supramolecular Organic Frameworks (SOFs) Assembled by the Cooperative Action of Hydrogen and Halogen Bonding and π⋯π Stacking Interactions. Int J Mol Sci 2024; 25:2062. [PMID: 38396739 PMCID: PMC10889172 DOI: 10.3390/ijms25042062] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2024] [Revised: 02/02/2024] [Accepted: 02/05/2024] [Indexed: 02/25/2024] Open
Abstract
The cis- and trans-isomers of 6-(3-(3,4-dichlorophenyl)-1,2,4-oxadiazol-5-yl)cyclohex-3-ene-1-carboxylic acid (cis-A and trans-A) were obtained by the reaction of 3,4-dichloro-N'-hydroxybenzimidamide and cis-1,2,3,6-tetrahydrophthalic anhydride. Cocrystals of cis-A with appropriate solvents (cis-A‧½(1,2-DCE), cis-A‧½(1,2-DBE), and cis-A‧½C6H14) were grown from 1,2-dichloroethane (1,2-DCE), 1,2-dibromoethane (1,2-DBE), and a n-hexane/CHCl3 mixture and then characterized by X-ray crystallography. In their structures, cis-A is self-assembled to give a hybrid 2D supramolecular organic framework (SOF) formed by the cooperative action of O-H⋯O hydrogen bonding, Cl⋯O halogen bonding, and π⋯π stacking. The self-assembled cis-A divides the space between the 2D SOF layers into infinite hollow tunnels incorporating solvent molecules. The energy contribution of each noncovalent interaction to the occurrence of the 2D SOF was verified by several theoretical approaches, including MEP and combined QTAIM and NCIplot analyses. The consideration of the theoretical data proved that hydrogen bonding (approx. -15.2 kcal/mol) is the most important interaction, followed by π⋯π stacking (approx. -11.1 kcal/mol); meanwhile, the contribution of halogen bonding (approx. -3.6 kcal/mol) is the smallest among these interactions. The structure of the isomeric compound trans-A does not exhibit a 2D SOF architecture. It is assembled by the combined action of hydrogen bonding and π⋯π stacking, without the involvement of halogen bonds. A comparison of the cis-A structures with that of trans-A indicated that halogen bonding, although it has the lowest energy in cis-A-based cocrystals, plays a significant role in the crystal design of the hybrid 2D SOF. The majority of the reported porous halogen-bonded organic frameworks were assembled via iodine and bromine-based contacts, while chlorine-based systems-which, in our case, are structure-directing-were unknown before this study.
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Affiliation(s)
- Sergey V. Baykov
- Institute of Chemistry, Saint Petersburg State University, 7/9 Universitetskaya Nab., 199034 Saint Petersburg, Russia; (S.V.B.); (A.V.S.); (S.I.P.); (V.Y.K.)
| | - Artem V. Semenov
- Institute of Chemistry, Saint Petersburg State University, 7/9 Universitetskaya Nab., 199034 Saint Petersburg, Russia; (S.V.B.); (A.V.S.); (S.I.P.); (V.Y.K.)
| | - Sofia I. Presnukhina
- Institute of Chemistry, Saint Petersburg State University, 7/9 Universitetskaya Nab., 199034 Saint Petersburg, Russia; (S.V.B.); (A.V.S.); (S.I.P.); (V.Y.K.)
| | - Marina V. Tarasenko
- Pharmaceutical Technology Transfer Center, Ushinsky Yaroslavl State Pedagogical University, 108 Respublikanskaya St., 150000 Yaroslavl, Russia; (M.V.T.); (A.A.S.)
| | - Anton A. Shetnev
- Pharmaceutical Technology Transfer Center, Ushinsky Yaroslavl State Pedagogical University, 108 Respublikanskaya St., 150000 Yaroslavl, Russia; (M.V.T.); (A.A.S.)
| | - Antonio Frontera
- Departament de Química, Universitat de les Illes Balears, Crta de Valldemossa km 7.5, 07122 Palma de Mallorca, Spain;
| | - Vadim P. Boyarskiy
- Institute of Chemistry, Saint Petersburg State University, 7/9 Universitetskaya Nab., 199034 Saint Petersburg, Russia; (S.V.B.); (A.V.S.); (S.I.P.); (V.Y.K.)
| | - Vadim Yu. Kukushkin
- Institute of Chemistry, Saint Petersburg State University, 7/9 Universitetskaya Nab., 199034 Saint Petersburg, Russia; (S.V.B.); (A.V.S.); (S.I.P.); (V.Y.K.)
- Institute of Chemistry and Pharmaceutical Technologies, Altai State University, 656049 Barnaul, Russia
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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: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [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.
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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
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11
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Romo-Islas G, Gil-Moles M, Saxena A, Frontera A, Gimeno MC, Rodríguez L. Effect of substituents on the 1O 2 production and biological activity of (N^N^N)Pt(py) complexes. Dalton Trans 2024; 53:2475-2486. [PMID: 38174938 DOI: 10.1039/d3dt04050j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2024]
Abstract
Twelve (N^N^N)platinum pyridyl complexes, (N^N^N)Pt(pyF), were synthesised and investigated for their singlet oxygen generation and potential biological activities. They exhibited 1IL and 1MLCT absorption transitions at approximately 325 and 360 nm, identified through TD-DFT calculations. Luminescence was observed only in the L1-derived compounds in solution, with a dual emission with the main contribution of phosphorescence under deaerated conditions. Room temperature phosphorescence was detected in all solid-state cases. Electron-withdrawing substituents at specific positions (R1 and X) and the number of fluorine atoms in R2 were found to enhance the photosensitizing capabilities of these compounds. Biological assessments, including cytotoxicity and photocytotoxicity, were conducted to evaluate their potential as chemotherapeutic agents and photosensitizers. Complexes with chloro substitution in the N^N^N tridentate ligand of the central pyridine ring exhibited promising chemotherapeutic properties. Ancillary pyridine ring substitution became significant under irradiation conditions, with fluoromethylated substituents enhancing cytotoxicity. Complex 2-CF3 was the most efficient singlet oxygen producer and a highly effective photosensitizer. CHF2-substituted complexes also showed improved photosensitizing activity. DNA binding studies indicated moderate interactions with DNA, offering insights into potential biological applications.
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Affiliation(s)
- Guillermo Romo-Islas
- Departament de Química Inorgànica i Orgànica, Secció de Química Inorgànica, Universitat de Barcelona, Martí i Franquès 1-11, 08028 Barcelona, Spain.
- Institut de Nanociència i Nanotecnologia (IN2UB), Universitat de Barcelona, 08028 Barcelona, Spain
| | - María Gil-Moles
- Instituto de Síntesis Química y Catálisis Homogénea (ISQCH), CSIC-Universidad de Zaragoza, Pedro Cerbuna 12, 50009 Zaragoza, Spain.
- Departamento de Química, Centro de Investigación de Síntesis Química (CISQ), Universidad de la Rioja. Complejo Científico-Tecnológico, 26004, Logroño, Spain
| | - Arnav Saxena
- Departament de Química Inorgànica i Orgànica, Secció de Química Inorgànica, Universitat de Barcelona, Martí i Franquès 1-11, 08028 Barcelona, Spain.
| | - Antonio Frontera
- Departament de Química, Universitat de les Illes Balears, 07122 Palma de Mallorca, Spain
| | - M Concepción Gimeno
- Instituto de Síntesis Química y Catálisis Homogénea (ISQCH), CSIC-Universidad de Zaragoza, Pedro Cerbuna 12, 50009 Zaragoza, Spain.
| | - Laura Rodríguez
- Departament de Química Inorgànica i Orgànica, Secció de Química Inorgànica, Universitat de Barcelona, Martí i Franquès 1-11, 08028 Barcelona, Spain.
- Institut de Nanociència i Nanotecnologia (IN2UB), Universitat de Barcelona, 08028 Barcelona, Spain
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12
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Romo-Islas G, Burguera S, Frontera A, Rodríguez L. Investigating the Impact of Packing and Environmental Factors on the Luminescence of Pt(N^N^N) Chromophores. Inorg Chem 2024; 63:2821-2832. [PMID: 38259118 PMCID: PMC10848268 DOI: 10.1021/acs.inorgchem.3c04562] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2023] [Revised: 12/28/2023] [Accepted: 01/04/2024] [Indexed: 01/24/2024]
Abstract
Four Pt(II)(N^N^N) compounds featuring DMSO coordination at the fourth position were synthesized. Ligands varied in terms of pyridyl central ring (hydrogen/chlorine substituent) and lateral rings (triazoles with CF3 substitution or tetrazoles). Coordination to pyridine yielded tetra-nitrogen coordinated Pt(II) complexes or Pt-functionalized polymers using commercial 4-pyridyl polyvinyl (PV) or dimethylaminopyridine. Luminescence behaviors exhibited remarkable environmental dependence. While some of the molecular compounds (tetrazole derivatives) in solid state displayed quenched luminescence, all the polymers exhibited 3MMLCT emission around 600 nm. Conversely, monomer emission was evident on poly(methyl methacrylate) or polystyrene matrices. DFT calculations were used to analyze the aggregation of the complexes both at the molecular level and coordinated to the PV polymer and their influence on the HOMO-LUMO gaps.
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Affiliation(s)
- Guillermo Romo-Islas
- Departament
de Química Inorgànica i Orgànica, Secció
de Química Inorgànica., Institut
de Nanociència i Nanotecnologia (IN2UB). Universitat de Barcelona, Martí i Franquès 1-11, Barcelona E-08028, Spain
| | - Sergi Burguera
- Departament
de Química, Universitat de les Illes
Balears, Palma
de Mallorca 07122, Spain
| | - Antonio Frontera
- Departament
de Química, Universitat de les Illes
Balears, Palma
de Mallorca 07122, Spain
| | - Laura Rodríguez
- Departament
de Química Inorgànica i Orgànica, Secció
de Química Inorgànica., Institut
de Nanociència i Nanotecnologia (IN2UB). Universitat de Barcelona, Martí i Franquès 1-11, Barcelona E-08028, Spain
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13
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Sozzi M, Chierotti MR, Gobetto R, Gomila RM, Marzaroli V, Priola E, Volpi G, Zago S, Frontera A, Garino C. One-Dimensional and Two-Dimensional Zn(II) Coordination Polymers with Ditopic Imidazo[1,5- a]pyridine: A Structural and Computational Study. Molecules 2024; 29:653. [PMID: 38338397 PMCID: PMC10856496 DOI: 10.3390/molecules29030653] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2023] [Revised: 01/26/2024] [Accepted: 01/28/2024] [Indexed: 02/12/2024] Open
Abstract
Zn(II) coordination polymers are being increasingly studied for their stability and properties. Similarly, there is a growing interest in imidazo[1,5-a]pyridine derivatives, which show great potential in luminescence and pharmaceutical applications. In this work, we successfully synthesized and crystallized three new coordination polymers, using Zn(II) as the metallic node, dicarboxylic acids of different length and nature as linkers, and a linear ditopic imidazo[1,5-a]pyridine derivative, to explore the role of this molecule as a propagator of the dimensionality of the structure or as an ancillary ligand. Our work demonstrates the structural capability of imidazo[1,5-a]pyridines in an unexplored domain for this family of ligands. Notably, we observed a pronounced ability of this heterocyclic scaffold to establish π···π interactions in the solid state. The supramolecular π-stacked assemblies were theoretically analyzed using DFT calculations based on model structures.
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Affiliation(s)
- Mattia Sozzi
- Department of Chemistry and NIS Centre, University of Turin, Via Pietro Giuria 7, 10125 Torino, Italy
| | - Michele R. Chierotti
- Department of Chemistry and NIS Centre, University of Turin, Via Pietro Giuria 7, 10125 Torino, Italy
| | - Roberto Gobetto
- Department of Chemistry and NIS Centre, University of Turin, 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, Spain
| | - Vittoria Marzaroli
- Department of Chemistry and NIS Centre, University of Turin, Via Pietro Giuria 7, 10125 Torino, Italy
| | - Emanuele Priola
- Department of Chemistry and NIS Centre, University of Turin, Via Pietro Giuria 7, 10125 Torino, Italy
| | - Giorgio Volpi
- Department of Chemistry and NIS Centre, University of Turin, Via Pietro Giuria 7, 10125 Torino, Italy
| | - Stefano Zago
- Department of Chemistry and NIS Centre, University of Turin, Via Pietro Giuria 7, 10125 Torino, Italy
| | - Antonio Frontera
- Department of Chemistry, Universitat de les Illes Balears, Crta de Valldemossa km 7.5, 07122 Palma de Mallorca, Spain
| | - Claudio Garino
- Department of Chemistry and NIS Centre, University of Turin, Via Pietro Giuria 7, 10125 Torino, Italy
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14
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Fumagalli I, Pagani S, Vergara C, Dede’ L, Adebo DA, Del Greco M, Frontera A, Luciani GB, Pontone G, Scrofani R, Quarteroni A. The role of computational methods in cardiovascular medicine: a narrative review. Transl Pediatr 2024; 13:146-163. [PMID: 38323181 PMCID: PMC10839285 DOI: 10.21037/tp-23-184] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 03/20/2023] [Accepted: 12/13/2023] [Indexed: 02/08/2024] Open
Abstract
Background and Objective Computational models of the cardiovascular system allow for a detailed and quantitative investigation of both physiological and pathological conditions, thanks to their ability to combine clinical-possibly patient-specific-data with physical knowledge of the processes underlying the heart function. These models have been increasingly employed in clinical practice to understand pathological mechanisms and their progression, design medical devices, support clinicians in improving therapies. Hinging upon a long-year experience in cardiovascular modeling, we have recently constructed a computational multi-physics and multi-scale integrated model of the heart for the investigation of its physiological function, the analysis of pathological conditions, and to support clinicians in both diagnosis and treatment planning. This narrative review aims to systematically discuss the role that such model had in addressing specific clinical questions, and how further impact of computational models on clinical practice are envisaged. Methods We developed computational models of the physical processes encompassed by the heart function (electrophysiology, electrical activation, force generation, mechanics, blood flow dynamics, valve dynamics, myocardial perfusion) and of their inherently strong coupling. To solve the equations of such models, we devised advanced numerical methods, implemented in a flexible and highly efficient software library. We also developed computational procedures for clinical data post-processing-like the reconstruction of the heart geometry and motion from diagnostic images-and for their integration into computational models. Key Content and Findings Our integrated computational model of the heart function provides non-invasive measures of indicators characterizing the heart function and dysfunctions, and sheds light on its underlying processes and their coupling. Moreover, thanks to the close collaboration with several clinical partners, we addressed specific clinical questions on pathological conditions, such as arrhythmias, ventricular dyssynchrony, hypertrophic cardiomyopathy, degeneration of prosthetic valves, and the way coronavirus disease 2019 (COVID-19) infection may affect the cardiac function. In multiple cases, we were also able to provide quantitative indications for treatment. Conclusions Computational models provide a quantitative and detailed tool to support clinicians in patient care, which can enhance the assessment of cardiac diseases, the prediction of the development of pathological conditions, and the planning of treatments and follow-up tests.
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Affiliation(s)
- Ivan Fumagalli
- MOX Laboratory, Department of Mathematics, Politecnico di Milano, Milan, Italy
| | - Stefano Pagani
- MOX Laboratory, Department of Mathematics, Politecnico di Milano, Milan, Italy
| | - Christian Vergara
- Laboratory of Biological Structures Mechanics (LaBS), Department of Chemistry, Materials and Chemical Engineering “Giulio Natta”, Politecnico di Milano, Milan, Italy
| | - Luca Dede’
- MOX Laboratory, Department of Mathematics, Politecnico di Milano, Milan, Italy
| | - Dilachew A. Adebo
- Children’s Heart Institute, Hermann Children’s Hospital, University of Texas Health Science Center, McGovern Medical School, Houston, TX, USA
| | - Maurizio Del Greco
- Department of Cardiology, S. Maria del Carmine Hospital, Rovereto, Italy
| | - Antonio Frontera
- Electrophysiology Department, De Gasperis Cardio Center, ASST Great Metropolitan Hospital Niguarda, Milan, Italy
| | | | - Gianluca Pontone
- Department of Perioperative Cardiology and Cardiovascular Imaging, Centro Cardiologico Monzino IRCSS, Milan, Italy
- Department of Biomedical, Surgical and Dental Sciences, University of Milan, Milan, Italy
| | - Roberto Scrofani
- Cardiovascular Department, Fondazione IRCCS Ca’ Granda Ospedale Maggiore Policlinico, Milan, Italy
| | - Alfio Quarteroni
- MOX Laboratory, Department of Mathematics, Politecnico di Milano, Milan, Italy
- Institute of Mathematics, École Polytechnique Fédérale de Lausanne, Switzerland
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15
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Varrenti M, Preda A, Frontera A, Baroni M, Gigli L, Vargiu S, Colombo G, Carbonaro M, Paolucci M, Giordano F, Guarracini F, Mazzone P. Arrhythmogenic Cardiomyopathy: Definition, Classification and Arrhythmic Risk Stratification. J Clin Med 2024; 13:456. [PMID: 38256590 PMCID: PMC10816644 DOI: 10.3390/jcm13020456] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2023] [Revised: 01/08/2024] [Accepted: 01/11/2024] [Indexed: 01/24/2024] Open
Abstract
Arrhythmogenic cardiomyopathy (ACM) is a heart disease characterized by a fibrotic replacement of myocardial tissue and a consequent predisposition to ventricular arrhythmic events, especially in the young. Post-mortem studies and the subsequent diffusion of cardiac MRI have shown that left ventricular involvement in arrhythmogenic cardiomyopathy is common and often develops early. Regarding the arrhythmic risk stratification, the current scores underestimate the arrhythmic risk of patients with arrhythmogenic cardiomyopathy with left involvement. Indeed, the data on arrhythmic risk stratification in this group of patients are contradictory and not exhaustive, with the consequence of not correctly identifying patients at a high arrhythmic risk who deserve protection from arrhythmic death. We propose a literature review on arrhythmic risk stratification in patients with ACM and left involvement to identify the main features associated with an increased arrhythmic risk in this group of patients.
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Affiliation(s)
- Marisa Varrenti
- Electrophysiology Unit, De Gasperis Cardio Center, Niguarda Hospital, 20162 Milan, Italy (M.C.); (F.G.); (P.M.)
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16
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Majumdar D, Frontera A, Roy S, Sutradhar D. Experimental and Theoretical Survey of Intramolecular Spodium Bonds/σ/π-Holes and Noncovalent Interactions in Trinuclear Zn(II)-Salen Type Complex with OCN - Ions: A Holistic View in Crystal Engineering. ACS Omega 2024; 9:1786-1797. [PMID: 38222609 PMCID: PMC10785279 DOI: 10.1021/acsomega.3c08422] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/25/2023] [Revised: 11/13/2023] [Accepted: 11/28/2023] [Indexed: 01/16/2024]
Abstract
In this work, one new centrosymmetric trinuclear Zn(II) complex 1, [{(OCN)Zn(L)}2Zn], using a salen-type ligand (H2L) in the presence of OCN- was synthesized and characterized via elemental, spectral, SEM-EDX, and single-crystal X-ray diffraction (SCXRD) study. In 1, SCXRD reveals two different stereochemical environments of zinc metal ions; one terminal Zn(II) center adopts square pyramidal geometries with the Addison parameter (τ) 0.095, and the central Zn(II) is tetracoordinated tetrahedral geometry. This article provides evidence of the significance and presence of spodium bonds (SpBs) in solid-state crystal structures involving a pseudotetrahedral environment of the central Zn-atom. X-ray structures reveal intramolecular Zn···O SpBs caused by the methoxy (-OCH3) substituent O-atom adjacent to the coordinated phenoxy O-atom. These noncovalent interactions have been thoroughly studied using density functional theory calculations at the RI-BP86[2]-D3[3]/def2-TZVP level of theory that characterizes the nature of SpBs, including the Baders quantum theory of atoms-in-molecules "QTAIM", molecular electrostatic potential (MEP) surface, and noncovalent index plot (NCI). In addition, a unique complex-isomer-based theoretical model has been vividly employed to estimate the SpBs energy in the complex. Natural bond orbital (NBO) analysis also tries to establish the differentiation between σ-hole and π-hole SpBs' natures more authentically. The complex energy frameworks were used to investigate noncovalent interactions. To better understand the different intermolecular interactions, we conducted a Hirshfeld surface, which revealed N···H (15.4%) and O···H (9.1%) contacts and Zn···O (5.1%) (SpBs).
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Affiliation(s)
- Dhrubajyoti Majumdar
- Department
of Chemistry, Tamralipta Mahavidyalaya, Tamluk, West Bengal 721636, India
| | - Antonio Frontera
- Department
de Quimica, Universitat de les Illes Balears, Cra. de Valldemossa km 7.5, Palma de Mallorca (Baleares) 07122, Spain
| | - Sourav Roy
- Solid
State and Structural Chemistry Unit, Indian
Institute of Science, Bangalore 560012, India
| | - Dipankar Sutradhar
- School
of Advanced Sciences and Languages, VIT
Bhopal University, Kothrikalan, Sehore, Madhya Pradesh 466114, India
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17
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Kinzhalov MA, Kinzhalova EI, Karnoukhova VA, Ananyev IV, Gomila RM, Frontera A, Kukushkin VY, Bokach NA. Triiodide-Based Chair-Like Copper Complex Assembled by Halogen Bonding. Inorg Chem 2024; 63:191-202. [PMID: 38108293 DOI: 10.1021/acs.inorgchem.3c02990] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2023]
Abstract
Cocrystallization of the dimeric [Cu2(μ-I)2(CNXyl)4] (Xyl = 2,6-Me2C6H3, 1) and polymeric catena-[Cu(μ-I)(CNC6H3-2-Cl-6-Me)2] (2) complexes with I2 at different molar ratios between the reactants resulted in a series of (RNC)2CuI-based crystal polyiodides formed along with gradual accumulation of iodine, namely the cocrystals [1·I2]·[Cu(μ1,1-I3)(CNXyl)2]2 followed by the generation of [Cu(μ1,3-I3)(CNXyl)2]2·2I2 (5·2I2) or [Cu(μ1,1-I3)(CNC6H3-2-Cl-6-Me)2]2 and then [Cu(μ1,3-I3)(CNC6H3-2-Cl-6-Me)2]n·n/2I2. The polyiodide 5·2I2 exhibits a novel supramolecular motif─a purely inorganic halogen-bonded Cu2(μ1,3-I3)2 core in the chair conformation. The X-ray structure of 5·2I2 featuring I···I contacts was analyzed by a set of theoretical methods and attributed to moderately strong halogen bonding (from -3.2 to -3.9 kcal/mol); these interactions determine the supramolecular architecture of 5·2I2.
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Affiliation(s)
- Mikhail A Kinzhalov
- Saint Petersburg State University, Universitetskaya Nab. 7/9, Saint Petersburg 199034, Russian Federation
- Research School of Chemistry and Applied Biomedical Sciences, Tomsk Polytechnic University, 30 Lenin Av., Tomsk 634050, Russian Federation
| | - Ekaterina I Kinzhalova
- Saint Petersburg State University, Universitetskaya Nab. 7/9, Saint Petersburg 199034, Russian Federation
| | - Valentina A Karnoukhova
- A.N. Nesmeyanov Institute of Organoelement Compounds, Russian Academy of Sciences, Vavilova str. 28, Moscow 119991, Russian Federation
| | - Ivan V Ananyev
- N.S. Kurnakov Institute of General and Inorganic Chemistry, Russian Academy of Sciences, GSP-1, Leninsky Prospect, 31, Moscow 119991, Russian Federation
| | - Rosa M Gomila
- Department of Chemistry, Universitat de les Illes Balears, Crta de Valldemossa km 7.5, Palma de Mallorca 07122, Baleares, Spain
| | - Antonio Frontera
- Department of Chemistry, Universitat de les Illes Balears, Crta de Valldemossa km 7.5, Palma de Mallorca 07122, Baleares, Spain
| | - Vadim Yu Kukushkin
- Saint Petersburg State University, Universitetskaya Nab. 7/9, Saint Petersburg 199034, Russian Federation
- Laboratory of Crystal Engineering of Functional Materials, South Ural State University, 76, Lenin Av., Chelyabinsk 454080, Russian Federation
| | - Nadezhda A Bokach
- Saint Petersburg State University, Universitetskaya Nab. 7/9, Saint Petersburg 199034, Russian Federation
- Research School of Chemistry and Applied Biomedical Sciences, Tomsk Polytechnic University, 30 Lenin Av., Tomsk 634050, Russian Federation
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18
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Belmont-Sánchez JC, Choquesillo-Lazarte D, García-Rubiño ME, Matilla-Hernández A, Niclós-Gutiérrez J, Castiñeiras A, Frontera A. Supramolecular Nature of Multicomponent Crystals Formed from 2,2'-Thiodiacetic Acid with 2,6-Diaminopurine or N9-(2-Hydroxyethyl)adenine. Int J Mol Sci 2023; 24:17381. [PMID: 38139210 PMCID: PMC10743529 DOI: 10.3390/ijms242417381] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2023] [Revised: 12/05/2023] [Accepted: 12/08/2023] [Indexed: 12/24/2023] Open
Abstract
The synthesis and characterization of the multicomponent crystals formed by 2,2'-thiodiacetic acid (H2tda) and 2,6-diaminopurine (Hdap) or N9-(2-hydroxyethyl)adenine (9heade) are detailed in this report. These crystals exist in a salt rather than a co-crystal form, as confirmed by single crystal X-ray diffractometry, which reflects their ionic nature. This analysis confirmed proton transfer from the 2,2'-thiodiacetic acid to the basic groups of the coformers. The new multicomponent crystals have molecular formulas [(H9heade+)(Htda-)] 1 and [(H2dap+)2(tda2-)]·2H2O 2. These were also characterized using FTIR, 1H and 13C NMR and mass spectroscopies, elemental analysis, and thermogravimetric/differential scanning calorimetry (TG/DSC) analyses. In the crystal packing the ions interact with each other via O-H⋯N, O-H⋯O, N-H⋯O, and N-H⋯N hydrogen bonds, generating cyclic hydrogen-bonded motifs with graph-set notation of R22(16), R22(10), R32(10), R33(10), R22(9), R32(8), and R42(8), to form different supramolecular homo- and hetero-synthons. In addition, in the crystal packing of 2, pairs of diaminopurinium ions display a strong anti-parallel π,π-stacking interaction, characterized by short inter-centroids and interplanar distances (3.39 and 3.24 Å, respectively) and a fairly tight angle (17.5°). These assemblies were further analyzed energetically using DFT calculations, MEP surface analysis, and QTAIM characterization.
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Affiliation(s)
| | - Duane Choquesillo-Lazarte
- Laboratorio de Estudios Cristalográficos, IACT, CSIC-Universidad de Granada, Av. de las Palmeras 4, 18100 Armilla, Granada, Spain;
| | | | - Antonio Matilla-Hernández
- Department of Inorganic Chemistry, Faculty of Pharmacy, University of Granada, 18071 Granada, Spain; (J.C.B.-S.); (J.N.-G.)
| | - Juan Niclós-Gutiérrez
- Department of Inorganic Chemistry, Faculty of Pharmacy, University of Granada, 18071 Granada, Spain; (J.C.B.-S.); (J.N.-G.)
| | - Alfonso Castiñeiras
- Department of Inorganic Chemistry, Faculty of Pharmacy, University of Santiago de Compostela, 15782 Santiago de Compostela, Spain
| | - Antonio Frontera
- Department de Química, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, 07122 Palma de Mallorca, Spain;
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19
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Al-Wahaibi LH, Alagappan K, Gomila RM, Blacque O, Frontera A, Percino MJ, El-Emam AA, Thamotharan S. A combined crystallographic and theoretical investigation of noncovalent interactions in 1,3,4-oxadiazole-2-thione- N-Mannich derivatives: in vitro bioactivity and molecular docking. RSC Adv 2023; 13:34064-34077. [PMID: 38019986 PMCID: PMC10660235 DOI: 10.1039/d3ra07169c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2023] [Accepted: 11/15/2023] [Indexed: 12/01/2023] Open
Abstract
Two 1,3,4-oxadiazole-2-thione-N-Mannich derivatives, specifically 5-(4-chlorophenyl)-3-[(2-trifluoromethylphenylamino)methyl]-1,3,4-oxadiazole-2(3H)-thione (1) and 5-(4-chlorophenyl)-3-[(2,5-difluorophenylamino)methyl]-1,3,4-oxadiazole-2(3H)-thione (2), were synthesized and then characterized by elemental analysis and NMR (1H and 13C) spectroscopy and the single crystal X-ray diffraction method. The formed weak intermolecular interactions in the solid-state structures of these derivatives were thoroughly investigated utilizing a variety of theoretical tools such as Hirshfeld surface analysis and quantum theory of atoms in molecules (QTAIM). Furthermore, the CLP-PIXEL and density functional theory calculations were used to study the energetics of molecular dimers. Numerous weak intermolecular interactions such as C-H⋯S/Cl/F/π interactions, a directional C-Cl⋯Cl halogen bond, π-stacking, type C-F⋯F-C contact and a short F⋯O interaction, help to stabilize the crystal structure of 1. Crystal structure 2 also stabilizes with several weak intermolecular contacts, including N-H⋯S, C-H⋯N//Cl/F interactions, a highly directional C1-Cl1⋯C(π) halogen bond and C(π)⋯C(π) interaction. In vitro antimicrobial potency of compounds 1 and 2 was assessed against various Gram-positive and Gram-negative bacterial strains and the pathogenic yeast-like Candida albicans. Both compounds showed marked activity against all tested Gram-positive bacteria and weak activity against Escherichia coli and lacked inhibitory activity against Pseudomonas aeruginosa. In addition, compounds 1 and 2 displayed good in vitro anti-proliferative activity against hepatocellular carcinoma (HepG-2) and mammary gland breast cancer (MCF-7) cancer cell lines. Molecular docking studies revealed the binding modes of title compounds at the active sites of prospective therapeutic targets.
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Affiliation(s)
- Lamya H Al-Wahaibi
- Department of Chemistry, College of Sciences, Princess Nourah bint Abdulrahman University Riyadh 11671 Saudi Arabia
| | - Kowsalya Alagappan
- Biomolecular Crystallography Laboratory and DBT-Bioinformatics Center, School of Chemical and Biotechnology, SASTRA Deemed University Thanjavur 613 401 India
| | - Rosa M Gomila
- Departament de Química, Universitat de les Illes Balears Ctra. de Valldemossa km 7.5, Baleares 07122 Palma de Mallorca Spain
| | - Olivier Blacque
- Department of Chemistry, University of Zurich Winterthurerstrasse 190 8057 Zurich Switzerland
| | - Antonio Frontera
- Departament de Química, Universitat de les Illes Balears Ctra. de Valldemossa km 7.5, Baleares 07122 Palma de Mallorca Spain
| | - M Judith Percino
- Unidad de Polímeros y Electrónica Orgánica, Instituto de Ciencias, Benemérita Universidad Autónoma de Puebla, Val3-Ecocampus Valsequillo Independencia O2 Sur 50, San Pedro Zacachimalpa Puebla 72960 CP México
| | - Ali A El-Emam
- Department of Medicinal Chemistry, Faculty of Pharmacy, Mansoura University Mansoura 35516 Egypt
| | - Subbiah Thamotharan
- Biomolecular Crystallography Laboratory and DBT-Bioinformatics Center, School of Chemical and Biotechnology, SASTRA Deemed University Thanjavur 613 401 India
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Burguera S, Sahu AK, Frontera A, Biswal HS, Bauza A. Spodium Bonds Involving Methylmercury and Ethylmercury in Proteins: Insights from X-ray Analysis and Computations. Inorg Chem 2023; 62:18524-18532. [PMID: 37902775 PMCID: PMC10647129 DOI: 10.1021/acs.inorgchem.3c02716] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2023] [Revised: 10/19/2023] [Accepted: 10/20/2023] [Indexed: 10/31/2023]
Abstract
In this study, the stability, directionality, and physical nature of Spodium bonds (SpBs, an attractive noncovalent force involving elements from group 12 and Lewis bases) between methylmercury (MeHg) and ethylmercury (EtHg) and amino acids (AAs) have been analyzed from both a structural (X-ray analysis) and theoretical (RI-MP2/def2-TZVP level of theory) point of view. More in detail, an inspection of the Protein Data Bank (PDB) reported evidence of noncovalent contacts between MeHg and EtHg molecules and electron-rich atoms (e.g., O atoms belonging to the protein backbone and S atoms from MET residues or the π-systems of aromatic AAs such as TYR or TRP). These results were rationalized through a computational study using MeHg coordinated to a thiolate group as a theoretical model and several neutral and charged electron-rich molecules (e.g., benzene, formamide, or chloride). The physical nature of the interaction was analyzed from electrostatics and orbital perspectives by performing molecular electrostatic potential (MEP) and natural bonding orbital (NBO) analyses. Lastly, the noncovalent interactions plot (NCIplot) technique was used to provide a qualitative view of the strength of the Hg SpBs and compare them to other ancillary interactions present in these systems as well as to shed light on the extension of the interaction in real space. We believe that the results derived from our study will be useful to those scientists devoted to protein engineering and bioinorganic chemistry as well as to expanding the current knowledge of SpBs among the chemical biology community.
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Affiliation(s)
- Sergi Burguera
- Department
of Chemistry, Universitat de les Illes Balears, Ctra. de Valldemossa km 7.5, 07122 Palma, Baleares, Spain
| | - Akshay Kumar Sahu
- School
of Chemical Sciences, National Institute
of Science Education and Research (NISER), Bhubaneswar 752050, India
- Training
School Complex, Homi Bhabha National Institute, Mumbai 400094, India
| | - Antonio Frontera
- Department
of Chemistry, Universitat de les Illes Balears, Ctra. de Valldemossa km 7.5, 07122 Palma, Baleares, Spain
| | - Himansu S. Biswal
- School
of Chemical Sciences, National Institute
of Science Education and Research (NISER), Bhubaneswar 752050, India
- Training
School Complex, Homi Bhabha National Institute, Mumbai 400094, India
| | - Antonio Bauza
- Department
of Chemistry, Universitat de les Illes Balears, Ctra. de Valldemossa km 7.5, 07122 Palma, Baleares, Spain
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21
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Rubert L, Islam MF, Greytak AB, Prakash R, Smith MD, Gomila RM, Frontera A, Shimizu LS, Soberats B. Two-Dimensional Supramolecular Polymerization of a Bis-Urea Macrocycle into a Brick-Like Hydrogen-Bonded Network. Angew Chem Int Ed Engl 2023; 62:e202312223. [PMID: 37750233 DOI: 10.1002/anie.202312223] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2023] [Revised: 09/20/2023] [Accepted: 09/25/2023] [Indexed: 09/27/2023]
Abstract
We report on a dendronized bis-urea macrocycle 1 self-assembling via a cooperative mechanism into two-dimensional (2D) nanosheets formed solely by alternated urea-urea hydrogen bonding interactions. The pure macrocycle self-assembles in bulk into one-dimensional liquid-crystalline columnar phases. In contrast, its self-assembly mode drastically changes in CHCl3 or tetrachloroethane, leading to 2D hydrogen-bonded networks. Theoretical calculations, complemented by previously reported crystalline structures, indicate that the 2D assembly is formed by a brick-like hydrogen bonding pattern between bis-urea macrocycles. This assembly is promoted by the swelling of the trisdodecyloxyphenyl groups upon solvation, which frustrates, due to steric effects, the formation of the thermodynamically more stable columnar macrocycle stacks. This work proposes a new design strategy to access 2D supramolecular polymers by means of a single non-covalent interaction motif, which is of great interest for materials development.
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Affiliation(s)
- Llorenç Rubert
- Department of Chemistry, Universitat de les Illes Balears, Cra. Valldemossa, Km. 7.5, 07122, Palma de Mallorca, Spain
| | - Md Faizul Islam
- Department of Chemistry and Biochemistry, University of South Carolina, Columbia, SC-29208, USA
| | - Andrew B Greytak
- Department of Chemistry and Biochemistry, University of South Carolina, Columbia, SC-29208, USA
| | - Rahul Prakash
- Department of Chemistry and Biochemistry, University of South Carolina, Columbia, SC-29208, USA
| | - Mark D Smith
- Department of Chemistry and Biochemistry, University of South Carolina, Columbia, SC-29208, USA
| | - Rosa Maria Gomila
- Department of Chemistry, Universitat de les Illes Balears, Cra. Valldemossa, Km. 7.5, 07122, Palma de Mallorca, Spain
| | - Antonio Frontera
- Department of Chemistry, Universitat de les Illes Balears, Cra. Valldemossa, Km. 7.5, 07122, Palma de Mallorca, Spain
| | - Linda S Shimizu
- Department of Chemistry and Biochemistry, University of South Carolina, Columbia, SC-29208, USA
| | - Bartolome Soberats
- Department of Chemistry, Universitat de les Illes Balears, Cra. Valldemossa, Km. 7.5, 07122, Palma de Mallorca, Spain
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22
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Burguera S, Frontera A, Bauzá A. Biological noncovalent N/O⋯V interactions: insights from theory and protein data bank analyses. Phys Chem Chem Phys 2023; 25:30040-30048. [PMID: 37905702 DOI: 10.1039/d3cp04571d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2023]
Abstract
Computations at the PBE0-D3/def2-TZVP level of theory in conjunction with a Protein Data Bank (PDB) survey have provided first time evidence of favorable noncovalent interactions between ADP metavanadate (VO4) and ADP orthovanadate (VO5) and electron rich atoms. These involve a σ-hole present in the V atom and the lone pairs belonging to (i) protein residues (e.g., serine (SER), glutamate (GLU) or histidine (HIS)), (ii) backbone carbonyl groups and (iii) water molecules. A computational study has been carried out to rationalize the physical nature and directionality of the interaction in addition to its plausible biological role. The results reported herein are expected to have an impact in the fields of medicinal chemistry, bioinorganic chemistry and chemical biology.
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Affiliation(s)
- Sergi Burguera
- Department of Chemistry, Universitat de les Illes Balears, Ctra. de Valldemossa km. 7.5, 07122, Palma de Mallorca, Islas Baleares, Spain.
| | - Antonio Frontera
- Department of Chemistry, Universitat de les Illes Balears, Ctra. de Valldemossa km. 7.5, 07122, Palma de Mallorca, Islas Baleares, Spain.
| | - Antonio Bauzá
- Department of Chemistry, Universitat de les Illes Balears, Ctra. de Valldemossa km. 7.5, 07122, Palma de Mallorca, Islas Baleares, Spain.
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23
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Ghinato S, Giordana A, Diana E, Gomila RM, Priola E, Frontera A. Synthesis, X-ray characterization and DFT analysis of dicyanidoaurate telluronium salts: on the importance of charge assisted chalcogen bonds. Dalton Trans 2023; 52:15688-15696. [PMID: 37854010 DOI: 10.1039/d3dt02787b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2023]
Abstract
In this manuscript we report the synthesis and X-ray characterization of two cyanidoaurate telluronium salts, namely (3-fluorophenyl)(methyl)(phenyl)telluronium dicyanidoaurate [(3-F-Ph)(Me)(Ph)Te][Au(CN)2] (1) and methyldiphenyltelluronium dicyanidoaurate [(Me)(Ph)2Te][Au(CN)2] (2). In the solid state, the tellurium atom establishes three concurrent and directional chalcogen bonds (ChBs) with the adjacent anions, in both compounds. These charge-assisted ChBs (CAChBs) have been analyzed using DFT calculations and several computational tools. The MEP surface analysis discloses the existence of three σ-holes at the Te-atoms capable of establishing strong CAChBs with the counter-ions. In addition, significant charge transfer from the lone pair orbital at the N-atom of the anion to the antibonding σ*(Te-C) orbital of the cation is observed in some cases.
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Affiliation(s)
- Simone Ghinato
- Università degli Studi di Torino, Department of Chemistry, Via Pietro Giuria 7, 10125 Torino, Italy.
| | - Alessia Giordana
- Università degli Studi di Torino, Department of Chemistry, Via Pietro Giuria 7, 10125 Torino, Italy.
| | - Eliano Diana
- Università degli Studi di Torino, Department of Chemistry, 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
- Università degli Studi di Torino, Department of Chemistry, Via Pietro Giuria 7, 10125 Torino, Italy.
| | - Antonio Frontera
- Department of Chemistry, Universitat de les Illes Balears, Crta de Valldemossa km 7.5, 07122 Palma de Mallorca, Baleares, Spain.
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24
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Do CD, Pál D, Belyaev A, Pupier M, Kiesilä A, Kalenius E, Galmés B, Frontera A, Poblador-Bahamonde A, Cougnon FBL. Sulfate-induced large amplitude conformational change in a Solomon link. Chem Commun (Camb) 2023; 59:13010-13013. [PMID: 37830390 DOI: 10.1039/d3cc04555b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/14/2023]
Abstract
A doubly-interlocked [2]catenane - or Solomon link - undergoes a complex conformational change upon addition of sulfate in methanol. This transformation generates a single pocket where two SO42- anions bind through multiple hydrogen bonds and electrostatic interactions. Despite the close proximity of the two anions, binding is highly cooperative.
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Affiliation(s)
- Cuong Dat Do
- Department of Organic Chemistry, University of Geneva, 30 Quai Ernest-Ansermet, 1211 Geneva 4, Switzerland
| | - Dávid Pál
- Department of Organic Chemistry, University of Geneva, 30 Quai Ernest-Ansermet, 1211 Geneva 4, Switzerland
| | - Andrey Belyaev
- Department of Chemistry, Nanoscience Center, University of Jyväskylä, P.O. Box 35, FI-40014 JYU, Finland.
| | - Marion Pupier
- Department of Organic Chemistry, University of Geneva, 30 Quai Ernest-Ansermet, 1211 Geneva 4, Switzerland
| | - Anniina Kiesilä
- Department of Chemistry, Nanoscience Center, University of Jyväskylä, P.O. Box 35, FI-40014 JYU, Finland.
| | - Elina Kalenius
- Department of Chemistry, Nanoscience Center, University of Jyväskylä, P.O. Box 35, FI-40014 JYU, Finland.
| | - Bartomeu Galmés
- Department de Química, Universitat de les Illes Balears, Carretera de Valldemossa km 7.5, 07122 Palma de Mallorca, Baleares, Spain
| | - Antonio Frontera
- Department de Química, Universitat de les Illes Balears, Carretera de Valldemossa km 7.5, 07122 Palma de Mallorca, Baleares, Spain
| | - Amalia Poblador-Bahamonde
- Department of Organic Chemistry, University of Geneva, 30 Quai Ernest-Ansermet, 1211 Geneva 4, Switzerland
| | - Fabien B L Cougnon
- Department of Organic Chemistry, University of Geneva, 30 Quai Ernest-Ansermet, 1211 Geneva 4, Switzerland
- Department of Chemistry, Nanoscience Center, University of Jyväskylä, P.O. Box 35, FI-40014 JYU, Finland.
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25
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Burguera S, Bauzá A, Frontera A. Tuning the Nucleophilicity and Electrophilicity of Group 10 Elements through Substituent Effects: A DFT Study. Int J Mol Sci 2023; 24:15597. [PMID: 37958580 PMCID: PMC10648789 DOI: 10.3390/ijms242115597] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2023] [Revised: 10/24/2023] [Accepted: 10/24/2023] [Indexed: 11/15/2023] Open
Abstract
In this study, a series of electron donor (-NH2, -NMe2 and -tBu) and electron-withdrawing substituents (-F, -CN and -NO2) were used to tune the nucleophilicity or electrophilicity of a series of square planar Ni2+, Pd2+ and Pt2+ malonate coordination complexes towards a pentafluoroiodobenzene and a pyridine molecule. In addition, Bader's theory of atoms in molecules (AIM), noncovalent interaction plot (NCIplot), molecular electrostatic potential (MEP) surface and natural bond orbital (NBO) analyses at the PBE0-D3/def2-TZVP level of theory were carried out to characterize and discriminate the role of the metal atom in the noncovalent complexes studied herein. We hope that the results reported herein may serve to expand the current knowledge regarding these metals in the fields of crystal engineering and supramolecular chemistry.
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Affiliation(s)
| | | | - Antonio Frontera
- Department of Chemistry, Universitat de les Illes Balears, Ctra. de Valldemossa Km 7.5, 07122 Palma, Baleares, Spain; (S.B.); (A.B.)
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26
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Calabrese M, Gomila RM, Pizzi A, Frontera A, Resnati G. Erythronium Bonds: Noncovalent Interactions Involving Group 5 Elements as Electron-Density Acceptors. Chemistry 2023; 29:e202302176. [PMID: 37518768 DOI: 10.1002/chem.202302176] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2023] [Revised: 07/25/2023] [Accepted: 07/26/2023] [Indexed: 08/01/2023]
Abstract
Analyses of the Cambridge Structural Database and theoretical calculations (PBE0-D3/def2-TZVP level, atoms-in-molecules, natural bond orbital studies) prove the formation of net attractive noncovalent interactions between group 5 elements and electron-rich atoms (neutral or anionic). These kinds of bonding are markedly different from coordination bonds formed by the same elements and possess the distinctive features of σ-hole interactions. The term erythronium bond is proposed to denote these bonds. X-ray structures of vanadate-dependent bromoperoxidases show that these interactions are present also in biological systems.
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Affiliation(s)
- Miriam Calabrese
- NFMLab, Dept. Chemistry, Materials, Chemical Engineering "Giulio Natta", Politecnico di Milano, Via Mancinelli 7, 20131, Milano, Italy
| | - Rosa M Gomila
- Dept. Chemistry, Universitat de les Illes Balears, Crta de Valldemossa km 7.5, 07122, Palma de Mallorca (Baleares), Spain
| | - Andrea Pizzi
- NFMLab, Dept. Chemistry, Materials, Chemical Engineering "Giulio Natta", Politecnico di Milano, Via 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 Mancinelli 7, 20131, Milano, Italy
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27
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Burguera S, Frontera A, Bauzá A. Enzymatic reversion of Pt(II) nucleophilicity through charge dumping: the case of Pt(CN) 42. Chem Commun (Camb) 2023; 59:12847-12850. [PMID: 37791416 DOI: 10.1039/d3cc03816e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/05/2023]
Abstract
Combining computations and X-ray structure analysis we have demonstrated that [Pt(CN4)]2- can behave as a Lewis acid inside an enzyme's cavity. The nature of a counterintuitive contact found between a catalytically active GLN residue belonging to a mitochondrial synthase and the Pt(II) center was investigated by combining molecular dynamics and quantum mechanics calculations. Results confirm the electron acceptor role of [Pt(CN4)]2-, serving as an inspiration for the design of biomolecular cages able to tweak the nucleophilic/electrophilic character of an organometallic compound.
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Affiliation(s)
- Sergi Burguera
- Departament de Química, Universitat de les Illes Balears, Ctra. de Valldemossa Km 7.5, 07122, Palma de Mallorca, Baleares, Spain.
| | - Antonio Frontera
- Departament de Química, Universitat de les Illes Balears, Ctra. de Valldemossa Km 7.5, 07122, Palma de Mallorca, Baleares, Spain.
| | - Antonio Bauzá
- Departament de Química, Universitat de les Illes Balears, Ctra. de Valldemossa Km 7.5, 07122, Palma de Mallorca, Baleares, Spain.
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Bera S, Bhunia S, Gomila RM, Drew MGB, Frontera A, Chattopadhyay S. Structure-directing role of CH⋯X (X = C, N, S, Cl) interactions in three ionic cobalt complexes: X-ray investigation and DFT study using QTAIM Vr predictor to eliminate the effect of pure Coulombic forces. RSC Adv 2023; 13:29568-29583. [PMID: 37818264 PMCID: PMC10561671 DOI: 10.1039/d3ra03828a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2023] [Accepted: 09/22/2023] [Indexed: 10/12/2023] Open
Abstract
Three cobalt complexes, namely [CoIII(HL1)2(N3)2]ClO4 (1), [CoIII(L2)(HL2)(N3)]ClO4·1.5H2O (2), and [CoIII(L3)(HL3)(NCS)]2 [CoIICl2(NCS)2] (3), where HL1 = 2-(3-(dimethylamino)propyliminomethyl)-6-methoxyphenol, HL2 = 2-(2-(dimethylamino)ethyliminomethyl)-4,6-dichlorophenol, and HL3 = 2-(2-(dimethylamino)ethyliminomethyl)-6-methoxyphenol, as potential tridentate N2O-donor Schiff base ligands, were synthesized and characterized using elemental analysis, IR and UV-vis spectroscopy, and single-crystal X-ray diffraction studies. All three were found to be monomeric ionic complexes. Complex 1 crystallizes in the orthorhombic space group Pbcn, whereas both complexes 2 and 3 crystallize in triclinic space groups, P1̄. Further, 1 and 2 are cationic complexes of octahedral cobalt(iii) with perchlorate anions, whereas complex 3 contains a cationic part of octahedral cobalt(iii) and an anionic part of tetrahedral cobalt(ii). Hydrogen-bonding interactions involving aromatic and aliphatic CH bonds as H-bond donors and the pseudo-halide co-ligands as H-bond acceptors were established, which are important aspects governing the X-ray packing. These interactions were analyzed theoretically using the quantum theory of atoms in molecules (QTAIM) and non-covalent interaction plot (NCI plot) analyses. Moreover, energy decomposition analysis (EDA) was performed to analyze the stabilization of the complexes in terms of the electrostatic, dispersion, and correlation forces.
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Affiliation(s)
- Susovan Bera
- Department of Chemistry, Inorganic Section, Jadavpur University Kolkata 700032 India +91-33-24572941
| | - Sudip Bhunia
- Department of Chemistry, Inorganic Section, Jadavpur University Kolkata 700032 India +91-33-24572941
| | - Rosa M Gomila
- Department of Chemistry, Universitat de les Illes Balears Crta de Valldemossa Km 7.5 07122 Palma de Mallorca (Baleares) Spain
| | - Michael G B Drew
- School of Chemistry, The University of Reading P.O. Box 224, Whiteknights Reading RG6 6AD UK
| | - Antonio Frontera
- Department of Chemistry, Universitat de les Illes Balears Crta de Valldemossa Km 7.5 07122 Palma de Mallorca (Baleares) Spain
| | - Shouvik Chattopadhyay
- Department of Chemistry, Inorganic Section, Jadavpur University Kolkata 700032 India +91-33-24572941
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29
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Burguera S, Bauzá A, Frontera A. Hg(II)⋅d 8 [M] Interactions: Are they Metallophilic Interactions or Spodium Bonds? Chemphyschem 2023:e202300585. [PMID: 37792318 DOI: 10.1002/cphc.202300585] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2023] [Revised: 09/21/2023] [Accepted: 10/04/2023] [Indexed: 10/05/2023]
Abstract
Some literature reports have shown the existence of short Hg(II)⋅⋅⋅d8 [M] (M=Pd, Pt) contacts between linear Hg(II) and square planar d8 [M] complexes that have been defined as heterometallophilic interactions. Linear L-Hg(II)-L complexes exhibit a π-hole or positive belt of electrostatic potential at the Hg atom, whereas late transition metals can serve as effective electron donors through their filled dz 2 orbitals. This study provides compelling evidence that Hg(II)⋅⋅⋅d8 [M] interactions should be more appropriately termed spodium bonds.
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Affiliation(s)
- Sergi Burguera
- Departament de Química, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, 07122, Palma de Mallorca (Baleares), SPAIN
| | - Antonio Bauzá
- Departament de Química, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, 07122, Palma de Mallorca (Baleares), SPAIN
| | - Antonio Frontera
- Departament de Química, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, 07122, Palma de Mallorca (Baleares), SPAIN
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Chen XX, Gomila RM, García-Arcos JM, Vonesch M, Gonzalez-Sanchis N, Roux A, Frontera A, Sakai N, Matile S. Fluorogenic In Situ Thioacetalization: Expanding the Chemical Space of Fluorescent Probes, Including Unorthodox, Bifurcated, and Mechanosensitive Chalcogen Bonds. JACS Au 2023; 3:2557-2565. [PMID: 37772186 PMCID: PMC10523495 DOI: 10.1021/jacsau.3c00364] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/07/2023] [Revised: 08/09/2023] [Accepted: 08/09/2023] [Indexed: 09/30/2023]
Abstract
Progress with fluorescent flippers, small-molecule probes to image membrane tension in living systems, has been limited by the effort needed to synthesize the twisted push-pull mechanophore. Here, we move to a higher oxidation level to introduce a new design paradigm that allows the screening of flipper probes rapidly, at best in situ. Late-stage clicking of thioacetals and acetals allows simultaneous attachment of targeting units and interfacers and exploration of the critical chalcogen-bonding donor at the same time. Initial studies focus on plasma membrane targeting and develop the chemical space of acetals and thioacetals, from acyclic amino acids to cyclic 1,3-heterocycles covering dioxanes as well as dithiolanes, dithianes, and dithiepanes, derived also from classics in biology like cysteine, lipoic acid, asparagusic acid, DTT, and epidithiodiketopiperazines. From the functional point of view, the sensitivity of membrane tension imaging in living cells could be doubled, with lifetime differences in FLIM images increasing from 0.55 to 1.11 ns. From a theoretical point of view, the complexity of mechanically coupled chalcogen bonding is explored, revealing, among others, intriguing bifurcated chalcogen bonds.
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Affiliation(s)
- Xiao-Xiao Chen
- Department
of Organic Chemistry, University of Geneva, 1211 Geneva, Switzerland
| | - Rosa M. Gomila
- Departament
de Química, Universitat de les Illes
Balears, SP-07122 Palma de Mallorca, Spain
| | | | - Maxime Vonesch
- Department
of Organic Chemistry, University of Geneva, 1211 Geneva, Switzerland
| | | | - Aurelien Roux
- Department
of Biochemistry, University of Geneva, 1211 Geneva, Switzerland
| | - Antonio Frontera
- Departament
de Química, Universitat de les Illes
Balears, SP-07122 Palma de Mallorca, Spain
| | - Naomi Sakai
- Department
of Organic Chemistry, University of Geneva, 1211 Geneva, Switzerland
| | - Stefan Matile
- Department
of Organic Chemistry, University of Geneva, 1211 Geneva, Switzerland
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Kumar P, Komulainen J, Frontera A, Ward JS, Schalley C, Rissanen K, Puttreddy R. Linear bis-Coordinate Silver(I) and Iodine(I) Complexes with R 3 R 2 R 1 N Tertiary Amines. Chemistry 2023:e202302162. [PMID: 37682579 DOI: 10.1002/chem.202302162] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2023] [Revised: 09/07/2023] [Accepted: 09/08/2023] [Indexed: 09/09/2023]
Abstract
Homoleptic [L-I-L]+ iodine(I) complexes (where L is a R3 R2 R1 N tertiary amine) were synthesized via the [L-Ag-L]+ → [L-I-L]+ cation exchange reaction. In solution, the amines form [R3 R2 R1 N-Ag-NR1 R2 R3 ]+ silver(I) complexes, which crystallize out from solution as the meso-[L-Ag-L]+ complexes, as characterized by X-ray crystallography. The subsequent [L-I-L]+ iodine(I) analogues were extremely reactive and could not be isolated in the solid state. Density functional theory (DFT) calculations were performed to study the Ag+ -N and I+ -N interaction energies in silver(I) and iodine(I) complexes, with the former ranging from -80 to -100 kJ mol-1 and latter from -260 to -279 kJ mol-1 . The X-ray crystal structures revealed Ag+ ⋅⋅⋅Cπ and Ag+ ⋅⋅⋅H-C short contacts between the silver(I) cation and flexible N-alkyl/N-aryl groups, which are the first of their kind in such precursor complexes.
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Affiliation(s)
- Parveen Kumar
- Department of chemistry, University of Jyvaskyla, P.O. BOX 35, FI-40014, Jyväskylä, Finland
| | - Joonas Komulainen
- Department of chemistry, University of Jyvaskyla, P.O. BOX 35, FI-40014, Jyväskylä, Finland
| | - Antonio Frontera
- Department of Chemistry, Universitat de les Illes Balears, Crta de Valldemossa km 7.5, 07122, Palma de Mallorca, Baleares, Spain
| | - Jas S Ward
- Department of chemistry, University of Jyvaskyla, P.O. BOX 35, FI-40014, Jyväskylä, Finland
| | - Christoph Schalley
- Institut für Chemie und Biochemie, Freie Universität Berlin, Arnimallee 20, 14195, Berlin, Germany
| | - Kari Rissanen
- Department of chemistry, University of Jyvaskyla, P.O. BOX 35, FI-40014, Jyväskylä, Finland
| | - Rakesh Puttreddy
- Department of chemistry, University of Jyvaskyla, P.O. BOX 35, FI-40014, Jyväskylä, Finland
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Mousavi H, García-Rubiño ME, Choquesillo-Lazarte D, Castiñeiras A, Lezama L, Frontera A, Niclós-Gutiérrez J. H(N3)dap (Hdap = 2,6-Diaminopurine) Recognition by Cu 2(EGTA): Structure, Physical Properties, and Density Functional Theory Calculations of [Cu 4(μ-EGTA) 2(μ-H(N3)dap) 2(H 2O) 2]·7H 2O. Molecules 2023; 28:6263. [PMID: 37687091 PMCID: PMC10488833 DOI: 10.3390/molecules28176263] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2023] [Revised: 08/22/2023] [Accepted: 08/25/2023] [Indexed: 09/10/2023] Open
Abstract
Reactions in water between the Cu2(µ-EGTA) chelate (EGTA = ethylene-bis(oxyethyleneimino)tetraacetate(4-) ion) and Hdap in molar ratios 1:1 and 1:2 yield only blue crystals of the ternary compound [Cu4(μ-EGTA)2(μ-H(N3)dap)2(H2O)2]·7H2O (1), which has been studied via single-crystal X-ray diffraction and various physical methods (thermal stability, spectral and magnetic properties), as well as DFT theoretical calculations. In the crystal, uncoordinated water is disordered. The tetranuclear complex molecule also has some irrelevant disorder in an EGTA-ethylene moiety. In the complex molecule, both bridging organic molecules act as binucleating ligands. There are two distorted five- and two six-coordinated Cu(II) centers. Each half of EGTA acts as a tripodal tetradentate Cu(II) chelator, with a mer-NO2 + O(ether, distal) conformation. Hdap exhibits the tautomer H(N3)dap, with the dissociable H-atom on its less basic N-heterocyclic atom. These features favor the efficient cooperation between Cu-N7 or Cu-N9 bonds with appropriate O-EGTA atoms, as N6-H···O or N3-H···O interligand interactions, respectively. The bridging role of both organics determines the tetranuclear dimensionality of the complex. In this crystal, such molecules associate in zig-zag chains built by alternating π-π interactions between the five- or six-atom rings of Hdap ligands of adjacent molecules. DFT theoretical calculations (using two different theoretical models and characterized by the quantum theory of "atoms in molecules") reveal the importance of these π-π interactions between Hdap ligands, as well as those corresponding to the referred hydrogen bonds in the contributed tetranuclear molecule.
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Affiliation(s)
- Homa Mousavi
- Department of Inorganic Chemistry, Faculty of Pharmacy, University of Granada, 18071 Granada, Spain;
| | | | - Duane Choquesillo-Lazarte
- Laboratorio de Estudios Cristalográficos, IACT, CSIC-Universidad de Granada, Avda. de las Palmeras 4, 18100 Armilla, Spain;
| | - Alfonso Castiñeiras
- Department of Inorganic Chemistry, Faculty of Pharmacy, University of Santiago de Compostela, 15782 Santiago de Compostela, Spain;
| | - Luis Lezama
- Departamento de Química Orgánica e Inorgánica, Facultad de Ciencia y Tecnología, Universidad del País Vasco, UPV/EHU, 48940 Leioa, Spain;
| | - Antonio Frontera
- Departament de Química, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, 07122 Palma de Mallorca, Spain;
| | - Juan Niclós-Gutiérrez
- Department of Inorganic Chemistry, Faculty of Pharmacy, University of Granada, 18071 Granada, Spain;
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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: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [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.
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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
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Aliyeva VA, Gurbanov AV, Mahmoud AG, Gomila RM, Frontera A, Mahmudov KT, Pombeiro AJL. Chalcogen bonding in copper(II)-mediated synthesis. Faraday Discuss 2023; 244:77-95. [PMID: 37089087 DOI: 10.1039/d2fd00160h] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
The chalcogen bond (ChB) is a noncovalent attraction between an electrophilic chalcogen atom and a nucleophilic (Nu) region in the same (intramolecular) or another (intermolecular) molecular entity: R-Ch⋯Nu (Ch = O, S, Se or Te; R = substituents; Nu = nucleophile). ChB is comparable to the hydrogen and halogen bonds both in terms of strengths and directionality. However, in contrast to the monovalent halogen atoms, usually the divalent or tetravalent chalcogen atoms are able to display more than one electrophilic centre (on account of the existence of two or three species bonded to the chalcogen atom), which provides an additional opportunity in the use of this type of noncovalent binding in synthetic operations. In this work, the role of ChB at the secondary coordination sphere of metal complexes through copper(II)-mediated activation of dioxygen or of one nitrile group of a 1,2,5-selenadiazole-3,4-dicarbonitrile ligand to form a carbimidate or an imino-carboxylic acid is demonstrated. DFT calculations allowed evaluation of the strength of the ChBs and proved their relevant structure directing role in the solid state architectures. The effect of metal-coordination on the σ-hole opposite to the coordinated SeO bond has been analysed using molecular electrostatic potential (MEP) surfaces and explains the greater ability of the coordinated selenoxide derivatives to form strong ChBs.
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Affiliation(s)
- Vusala A Aliyeva
- Centro de Química Estrutural, Institute of Molecular Sciences, Departamento de Engenharia Química, Instituto Superior Técnico, Universidade de Lisboa, Av. Rovisco Pais, 1049-001 Lisbon, Portugal.
| | - Atash V Gurbanov
- Centro de Química Estrutural, Institute of Molecular Sciences, Departamento de Engenharia Química, Instituto Superior Técnico, Universidade de Lisboa, Av. Rovisco Pais, 1049-001 Lisbon, Portugal.
- Excellence Center, Baku State University, Z. Xalilov Str. 23, Az 1148 Baku, Azerbaijan
| | - Abdallah G Mahmoud
- Centro de Química Estrutural, Institute of Molecular Sciences, Departamento de Engenharia Química, Instituto Superior Técnico, Universidade de Lisboa, Av. Rovisco Pais, 1049-001 Lisbon, Portugal.
- Department of Chemistry, Faculty of Science, Helwan University, Ain Helwan, Cairo 11795, Egypt
| | - Rosa M Gomila
- Departament de Química, Universitat de les Illes Balears, Crta. de Valldemossa km7.5, Palma, Baleares, Spain.
| | - Antonio Frontera
- Departament de Química, Universitat de les Illes Balears, Crta. de Valldemossa km7.5, Palma, Baleares, Spain.
| | - Kamran T Mahmudov
- Centro de Química Estrutural, Institute of Molecular Sciences, Departamento de Engenharia Química, Instituto Superior Técnico, Universidade de Lisboa, Av. Rovisco Pais, 1049-001 Lisbon, Portugal.
- Excellence Center, Baku State University, Z. Xalilov Str. 23, Az 1148 Baku, Azerbaijan
| | - Armando J L Pombeiro
- Centro de Química Estrutural, Institute of Molecular Sciences, Departamento de Engenharia Química, Instituto Superior Técnico, Universidade de Lisboa, Av. Rovisco Pais, 1049-001 Lisbon, Portugal.
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Rosales-Martínez C, Matilla-Hernádez A, Choquesillo-Lazarte D, Frontera A, Castiñeiras A, Niclós-Gutiérrez J. The Copper(II)-Thiodiacetate (tda) Chelate as Efficient Receptor of N9-(2-Hydroxyethyl)Adenine (9heade): Synthesis, Molecular and Crystal Structures, Physical Properties and DFT Calculations of [Cu(tda)(9heade)(H 2O)]·2H 2O. Molecules 2023; 28:5830. [PMID: 37570799 PMCID: PMC10420684 DOI: 10.3390/molecules28155830] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2023] [Revised: 07/25/2023] [Accepted: 07/27/2023] [Indexed: 08/13/2023] Open
Abstract
Considering that Cu(tda) chelate (tda: dithioacetate) is a receptor for adenine and related 6-aminopurines, this study reports on the synthesis, molecular and crystal structures, thermal stability, spectral properties and DFT calculations related to [Cu(tda)(9heade)(H2O)]·2H2O (1) [9heade: N9-(2-hydroxyethyl)adenine]. Concerning the molecular recognition of (metal chelate)-(adenine synthetic nucleoside), 1 represents an unprecedented metal binding pattern (MBP) for 9heade. However, unprecedentedly, the Cu(tda)-9heade molecular recognition in 1 is essentially featured in the Cu-N1(9heade) bond, without any N6-H⋯O(carboxyl tda) interligand interaction. Nevertheless, N1 being the most basic donor for N9-substituted adenines, this Cu-N1 bond is now assisted by an O2-water-mediated interaction (N6-H⋯O2 and O2⋯Cu weak contact). Also, in the crystal packing, the O-H(ol) of 9heade interacts with its own adenine moiety as a result of an O3-water-mediated interaction (O(ol)-H⋯O3 plus O3-H36⋯π(adenine moiety)). Both water-mediated interactions seem to be responsible for serious alterations in the physical properties of crystalline or grounded samples. Density functional theory calculations were used to evaluate the interactions energetically. Moreover, the quantum theory of atoms-in-molecules (QTAIM), in combination with the noncovalent interaction plot (NCIPlot), was used to analyze the interactions and rationalize the existence and relative importance of hydrogen bonding, chalcogen bonding and π-stacking interactions. The novelty of this work resides in the discovery of a novel binding mode for N9-(2-hydroxyethyl)adenine. Moreover, the investigation of the important role of water in the solid state of 1 is also relevant, along with the chalcogen bonding interactions demonstrated by the density functional theory (DFT) study.
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Affiliation(s)
- Carmen Rosales-Martínez
- Department of Inorganic Chemistry, Faculty of Pharmacy, University of Granada, 18071 Granada, Spain; (C.R.-M.); (A.M.-H.)
| | - Antonio Matilla-Hernádez
- Department of Inorganic Chemistry, Faculty of Pharmacy, University of Granada, 18071 Granada, Spain; (C.R.-M.); (A.M.-H.)
| | - Duane Choquesillo-Lazarte
- Laboratorio de Estudios Cristalográficos, IACT, CSIC-Universidad de Granada, Avda. de las Palmeras 4, Armilla, 18100 Granada, Spain;
| | - Antonio Frontera
- Departament de Química, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, 07122 Palma de Mallorca, Spain;
| | - Alfonso Castiñeiras
- Department of Inorganic Chemistry, Faculty of Pharmacy, University of Santiago de Compostela, 15782 Santiago de Compostela, Spain;
| | - Juan Niclós-Gutiérrez
- Department of Inorganic Chemistry, Faculty of Pharmacy, University of Granada, 18071 Granada, Spain; (C.R.-M.); (A.M.-H.)
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Biskup D, Bergmann T, Schnakenburg G, Gomila RM, Frontera A, Streubel R. Synthesis of a 1-aza-2-phospha-acenaphthene complex profiting from coordination enabled chloromethane elimination. RSC Adv 2023; 13:21313-21317. [PMID: 37456542 PMCID: PMC10346357 DOI: 10.1039/d3ra04352e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2023] [Accepted: 07/10/2023] [Indexed: 07/18/2023] Open
Abstract
Despite debate on intramolecular N→P interactions in peri-substituted naphthalene derivatives their coordination chemistry has not yet been reported. Herein, we describe bonding in and reactivity of dichloro(8-dimethylamino-1-naphthyl)phosphane towards pentacarbonyltungsten(0) reagents. A 1-aza-2-phospha-acenaphthene complex was obtained via the unexpected elimination of chloromethane enabled through P-coordination. Theoretical DFT calculations provide insights into P⋯N pnictogen bonding interaction as well as the reaction pathway of the elimination reaction.
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Affiliation(s)
- David Biskup
- Institut für Anorganische Chemie, Rheinische Friedrich-Wilhelms-Universität Bonn Gerhard-Domagk-Str. 1 53121 Bonn Germany
| | - Tom Bergmann
- Institut für Anorganische Chemie, Rheinische Friedrich-Wilhelms-Universität Bonn Gerhard-Domagk-Str. 1 53121 Bonn Germany
| | - Gregor Schnakenburg
- Institut für Anorganische Chemie, Rheinische Friedrich-Wilhelms-Universität Bonn Gerhard-Domagk-Str. 1 53121 Bonn Germany
| | - Rosa M Gomila
- Department of Chemistry, Universitat de les Illes Balears crts de Valldemossa km 7.5 07122 Palma de Mallorca Baleares Spain
| | - Antonio Frontera
- Department of Chemistry, Universitat de les Illes Balears crts de Valldemossa km 7.5 07122 Palma de Mallorca Baleares Spain
| | - Rainer Streubel
- Institut für Anorganische Chemie, Rheinische Friedrich-Wilhelms-Universität Bonn Gerhard-Domagk-Str. 1 53121 Bonn Germany
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Karmakar M, Sk W, Gomila RM, Drew MGB, Frontera A, Chattopadhyay S. An insight into the hydrogen bonding, halogen bonding and chalcogen bonding interactions in manganese(iii) complexes with N 2O 2donor salicylidine Schiff base ligands. RSC Adv 2023; 13:21211-21224. [PMID: 37456548 PMCID: PMC10339072 DOI: 10.1039/d3ra04044e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2023] [Accepted: 07/03/2023] [Indexed: 07/18/2023] Open
Abstract
Four manganese(iii) complexes, [MnL1(H2O)2]ClO4·H2O (1), [MnL2(H2O)2]ClO4 (2), [MnL3(DMSO)(H2O)]ClO4 (3) and [MnL4(DMSO)(H2O)]ClO4 (4), where H2L1 = N,N'-bis(5-bromosalicylidene)-1,3-diaminopropane, H2L2 = 2,2-dimethyl-N,N-bis(3-methyloxysalicylidene)-1,3-diaminopropane, H2L3 = N,N'-bis(5-chlorosalicylidene)-2,2-dimethyl-1,3-diaminopropane and H2L4 = 2-hydroxy-N,N'-bis(3-ethyloxysalicylidene)-1,3-diaminopropane are tetradentate N2O2-donor ligands and DMSO = dimethyl sulfoxide, have been synthesized and characterised by elemental analysis, IR and UV-vis spectroscopy and single-crystal X-ray diffraction studies. All are monomeric complexes. Complex 1 crystallises in orthorhombic space group P212121, complex 3 crystallises in triclinic space group P-1, whereas complexes 2 and 4 crystallize in monoclinic space groups, C2/c and C2/m respectively. In all the complexes, manganese(iii) has a six-coordinated pseudo-octahedral geometry in which imine nitrogen atoms and phenolate oxygen atoms of the deprotonated di-Schiff base constitute the equatorial plane. In complexes 1 and 2, water molecules are present in the fifth and sixth coordination sites in the axial positions while in complexes 3 and 4 they are occupied by one water and one DMSO. The coordinated water molecules initiate hydrogen-bonded networks in all complexes. DFT calculations have been carried out to analyze two aspects of these complexes viz. the formation of halogen (HaB) and chalcogen bonding (ChB) interactions in complexes 1 and 3 where the electron donor is the perchlorate anion and the acceptor either bromine or chlorine atoms for the HaBs and the sulfur atom of the coordinated DMSO for the ChB. In addition, other intermolecular effects are discussed in the solid state for complexes 1, 2 and 4, where the hydrogen atoms of the coordinated water molecules interact with the electron rich cavities formed by the phenolate and alkyloxy oxygen atoms of the Schiff-base ligand.
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Affiliation(s)
- Mridul Karmakar
- Department of Chemistry, Jadavpur University Kolkata-700032 West Bengal India
| | - Wahedur Sk
- Department of Chemistry, Jadavpur University Kolkata-700032 West Bengal India
| | - Rosa M Gomila
- Departamento de Química, Universitat de les IllesBalears Crta.deValldemossakm 7.5 07122 Palma Baleares Spain
| | - Michael G B Drew
- School of Chemistry, The University of Reading P. O. Box 224 Whiteknights Reading RG6 6AD UK
| | - Antonio Frontera
- Departamento de Química, Universitat de les IllesBalears Crta.deValldemossakm 7.5 07122 Palma Baleares Spain
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Gigli L, Sala S, Preda A, Okubo K, Peretto G, Frontera A, Varrenti M, Baroni M, Carbonaro M, Vargiu S, Di Resta C, Striano P, Mazzone P, Della Bella P. Electrocardiogram Changes in the Postictal Phase of Epileptic Seizure: Results from a Prospective Study. J Clin Med 2023; 12:4098. [PMID: 37373791 DOI: 10.3390/jcm12124098] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2023] [Revised: 06/10/2023] [Accepted: 06/16/2023] [Indexed: 06/29/2023] Open
Abstract
BACKGROUND The brain and heart are strictly linked and the electrical physiologies of these organs share common pathways and genes. Epilepsy patients have a higher prevalence of electrocardiogram (ECG) abnormalities compared to healthy people. Furthermore, the relationship between epilepsy, genetic arrhythmic diseases and sudden death is well known. The association between epilepsy and myocardial channelopathies, although already proposed, has not yet been fully demonstrated. The aim of this prospective observational study is to assess the role of the ECG after a seizure. MATERIALS AND METHODS From September 2018 to August 2019, all patients admitted to the emergency department of San Raffaele Hospital with a seizure were enrolled in the study; for each patient, neurological, cardiological and ECG data were collected. The ECG was performed at the time of the admission (post-ictal ECG) and 48 h later (basal ECG) and analyzed by two blinded expert cardiologists looking for abnormalities known to indicate channelopathies or arrhythmic cardiomyopathies. In all patients with abnormal post-ictal ECG, next generation sequencing (NGS) analysis was performed. RESULTS One hundred and seventeen patients were enrolled (females: 45, median age: 48 ± 12 years). There were 52 abnormal post-ictal ECGs and 28 abnormal basal ECGs. All patients with an abnormal basal ECG also had an abnormal post-ictal ECG. In abnormal post-ictal ECG, a Brugada ECG pattern (BEP) was found in eight patients (of which two had BEP type I) and confirmed in two basal ECGs (of which zero had BEP type I). An abnormal QTc interval was identified in 20 patients (17%), an early repolarization pattern was found in 4 patients (3%) and right precordial abnormalities were found in 5 patients (4%). Any kind modification of post-ictal ECG was significantly more pronounced in comparison with an ECG recorded far from the seizure (p = 0.003). A 10:1 higher prevalence of a BEP of any type (particularly in post-ictal ECG, p = 0.04) was found in our population compared to general population. In three patients with post-ictal ECG alterations diagnostic for myocardial channelopathy (BrS and ERP), not confirmed at basal ECG, a pathogenic gene variant was identified (KCNJ8, PKP2 and TRMP4). CONCLUSION The 12-lead ECG after an epileptic seizure may show disease-related alterations otherwise concealed in a population at a higher incidence of sudden death and channelopathies. Post-ictal BEP incidence was higher in cases of nocturnal seizure.
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Affiliation(s)
- Lorenzo Gigli
- De Gasperis Cardiocenter, Electrophisiology Unit, Niguarda Hospital, 20162 Milan, Italy
| | - Simone Sala
- Department of Cardiac Electrophysiology and Arrhythmology, IRCCS San Raffaele Hospital, Vita-Salute San Raffaele University, 20132 Milan, Italy
| | - Alberto Preda
- Department of Cardiac Electrophysiology and Arrhythmology, IRCCS San Raffaele Hospital, Vita-Salute San Raffaele University, 20132 Milan, Italy
| | - Kenji Okubo
- Cardiovascular Center, Yokosuka Kyosai Hospital, Yokosuka 238-8558, Japan
| | - Giovanni Peretto
- Department of Cardiac Electrophysiology and Arrhythmology, IRCCS San Raffaele Hospital, Vita-Salute San Raffaele University, 20132 Milan, Italy
| | | | - Marisa Varrenti
- De Gasperis Cardiocenter, Electrophisiology Unit, Niguarda Hospital, 20162 Milan, Italy
| | - Matteo Baroni
- De Gasperis Cardiocenter, Electrophisiology Unit, Niguarda Hospital, 20162 Milan, Italy
| | - Marco Carbonaro
- De Gasperis Cardiocenter, Electrophisiology Unit, Niguarda Hospital, 20162 Milan, Italy
| | - Sara Vargiu
- De Gasperis Cardiocenter, Electrophisiology Unit, Niguarda Hospital, 20162 Milan, Italy
| | - Chiara Di Resta
- Faculty of Medicine, Vita-Salute San Raffaele University, 20132 Milan, Italy
| | - Pasquale Striano
- Pediatric Neurology and Muscular Diseases Unit, IRCCS Istituto Giannina Gaslini, 16147 Genoa, Italy
- Genomic Unit for the Diagnosis of Human Pathologies, Department of Neurosciences Rehabilitation, Ophthalmology, Genetics, Maternal and Child Health (DINOGMI), University of Genoa, 16126 Genoa, Italy
| | - Patrizio Mazzone
- De Gasperis Cardiocenter, Electrophisiology Unit, Niguarda Hospital, 20162 Milan, Italy
| | - Paolo Della Bella
- Department of Cardiac Electrophysiology and Arrhythmology, IRCCS San Raffaele Hospital, Vita-Salute San Raffaele University, 20132 Milan, Italy
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39
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Barbas R, Bofill L, Kumar V, Prohens R, Frontera A. Cooperativity effects in a new pterostilbene/phenanthroline cocrystal. J Mol Struct 2023. [DOI: 10.1016/j.molstruc.2023.135227] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/06/2023]
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40
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Stankowski K, Figliozzi S, Lisi C, Catapano F, Panico C, Cannata F, Mantovani R, Frontera A, Bragato RM, Stefanini G, Monti L, Condorelli G, Francone M. Solving the Riddle of Sudden Cardiac Death in Hypertrophic Cardiomyopathy: The Added Role of Cardiac Magnetic Resonance. J Cardiovasc Dev Dis 2023; 10:226. [PMID: 37367391 DOI: 10.3390/jcdd10060226] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2023] [Accepted: 05/22/2023] [Indexed: 06/28/2023] Open
Abstract
Cardiac magnetic resonance (CMR) has been recently implemented in clinical practice to refine the daunting task of establishing the risk of sudden cardiac death (SCD) in patients with hypertrophic cardiomyopathy (HCM). We present an exemplificative case highlighting the practical clinical utility of this imaging modality in a 24-year-old man newly diagnosed with an apical HCM. CMR was essential in unmasking a high risk of SCD, which appeared low-intermediate after traditional risk assessment. A discussion examines the essential role of CMR in guiding the patient's therapy and underlines the added value of CMR, including novel and potential CMR parameters, compared to traditional imaging assessment for SCD risk stratification.
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Affiliation(s)
- Kamil Stankowski
- Department of Biomedical Sciences, Humanitas University, Via Rita Levi Montalcini, 4, Pieve Emanuele, 20090 Milano, Italy
- Humanitas Research Hospital IRCCS, Via Alessandro Manzoni, 56, Rozzano, 20089 Milano, Italy
| | - Stefano Figliozzi
- Humanitas Research Hospital IRCCS, Via Alessandro Manzoni, 56, Rozzano, 20089 Milano, Italy
| | - Costanza Lisi
- Department of Biomedical Sciences, Humanitas University, Via Rita Levi Montalcini, 4, Pieve Emanuele, 20090 Milano, Italy
- Humanitas Research Hospital IRCCS, Via Alessandro Manzoni, 56, Rozzano, 20089 Milano, Italy
| | - Federica Catapano
- Department of Biomedical Sciences, Humanitas University, Via Rita Levi Montalcini, 4, Pieve Emanuele, 20090 Milano, Italy
- Humanitas Research Hospital IRCCS, Via Alessandro Manzoni, 56, Rozzano, 20089 Milano, Italy
| | - Cristina Panico
- Department of Biomedical Sciences, Humanitas University, Via Rita Levi Montalcini, 4, Pieve Emanuele, 20090 Milano, Italy
- Humanitas Research Hospital IRCCS, Via Alessandro Manzoni, 56, Rozzano, 20089 Milano, Italy
| | - Francesco Cannata
- Department of Biomedical Sciences, Humanitas University, Via Rita Levi Montalcini, 4, Pieve Emanuele, 20090 Milano, Italy
- Humanitas Research Hospital IRCCS, Via Alessandro Manzoni, 56, Rozzano, 20089 Milano, Italy
| | - Riccardo Mantovani
- Humanitas Research Hospital IRCCS, Via Alessandro Manzoni, 56, Rozzano, 20089 Milano, Italy
| | - Antonio Frontera
- Department of Biomedical Sciences, Humanitas University, Via Rita Levi Montalcini, 4, Pieve Emanuele, 20090 Milano, Italy
- Humanitas Research Hospital IRCCS, Via Alessandro Manzoni, 56, Rozzano, 20089 Milano, Italy
| | - Renato Maria Bragato
- Humanitas Research Hospital IRCCS, Via Alessandro Manzoni, 56, Rozzano, 20089 Milano, Italy
| | - Giulio Stefanini
- Department of Biomedical Sciences, Humanitas University, Via Rita Levi Montalcini, 4, Pieve Emanuele, 20090 Milano, Italy
- Humanitas Research Hospital IRCCS, Via Alessandro Manzoni, 56, Rozzano, 20089 Milano, Italy
| | - Lorenzo Monti
- Humanitas Research Hospital IRCCS, Via Alessandro Manzoni, 56, Rozzano, 20089 Milano, Italy
| | - Gianluigi Condorelli
- Department of Biomedical Sciences, Humanitas University, Via Rita Levi Montalcini, 4, Pieve Emanuele, 20090 Milano, Italy
- Humanitas Research Hospital IRCCS, Via Alessandro Manzoni, 56, Rozzano, 20089 Milano, Italy
| | - Marco Francone
- Department of Biomedical Sciences, Humanitas University, Via Rita Levi Montalcini, 4, Pieve Emanuele, 20090 Milano, Italy
- Humanitas Research Hospital IRCCS, Via Alessandro Manzoni, 56, Rozzano, 20089 Milano, Italy
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41
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Lang L, Frontera A, Perez A, Bauzá A. Computational Study of Driving Forces in ATSP, PDIQ, and P53 Peptide Binding: C═O···C═O Tetrel Bonding Interactions at Work. J Chem Inf Model 2023; 63:3018-3029. [PMID: 37014944 PMCID: PMC10207270 DOI: 10.1021/acs.jcim.3c00024] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2023] [Indexed: 04/06/2023]
Abstract
Understanding the molecular interactions that drive peptide folding is crucial to chemistry and biology. In this study, we analyzed the role of CO···CO tetrel bonding (TtB) interactions in the folding mechanism of three different peptides (ATSP, pDIQ, and p53), which exhibit a different propensity to fold in an α helix motif. To achieve this goal, we used both a recently developed Bayesian inference approach (MELDxMD) and Quantum Mechanics (QM) calculations at the RI-MP2/def2-TZVP level of theory. These techniques allowed us to study the folding process and to evaluate the strength of the CO···CO TtBs as well as the synergies between TtBs and hydrogen-bonding (HB) interactions. We believe that the results derived from our study will be helpful for those scientists working in computational biology, peptide chemistry, and structural biology.
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Affiliation(s)
- Lijun Lang
- Chemistry
Department, University of Florida, Gainesville, Florida 32611, United States
| | - Antonio Frontera
- Department
of Chemistry, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, 07122 Palma, Baleares, Spain
| | - Alberto Perez
- Chemistry
Department, University of Florida, Gainesville, Florida 32611, United States
| | - Antonio Bauzá
- Department
of Chemistry, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, 07122 Palma, Baleares, Spain
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42
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Royla P, Schwedtmann K, Han Z, Fidelius J, Gates DP, Gomila RM, Frontera A, Weigand JJ. Cationic Phosphinidene as a Versatile P 1 Building Block: [L C-P] + Transfer from Phosphonio-Phosphanides [L C-P-PR 3] + and Subsequent L C Replacement Reactions (L C = N-Heterocyclic Carbene). J Am Chem Soc 2023; 145:10364-10375. [PMID: 37105536 PMCID: PMC10177976 DOI: 10.1021/jacs.3c02256] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2023] [Indexed: 04/29/2023]
Abstract
Cationic imidazoliumyl(phosphonio)-phosphanides [LC-P-PR3]+ (1a-e+, LC = 4,5-dimethyl-1,3-diisopropylimidazolium-2-yl; R = alkyl, aryl) are obtained via the nucleophilic fragmentation of tetracationic tetraphosphetane [(LC-P)4][OTf]4 (2[OTf]4) with tertiary phosphanes. They act as [LC-P]+ transfer reagents in phospha-Wittig-type reactions, when converted with various thiocarbonyls, giving unprecedented cationic phosphaalkenes [LC-P═CR2]+ (5a-f[OTf]) or phosphanides [LC-P-CR(NR2')]+ (6a-d[OTf]). Theoretical calculations suggest that three-membered cyclic thiophosphiranes are crucial intermediates of this reaction. To test this hypothesis, treatment of [LC-P-PPh3]+ with phosphaalkenes, that are isolobal to thioketones, permits the isolation of diphosphirane salts 11a,b[OTf]. Furthermore, preliminary studies suggest that the cationic phosphaalkene [LC-P═CPh2]+ may be employed to access rare examples of η2-P═C π-complexes with Pd0 and Pt0 when treated with [Pd(PPh3)4] and [Pt(PPh3)3] for which analogous complexes of neutral phosphaalkenes are scarce. The versatility of [LC-P]+ as a valuable P1 building block was showcased in substitution reactions of the transferred LC-substituent using nucleophiles. This is demonstrated through the reactions of 5a[OTf] and 6c[OTf] with Grignard reagents and KNPh2, providing a convenient, high-yielding access to MesP═CPh2 (16) and otherwise difficult-to-synthesize 1,3-diphosphetane 17 and P-aminophosphaalkenes.
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Affiliation(s)
- Philipp Royla
- Chair
of Inorganic Molecular Chemistry, Faculty of Chemistry and Food Chemistry, Technische Universität Dresden, 01069 Dresden, Germany
| | - Kai Schwedtmann
- Chair
of Inorganic Molecular Chemistry, Faculty of Chemistry and Food Chemistry, Technische Universität Dresden, 01069 Dresden, Germany
| | - Zeyu Han
- Department
of Chemistry, University of British Columbia, 2036 Main Mall, V6T 1Z1 Vancouver, Canada
| | - Jannis Fidelius
- Chair
of Inorganic Molecular Chemistry, Faculty of Chemistry and Food Chemistry, Technische Universität Dresden, 01069 Dresden, Germany
| | - Derek P. Gates
- Department
of Chemistry, University of British Columbia, 2036 Main Mall, V6T 1Z1 Vancouver, Canada
| | - Rosa M. Gomila
- Department
of Chemistry, Universitat de Illes Balears, 07122 Palma de
Mallorca, Spain
| | - Antonio Frontera
- Department
of Chemistry, Universitat de Illes Balears, 07122 Palma de
Mallorca, Spain
| | - Jan J. Weigand
- Chair
of Inorganic Molecular Chemistry, Faculty of Chemistry and Food Chemistry, Technische Universität Dresden, 01069 Dresden, Germany
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43
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Giordana A, Gomila RM, Rabezzana R, Laurenti E, Priola E, Eftekhari-Sis B, Mahmoudi G, Frontera A. Hydrogen Bonding, π-Stacking, and Aurophilic Interactions in Two Dicyanoaurate(I)-based Manganese(II) Complexes with Auxiliary Bis-Pyridine Ligands. Chempluschem 2023; 88:e202300052. [PMID: 37139899 DOI: 10.1002/cplu.202300052] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2023] [Revised: 05/02/2023] [Accepted: 05/04/2023] [Indexed: 05/05/2023]
Abstract
The relevance of hydrogen-bonding, π-π stacking and aurophilic interactions in the solid-state of two new heterobimetallic (AuI-MnII) complexes is analyzed in this manuscript. They are discrete complexes of formulae [Mn(bipy)2(H2O){Au(CN)2}][Au(CN)2] and [Mn(dmbipy)2{Au(CN)2}]·H2O, (bipy = 2,2'-bipyridine and dmbipy = 5,5'-dimethyl-2,2'-bipyridine), which are based on dicyanidoaurate(I) groups and 2,2'-bipyridyl-like co-ligands. They have been synthesized in good yields and X-ray characterized. In both compounds, aurophilic, OH···N hydrogen bonding and π-π interactions governed the supramolecular assemblies in the solid state. These contacts with special emphasis on the aurophilic interactions have been studied using density functional theory calculations and characterized using the quantum theory of atoms-in-molecules and the noncovalent interaction plot. The aurophilic contacts have been also rationalized from an orbital point of view using the natural bond orbital methodology, evidencing stabilization energies up to 5.7 kcal/mol. Moreover, the interaction energies have been decomposed using the Kitaura-Morokuma energy decomposition analysis, confirming the importance of electrostatic and orbital effects.
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Affiliation(s)
| | - Rosa M Gomila
- Universitat de les Illes Balears Departament de Química: Universitat de les Illes Balears Departament de Quimica, Chemistry, SPAIN
| | | | - Enzo Laurenti
- Università degli Studi di Torino: Universita degli Studi di Torino, Chemistry, ITALY
| | | | | | | | - Antonio Frontera
- Universitat de les Illes Balears, Chemistry, Crta de Valldemossa km 7.5, 07122, Palma de Mallorca, SPAIN
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Pinto A, Llanos A, Gomila RM, Frontera A, Rodríguez L. Ligand and Gold(I) Fluorescein-AIEgens as Photosensitizers in Solution and Doped Polymers. Inorg Chem 2023; 62:7131-7140. [PMID: 37139684 DOI: 10.1021/acs.inorgchem.3c00197] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/05/2023]
Abstract
The synthesis of fluorescein propargyl diether (L) and two different dinuclear gold(I) derivatives containing a water-soluble phosphane [1,3,5-triaza-7-phosphatricyclo[3.3.1.13.7]decane (PTA) for complex 1 and 3,7-diacetyl-1,3,7-triaza-5-phosphabicyclo[3.3.1]nonane (DAPTA) for complex 2] has been successfully performed. All compounds display intrinsic emission from fluorescein, being less intense for gold(I) complexes due to the heavy-atom effect. All compounds aggregate in acetonitrile/water mixtures with the formation of larger aggregates for those samples containing more water content, as evidenced by dynamic light scattering and small-angle X-ray scattering experiments, in agreement with the absorption and emission data. The emission of the samples increases when they are used to obtain luminescent materials with four different organic matrices [poly(methyl methacrylate, polystyrene (PS), cellulose, and Zeonex]. The compounds display very high values of singlet oxygen (1O2) production in dichloromethane. Singlet oxygen production was also evaluated in the doped matrices, being the highest in PS and with an exciting increase on PS microspheres. Density functional theory (BP86-D3) and GFN2-xTB calculations were used to model the assembly of L and complexes 1 and 2 with the different organic matrices and rationalize the experimental findings based on the geometries, molecular electrostatic potential surfaces, and complementarity and HOMO-LUMO gaps.
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Affiliation(s)
- Andrea Pinto
- Departament de Química Inorgànica i Orgànica, Secció de Química Inorgànica, Universitat de Barcelona, Martí i Franquès 1-11, 08028 Barcelona, Spain
- Institut de Nanociència i Nanotecnologia (IN2UB), Universitat de Barcelona, 08028 Barcelona, Spain
| | - Alejandro Llanos
- Departament de Química Inorgànica i Orgànica, Secció de Química Inorgànica, Universitat de Barcelona, Martí i Franquès 1-11, 08028 Barcelona, Spain
| | - Rosa M Gomila
- Departament de Química, Universitat de les Illes Balears, 07071 Palma de Mallorca, Spain
| | - Antonio Frontera
- Departament de Química, Universitat de les Illes Balears, 07071 Palma de Mallorca, Spain
| | - Laura Rodríguez
- Departament de Química Inorgànica i Orgànica, Secció de Química Inorgànica, Universitat de Barcelona, Martí i Franquès 1-11, 08028 Barcelona, Spain
- Institut de Nanociència i Nanotecnologia (IN2UB), Universitat de Barcelona, 08028 Barcelona, Spain
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Pramanik S, Jana S, Das K, Pathak S, Ortega-Castro J, Frontera A, Mukhopadhyay S. Crystallographic Aspects, Photophysical Properties, and Theoretical Survey of Tetrachlorometallates of Group 12 Metals [Zn(II), Cd(II), and Hg(II)] with a Triply Protonated 2,4,6-Tris(2-pyridyl)-1,3,5-triazine Ligand. Inorg Chem 2023; 62:7220-7234. [PMID: 37130352 DOI: 10.1021/acs.inorgchem.2c04521] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/04/2023]
Abstract
Zn(II) (complex 1), Cd(II) (complex 2), and Hg(II) (complex 3) complexes have been synthesized using a triply protonated tptz (H3tptz3+) ligand and characterized mainly by single-crystal X-ray analysis. The general formula of all of the complexes is (H3tptz)3+·Cl-·[MCl4]2-·nH2O (where n = 1, 1.5, and 1.5 for complexes 1, 2, and 3, respectively). The crystallographic analysis reveals that the anion···π, anion···π+, and several hydrogen bonding interactions play a fundamental role in the stabilization of the self-assembled architectures that in turn help to enhance the dimensionality of all of the complexes. In addition, Hirshfeld surfaces and fingerprint plots have been deployed here to visualize the similarities and differences in hydrogen bonding interactions in 1-3, which are very important in forming supramolecular architectures. A density functional theory (DFT) study has been used to analyze and rationalize the supramolecular interactions by using molecular electrostatic potential (MEP) surfaces and combined QTAIM/NCI plots. Then, the device parameters for the complexes (1-3) have been thoroughly investigated by fabricating a Schottky barrier diode (SBD) on an indium tin oxide (ITO) substrate. It has been observed that the device made from complex 2 is superior to those from complexes 1 and 3, which has been explained in terms of band gaps, differences in the electronegativities of the central metal atoms, and the better supramolecular interactions involved. Finally, theoretical calculations have also been performed to analyze the experimental differences in band gaps as well as electrical conductivities observed for all of the complexes. Henceforth, the present work combined supramolecular, photophysical, and theoretical studies regarding group 12 metals in a single frame.
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Affiliation(s)
- Samit Pramanik
- Department of Chemistry, Jadavpur University, Kolkata 700032, India
| | - Sumanta Jana
- Department of Chemistry, Jadavpur University, Kolkata 700032, India
| | - Kinsuk Das
- Department of Chemistry, Chandernagore College, Hooghly, West Bengal 712136, India
| | - Sudipta Pathak
- Department of Chemistry, Haldia Government College, Debhog, Purba Medinipur, West Bengal 721657, India
| | - Joaquin Ortega-Castro
- Department of Chemistry, Universitat de les IllesBalears, Crta. de Valldemossa km 7.5, 07122 Palma de Mallorca (Baleares), Spain
| | - Antonio Frontera
- Department of Chemistry, Universitat de les IllesBalears, Crta. de Valldemossa km 7.5, 07122 Palma de Mallorca (Baleares), Spain
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46
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Gutiérrez López MÁ, Tan ML, Frontera A, Matile S. The Origin of Anion-π Autocatalysis. JACS Au 2023; 3:1039-1051. [PMID: 37124310 PMCID: PMC10131205 DOI: 10.1021/jacsau.2c00656] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/02/2022] [Revised: 02/09/2023] [Accepted: 02/17/2023] [Indexed: 05/03/2023]
Abstract
The autocatalysis of epoxide-opening ether cyclizations on the aromatic surface of anion-π catalysts stands out as a leading example of emergent properties expected from the integration of unorthodox interactions into catalysis. A working hypothesis was proposed early on, but the mechanism of anion-π autocatalysis has never been elucidated. Here, we show that anion-π autocatalysis is almost independent of peripheral crowding in substrate and product. Inaccessible asymmetric anion-π autocatalysis and sometimes erratic reproducibility further support that the origin of anion-π autocatalysis is more complex than originally assumed. The apparent long-distance communication without physical contact calls for the inclusion of water between substrate and product on the catalytic aromatic surface. Efficient anion-π autocatalysis around equimolar amounts but poor activity in dry solvents and with excess water indicate that this inclusion of water requires high precision. Computational models suggest that two water molecules transmit dual substrate activation by the product and serve as proton shuttles along antiparallel but decoupled hydrogen-bonded chains to delocalize and stabilize evolving charge density in the transition state by "anion-π double bonds". This new transition-state model of anion-π autocatalysis provides a plausible mechanism that explains experimental results and brings anion-π catalysis to an unprecedented level of sophistication.
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Affiliation(s)
- M. Ángeles Gutiérrez López
- Department
of Organic Chemistry, University of Geneva, CH-1211 Geneva, Switzerland
- National
Centre of Competence in Research (NCCR) Molecular Systems Engineering
(MSE), CH-4002 Basel, Switzerland
| | - Mei-Ling Tan
- Department
of Organic Chemistry, University of Geneva, CH-1211 Geneva, Switzerland
- National
Centre of Competence in Research (NCCR) Molecular Systems Engineering
(MSE), CH-4002 Basel, Switzerland
| | - Antonio Frontera
- Departament
de Química, Universitat de les Illes
Balears, SP-07122 Palma de Mallorca, Spain
| | - Stefan Matile
- Department
of Organic Chemistry, University of Geneva, CH-1211 Geneva, Switzerland
- National
Centre of Competence in Research (NCCR) Molecular Systems Engineering
(MSE), CH-4002 Basel, Switzerland
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47
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Piña MDLN, Sahu AK, Frontera A, Biswal HS, Bauzá A. Tetrel bonds involving a CF 3 group participate in protein-drug recognition: a combined crystallographic and computational study. Phys Chem Chem Phys 2023; 25:12409-12419. [PMID: 37093130 DOI: 10.1039/d3cp00839h] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/25/2023]
Abstract
In this study, the ability of CF3 groups to bind to the electron-rich side chains and backbone groups of proteins has been investigated by combining a Protein Data Bank (PDB) survey and ab initio quantum mechanics calculations. More precisely, an inspection of the PDB involving organic ligands containing a CF3 group and electron-rich atoms (A = N, O and S) in the vicinity revealed 419 X-ray structures exhibiting CF3⋯A tetrel bonds (TtBs). In a posterior stage, those hits that exhibited the most relevant features in terms of directionality and intermolecular distance were selected for theoretical calculations at the RI-MP2/def2-TZVPD level of theory. Also, Hammett's regression plots of several TtB complexes involving meta- and para-substituted benzene derivatives were computed to shed light on the substituent effects. Moreover, the TtBs were characterized through several state-of-the-art computational techniques, such as the Quantum Theory of Atoms in Molecules (QTAIM) and Noncovalent Interactions plot (NCIplot) methodologies. We believe that the results gathered from our study will be useful for rational drug design and biological communities as well as for further expanding the role of this interaction to biomedical applications.
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Affiliation(s)
- María de Las Nieves Piña
- Department of Chemistry, Universitat de les Illes Balears, Crts de Valldemossa km 7.6, 07122 Palma de Mallorca, Baleares, Spain.
| | - Akshay Kumar Sahu
- School of Chemical Sciences, National Institute of Science Education and Research (NISER), PO-Bhimpur-Padanpur, Via-Jatni, Khurda, 752050, Bhubaneswar, India.
- Homi Bhabha National Institute, Training School Complex, Anushakti Nagar, Mumbai 400094, India
| | - Antonio Frontera
- Department of Chemistry, Universitat de les Illes Balears, Crts de Valldemossa km 7.6, 07122 Palma de Mallorca, Baleares, Spain.
| | - Himansu S Biswal
- School of Chemical Sciences, National Institute of Science Education and Research (NISER), PO-Bhimpur-Padanpur, Via-Jatni, Khurda, 752050, Bhubaneswar, India.
- Homi Bhabha National Institute, Training School Complex, Anushakti Nagar, Mumbai 400094, India
| | - Antonio Bauzá
- Department of Chemistry, Universitat de les Illes Balears, Crts de Valldemossa km 7.6, 07122 Palma de Mallorca, Baleares, Spain.
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48
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Burguera S, Frontera A, Bauza A. Regium-π Bonds Involving Nucleobases: Theoretical Study and Biological Implications. Inorg Chem 2023; 62:6740-6750. [PMID: 37083254 PMCID: PMC10155183 DOI: 10.1021/acs.inorgchem.3c00369] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/22/2023]
Abstract
In this study, we provide crystallographic (Protein Data Bank (PDB) inspection) and theoretical (RI-MP2/def2-TZVP//PBE0-D3/def2-SVP level of theory) evidence of the involvement of nucleobases in Regium-π bonds (RgBs). This noncovalent interaction involves an electrophilic site located on an element of group 11 (Cu, Ag, and Au) and an electron-rich species (lone pair, LP donor, or π-system). Concretely, an initial PDB search revealed several examples where RgBs were undertaken involving DNA bases and Cu(II), Ag(I), and Au(I/III) ions. While coordination positions (mainly at the N atoms of the base) are well known, the noncovalent binding force between these counterparts has been scarcely studied in the literature. In this regard, computational models shed light on the strength and directionality properties of the interaction, which was also further characterized from a charge-density perspective using Bader's "atoms in molecules" (AIM) theory, noncovalent interaction plot (NCIplot) visual index, and natural bonding orbital (NBO) analyses. As far as our knowledge extends, this is the first time that RgBs in metal-DNA complexes are systematically analyzed, and we believe the results might be useful for scientists working in the field of nucleic acid engineering and chemical biology as well as to increase the visibility of the interaction among the biological community.
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Affiliation(s)
- Sergi Burguera
- Department of Chemistry, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, 07122 Palma, Baleares, Spain
| | - Antonio Frontera
- Department of Chemistry, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, 07122 Palma, Baleares, Spain
| | - Antonio Bauza
- Department of Chemistry, Universitat de les Illes Balears, Crta. de Valldemossa km 7.5, 07122 Palma, Baleares, Spain
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Benito M, Frontera A, Molins E. Cocrystallization of Antifungal Compounds Mediated by Halogen Bonding. Cryst Growth Des 2023; 23:2932-2940. [PMID: 37038404 PMCID: PMC10080713 DOI: 10.1021/acs.cgd.3c00067] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/18/2023] [Revised: 02/25/2023] [Indexed: 06/19/2023]
Abstract
The application of halogen bonding in pharmaceutical chemistry remains a challenge. In this work, novel halogen-bonded cocrystals based on azole antifungal active pharmaceutical ingredients (APIs) and the ditopic molecule 1,4-diiodotetrafluorobenzene are reported. Their crystal structural features, spectroscopic properties, and thermal stability were studied. The components are bound through I···N from the triazole moieties present in all of the compounds. The molecular electrostatic potential (MEP) surfaces and quantum theory of atoms in molecules (QTAIM) calculations are used to rationalize the presence of hydrogen and halogen bonds in the resulting structures and their energetic analysis. The relative halogen bond ability of the different groups of voriconazole, fluconazole, and itraconazole was analyzed using MEP surfaces, demonstrating this approach to be an interesting tool to predict halogen-bonding preferences.
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Affiliation(s)
- Mónica Benito
- Institut
de Ciència de Materials de Barcelona (ICMAB-CSIC), Campus UAB, 08193 Bellaterra, Spain
| | - Antonio Frontera
- Departament
de Química, Universitat de les Illes
Balears, Ctra. Valldemosa km 7.5, E-07122 Palma de Mallorca, Spain
| | - Elies Molins
- Institut
de Ciència de Materials de Barcelona (ICMAB-CSIC), Campus UAB, 08193 Bellaterra, Spain
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Middya P, Karmakar M, Frontera A, Chattopadhyay S. Insight into the role of pseudo-halides as multiple hydrogen bond acceptors in the formation of supramolecular 1D assembly of di and trinuclear zinc complexes. Inorganica Chim Acta 2023. [DOI: 10.1016/j.ica.2023.121516] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/04/2023]
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