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Barone V, Fusè M, Aguado R, Potenti S, León I, Alonso ER, Mata S, Lazzari F, Mancini G, Spada L, Gualandi A, Cozzi PG, Puzzarini C, Alonso JL. Bringing Machine-Learning Enhanced Quantum Chemistry and Microwave Spectroscopy to Conformational Landscape Exploration: the Paradigmatic Case of 4-Fluoro-Threonine. Chemistry 2023; 29:e202203990. [PMID: 36734519 DOI: 10.1002/chem.202203990] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [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: 12/21/2022] [Revised: 02/02/2023] [Accepted: 02/02/2023] [Indexed: 02/04/2023]
Abstract
A combined experimental and theoretical study has been carried out on 4-fluoro-threonine, the only naturally occurring fluorinated amino acid. Fluorination of the methyl group significantly increases the conformational complexity with respect to the parent amino acid threonine. The conformational landscape has been characterized in great detail, with special attention given to the inter-conversion pathways between different conformers. This led to the identification of 13 stable low-energy minima. The equilibrium population of so many conformers produces a very complicated and congested rotational spectrum that could be assigned through a strategy that combines several levels of quantum chemical calculations with the principles of machine learning. Twelve conformers out of 13 could be experimentally characterized. The results obtained from the analysis of the intra-molecular interactions can be exploited to accurately model fluorine-substitution effects in biomolecules.
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Affiliation(s)
- V Barone
- SMART Laboratory, Scuola Normale Superiore di Pisa, piazza dei Cavalieri 7, 56126, Pisa, Italy
| | - M Fusè
- SMART Laboratory, Scuola Normale Superiore di Pisa, piazza dei Cavalieri 7, 56126, Pisa, Italy
| | - R Aguado
- Grupo de Espectroscopia Molecular (GEM), Edificio Quifima, Laboratorios de Espectroscopia y Bioespectroscopia Parque Cientifico UVa, Universidad de Valladolid, 47005, Valladolid, Spain
| | - S Potenti
- SMART Laboratory, Scuola Normale Superiore di Pisa, piazza dei Cavalieri 7, 56126, Pisa, Italy
- Dipartimento di "Chimica Giacomo Ciamician", University of Bologna, via F. Selmi 2, 40126, Bologna, Italy
| | - I León
- Grupo de Espectroscopia Molecular (GEM), Edificio Quifima, Laboratorios de Espectroscopia y Bioespectroscopia Parque Cientifico UVa, Universidad de Valladolid, 47005, Valladolid, Spain
| | - E R Alonso
- Grupo de Espectroscopia Molecular (GEM), Edificio Quifima, Laboratorios de Espectroscopia y Bioespectroscopia Parque Cientifico UVa, Universidad de Valladolid, 47005, Valladolid, Spain
| | - S Mata
- Grupo de Espectroscopia Molecular (GEM), Edificio Quifima, Laboratorios de Espectroscopia y Bioespectroscopia Parque Cientifico UVa, Universidad de Valladolid, 47005, Valladolid, Spain
| | - F Lazzari
- SMART Laboratory, Scuola Normale Superiore di Pisa, piazza dei Cavalieri 7, 56126, Pisa, Italy
| | - G Mancini
- SMART Laboratory, Scuola Normale Superiore di Pisa, piazza dei Cavalieri 7, 56126, Pisa, Italy
| | - L Spada
- SMART Laboratory, Scuola Normale Superiore di Pisa, piazza dei Cavalieri 7, 56126, Pisa, Italy
| | - A Gualandi
- Dipartimento di "Chimica Giacomo Ciamician", University of Bologna, via F. Selmi 2, 40126, Bologna, Italy
| | - P G Cozzi
- Dipartimento di "Chimica Giacomo Ciamician", University of Bologna, via F. Selmi 2, 40126, Bologna, Italy
| | - C Puzzarini
- Dipartimento di "Chimica Giacomo Ciamician", University of Bologna, via F. Selmi 2, 40126, Bologna, Italy
| | - J L Alonso
- Grupo de Espectroscopia Molecular (GEM), Edificio Quifima, Laboratorios de Espectroscopia y Bioespectroscopia Parque Cientifico UVa, Universidad de Valladolid, 47005, Valladolid, Spain
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Magagnano G, Gualandi A, Marchini M, Mengozzi L, Ceroni P, Cozzi PG. Photocatalytic ATRA reaction promoted by iodo-Bodipy and sodium ascorbate. Chem Commun (Camb) 2017; 53:1591-1594. [PMID: 28085164 DOI: 10.1039/c6cc09387f] [Citation(s) in RCA: 62] [Impact Index Per Article: 8.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
Using ascorbate as a sacrificial reductant, iodo-Bodipy dye 1b is able to promote the ATRA reaction between bromoderivatives and alkenes. This finding expands the possibility of using Bodipy dyes to promote photocatalytic reactions in efficient ways.
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Affiliation(s)
- G Magagnano
- Dipartimento di Chimica "G. Ciamician" ALMA MATER STUDIORUM, Università di Bologna, Via Selmi 2, 40126 Bologna, Italy.
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El Garah M, Santana Bonilla A, Ciesielski A, Gualandi A, Mengozzi L, Fiorani A, Iurlo M, Marcaccio M, Gutierrez R, Rapino S, Calvaresi M, Zerbetto F, Cuniberti G, Cozzi PG, Paolucci F, Samorì P. Molecular design driving tetraporphyrin self-assembly on graphite: a joint STM, electrochemical and computational study. Nanoscale 2016; 8:13678-13686. [PMID: 27376633 DOI: 10.1039/c6nr03424a] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
Tuning the intermolecular interactions among suitably designed molecules forming highly ordered self-assembled monolayers is a viable approach to control their organization at the supramolecular level. Such a tuning is particularly important when applied to sophisticated molecules combining functional units which possess specific electronic properties, such as electron/energy transfer, in order to develop multifunctional systems. Here we have synthesized two tetraferrocene-porphyrin derivatives that by design can selectively self-assemble at the graphite/liquid interface into either face-on or edge-on monolayer-thick architectures. The former supramolecular arrangement consists of two-dimensional planar networks based on hydrogen bonding among adjacent molecules whereas the latter relies on columnar assembly generated through intermolecular van der Waals interactions. Scanning Tunneling Microscopy (STM) at the solid-liquid interface has been corroborated by cyclic voltammetry measurements and assessed by theoretical calculations to gain multiscale insight into the arrangement of the molecule with respect to the basal plane of the surface. The STM analysis allowed the visualization of these assemblies with a sub-nanometer resolution, and cyclic voltammetry measurements provided direct evidence of the interactions of porphyrin and ferrocene with the graphite surface and offered also insight into the dynamics within the face-on and edge-on assemblies. The experimental findings were supported by theoretical calculations to shed light on the electronic and other physical properties of both assemblies. The capability to engineer the functional nanopatterns through self-assembly of porphyrins containing ferrocene units is a key step toward the bottom-up construction of multifunctional molecular nanostructures and nanodevices.
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Affiliation(s)
- M El Garah
- ISIS & iCFRC, Université de Strasbourg & CNRS, 8 Allée Gaspard Monge, 67000 Strasbourg, France.
| | - A Santana Bonilla
- Institute for Materials and Max Bergamann Center of Biomaterials, TU Dresden, 01062 Dresden, Germany.
| | - A Ciesielski
- ISIS & iCFRC, Université de Strasbourg & CNRS, 8 Allée Gaspard Monge, 67000 Strasbourg, France.
| | - A Gualandi
- Dipartimento di Chimica "Giacomo Ciamician", Via Selmi2, 40126, Bologna, Italy.
| | - L Mengozzi
- Dipartimento di Chimica "Giacomo Ciamician", Via Selmi2, 40126, Bologna, Italy.
| | - A Fiorani
- Dipartimento di Chimica "Giacomo Ciamician", Via Selmi2, 40126, Bologna, Italy.
| | - M Iurlo
- Dipartimento di Chimica "Giacomo Ciamician", Via Selmi2, 40126, Bologna, Italy.
| | - M Marcaccio
- Dipartimento di Chimica "Giacomo Ciamician", Via Selmi2, 40126, Bologna, Italy.
| | - R Gutierrez
- Institute for Materials and Max Bergamann Center of Biomaterials, TU Dresden, 01062 Dresden, Germany.
| | - S Rapino
- Dipartimento di Chimica "Giacomo Ciamician", Via Selmi2, 40126, Bologna, Italy.
| | - M Calvaresi
- Dipartimento di Chimica "Giacomo Ciamician", Via Selmi2, 40126, Bologna, Italy.
| | - F Zerbetto
- Dipartimento di Chimica "Giacomo Ciamician", Via Selmi2, 40126, Bologna, Italy.
| | - G Cuniberti
- Institute for Materials and Max Bergamann Center of Biomaterials, TU Dresden, 01062 Dresden, Germany.
| | - P G Cozzi
- Dipartimento di Chimica "Giacomo Ciamician", Via Selmi2, 40126, Bologna, Italy.
| | - F Paolucci
- Dipartimento di Chimica "Giacomo Ciamician", Via Selmi2, 40126, Bologna, Italy.
| | - P Samorì
- ISIS & iCFRC, Université de Strasbourg & CNRS, 8 Allée Gaspard Monge, 67000 Strasbourg, France.
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Manoni E, Gualandi A, Mengozzi L, Bandini M, Cozzi PG. Organocatalytic enantioselective synthesis of 1-vinyl tetrahydroisoquinolines through allenamide activation with chiral Brønsted acids. RSC Adv 2015. [DOI: 10.1039/c4ra14942d] [Citation(s) in RCA: 18] [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: 11/21/2022] Open
Abstract
In this paper we present a new approach for the realization of tetrahydroisoquinoline scaffolds via stereoselective proto-activation of suitable allenamide precursors.
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Affiliation(s)
- E. Manoni
- ALMA MATER STUDIORUM – Università di Bologna
- Dipartimento di Chimica “G. Ciamician”
- 40126 Bologna
- Italy
| | - A. Gualandi
- ALMA MATER STUDIORUM – Università di Bologna
- Dipartimento di Chimica “G. Ciamician”
- 40126 Bologna
- Italy
| | - L. Mengozzi
- ALMA MATER STUDIORUM – Università di Bologna
- Dipartimento di Chimica “G. Ciamician”
- 40126 Bologna
- Italy
| | - M. Bandini
- ALMA MATER STUDIORUM – Università di Bologna
- Dipartimento di Chimica “G. Ciamician”
- 40126 Bologna
- Italy
| | - P. G. Cozzi
- ALMA MATER STUDIORUM – Università di Bologna
- Dipartimento di Chimica “G. Ciamician”
- 40126 Bologna
- Italy
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Bandini M, Cozzi PG, Melchiorre P, Morganti S, Umani-Ronchi A. Cr(Salen)-Catalyzed Addition of 1,3-Dichloropropene to Aromatic Aldehydes. A Simple Access to Optically Active Vinyl Epoxides. Org Lett 2001; 3:1153-5. [PMID: 11348182 DOI: 10.1021/ol015597h] [Citation(s) in RCA: 41] [Impact Index Per Article: 1.8] [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: 11/30/2022]
Abstract
[reaction: see text]. Chiral Cr(Salen) complex (1) prepared in situ from CrCl3 promotes the enantioselective addition of 1,3-dichloropropene to aromatic aldehydes in the presence of Mn as the stoichiometric reductant and Me3SiCl as a scavenger. The resulting 1,2-chlorohydrins obtained in good enantiomeric and diastereoisomeric excesses can be easily transformed into the corresponding chiral vinyl epoxides.
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Affiliation(s)
- M Bandini
- Dipartimento di Chimica G. Ciamician, via Selmi 2, 40126, Bologna, Italy
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Bandini M, Cozzi PG, Umani-Ronchi A. Salen as a Chiral Activator: anti versus syn Switchable Diastereoselection in the Enantioselective Addition of Crotyl Bromide to Aromatic Aldehydes We thank the CNR (Rome), M.U.R.S.T. (Rome) "Progetto Stereoselezione in Chimica Organica, Metodologie ed Applicazioni", and the University of Bologna (funds for selected research topics) for financial support of this research. Angew Chem Int Ed Engl 2000; 39:2327-2330. [PMID: 10941080 DOI: 10.1002/1521-3773(20000703)39:13<2327::aid-anie2327>3.0.co;2-9] [Citation(s) in RCA: 65] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- M Bandini
- Dipartimento di Chimica "G. Ciamician" Università di Bologna Via Selmi, 2, 40126 Bologna (Italy)
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Abstract
The Nozaki-Hiyama reaction can be performed in an enantioselective catalytic way! The catalytic system utilizes 10 mol % of an inexpensive chiral [Cr(salen)] complex. The [Cr(salen)]/Mn/Me(3)SiCl system effectively promotes the enantioselective addition of allyl chloride to aliphatic and aromatic aldehydes at room temperature (65-89 % ee, 40-60 % yield).
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Affiliation(s)
- M Bandini
- Dipartimento di Chimica "G. Ciamician", Università di Bologna, Via Selmi 2 I-40126 Bologna (Italy)
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