1
|
Puzzarini C, Ye H, Alessandrini S. Isomerism of CH 2 SO : Accurate structural, energetic, and spectroscopic characterization. J Comput Chem 2024; 45:777-786. [PMID: 38116807 DOI: 10.1002/jcc.27283] [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: 10/17/2023] [Revised: 11/24/2023] [Accepted: 11/28/2023] [Indexed: 12/21/2023]
Abstract
A recent work [Ye et al. Mon. Not. R. Astron. Soc. 2023, 525, 1158] on the gas-phase formation of t-HC(O)SH, already detected in the interstellar medium, pointed out that the trans form of HC(S)OH is a potential candidate for astronomical observations. Prompted by these results, theCH 2 SO family of isomers has been investigated from an energetic point of view using a double-hybrid density functional in combination with a partially augmented triple-zeta basis set. This preliminary study showed that the most stable species of the family are the cis and trans forms of HC(O)SH and HC(S)OH. For their structural and spectroscopic characterization, a composite scheme based on coupled cluster (CC) calculations that incorporates up to the quadruple excitations and accounts for the extrapolation to the complete basis set limit and core correlation effects has been employed. This approach opens to the prediction of rotational constants with an accuracy of 0.1%. A hybrid scheme, based on harmonic frequencies computed using the CC singles, doubles and a perturbative treatment of triples method (CCSD(T)) in conjunction with a quadruple-zeta basis set, allowed us to obtain fundamental vibrational frequencies with a mean absolute error of about 1%.
Collapse
Affiliation(s)
- Cristina Puzzarini
- Department of Chemistry "Giacomo Ciamician", University of Bologna, Bologna, Italy
| | - Hexu Ye
- Department of Chemistry "Giacomo Ciamician", University of Bologna, Bologna, Italy
| | - Silvia Alessandrini
- Department of Chemistry "Giacomo Ciamician", University of Bologna, Bologna, Italy
| |
Collapse
|
2
|
Silva WGDP, van Wijngaarden J. Disentangling the Conformational Space and Structural Preferences of Tetrahydrofurfuryl Alcohol Using Rotational Spectroscopy and Computational Chemistry. Chemphyschem 2024:e202400298. [PMID: 38637291 DOI: 10.1002/cphc.202400298] [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: 03/17/2024] [Revised: 04/18/2024] [Accepted: 04/18/2024] [Indexed: 04/20/2024]
Abstract
The influence of the hydroxymethyl (CH2OH) group on the tetrahydrofuran (THF) ring structure was investigated by disentangling the gas phase conformational landscape of the sugar analogue tetrahydrofurfuryl alcohol (THFA). By combining rotational spectroscopy (6-20 GHz) and quantum chemical calculations, transitions corresponding to two stable conformers of THFA and their 13C isotopologues were observed and assigned in the rotational spectrum. The positions of the C atoms were precisely determined to unambiguously distinguish between nearly isoenergetic pairs of conformers that differ in their ring configurations: envelope (E) versus twist (T). The rotational spectrum confirms that the E ring geometry is favoured when the CH2OH fragment lies gauche (-) to the THF backbone (OCCO ~-60°) whereas the T form is more stable for the gauche (+) alignment of the substituent (OCCO ~+60°). The observed spectral intensities suggest that conformational relaxation of the THF geometry (E↔T) to the more stable form readily occurs within the pairs of g- and g+ conformers which is consistent with the low barriers (1.5-1.7 kJ mol-1) for conversion determined via transition state calculations. Insights into the intramolecular hydrogen bonding and other weak interactions stabilizing the lowest energy structures of THFA were derived and rationalized using non-covalent interaction analyses.
Collapse
Affiliation(s)
- Weslley G D P Silva
- I. Physikalisches Institut, Universität zu Köln, Zülpicher Str. 77, 50937, Köln, Germany
| | | |
Collapse
|
3
|
Cummings CN, Walker NR. Hydrogen Bonding and Molecular Geometry in Isolated Hydrates of 2-Ethylthiazole Characterised by Microwave Spectroscopy. Chemphyschem 2024; 25:e202400011. [PMID: 38314654 DOI: 10.1002/cphc.202400011] [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: 01/03/2024] [Revised: 02/02/2024] [Accepted: 02/02/2024] [Indexed: 02/06/2024]
Abstract
Broadband microwave spectra of the isolated 2-ethylthiazole molecule, and complexes of 2-ethylthiazole⋅⋅⋅H2O and 2-ethylthiazole⋅⋅⋅(H2O)2 have been recorded by probing a gaseous sample containing low concentrations of 2-ethylthiazole and water within a carrier gas undergoing supersonic expansion. The identified conformer of the isolated 2-ethylthiazole molecule and the 2-ethylthiazole sub-unit within each of 2-ethylthiazole⋅⋅⋅H2O and 2-ethylthiazole⋅⋅⋅(H2O)2 have C1 symmetry. The angle that defines rotation of the ethyl group relative to the plane of the thiazole ring, ∠(S-C2-C6-C7), is -98.6(10)° within the isolated 2-ethylthiazole molecule. Analysis of molecular geometries and non-covalent interactions reveals each hydrate complex contains a non-linear primary, N⋅⋅⋅Hb-O, hydrogen bond between an O-H of H2O and the nitrogen atom while the O atom of the water molecule(s) interacts weakly with the ethyl group. The ∠(Hb⋅⋅⋅N-C2) parameter, which defines the position of the H2O molecule relative to the thiazole ring, is found to be significantly greater for 2-ethylthiazole⋅⋅⋅H2O than for thiazole⋅⋅⋅H2O. The distance between the O atoms is determined to be 2.894(21) Å within the dihydrate complex which is shorter than observed within the isolated water dimer. The primary hydrogen bond within 2-ethylthiazole⋅⋅⋅(H2O)2 is shorter and stronger than that in 2-ethylthiazole⋅⋅⋅H2O as a result of cooperative hydrogen bonding effects.
Collapse
Affiliation(s)
- Charlotte N Cummings
- Chemistry-School of Natural and Environmental Sciences, Newcastle University, Bedson, Building, NE1 7RU, U.K
| | - Nicholas R Walker
- Chemistry-School of Natural and Environmental Sciences, Newcastle University, Bedson, Building, NE1 7RU, U.K
| |
Collapse
|
4
|
Macario A, López JC, Blanco S. Molecular Structure of Salicylic Acid and Its Hydrates: A Rotational Spectroscopy Study. Int J Mol Sci 2024; 25:4074. [PMID: 38612884 PMCID: PMC11012204 DOI: 10.3390/ijms25074074] [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: 03/07/2024] [Revised: 04/01/2024] [Accepted: 04/03/2024] [Indexed: 04/14/2024] Open
Abstract
We present a study of salicylic acid and its hydrates, with up to four water molecules, done by employing chirped-pulse Fourier transform microwave spectroscopy. We employed the spectral data set of the parent, 13C, and 2H isotopologues to determine the molecular structure and characterize the intra- and intermolecular interactions of salicylic acid and its monohydrate. Complementary theoretical calculations were done to support the analysis of the experimental results. For the monomer, we analyzed structural properties, such as the angular-group-induced bond alternation (AGIBA) effect. In the microsolvates, we analyzed their main structural features dominated by the interaction of water with the carboxylic acid group. This work contributes to seeding information on how water molecules accumulate around this group. Moreover, we discussed the role of cooperative effects further stabilizing the observed inter- and intramolecular hydrogen bond interactions.
Collapse
Affiliation(s)
- Alberto Macario
- Departamento de Química Física y Química Inorgánica, Facultad de Ciencias, IU CINQUIMA, Universidad de Valladolid, 47011 Valladolid, Spain; (A.M.); (J.C.L.)
- Département de Physique Moléculaire, IPR (Institut de Physique de Rennes), CNRS-UMP 6251, Université de Rennes, F-35000 Rennes, France
| | - Juan Carlos López
- Departamento de Química Física y Química Inorgánica, Facultad de Ciencias, IU CINQUIMA, Universidad de Valladolid, 47011 Valladolid, Spain; (A.M.); (J.C.L.)
| | - Susana Blanco
- Departamento de Química Física y Química Inorgánica, Facultad de Ciencias, IU CINQUIMA, Universidad de Valladolid, 47011 Valladolid, Spain; (A.M.); (J.C.L.)
| |
Collapse
|
5
|
Li W, Heras D, Maris A, Melandri S, Lesarri A, Evangelisti L. A Rotational Study of 2-tert-Butylphenol and Its 1 : 1 Argon Complex. Chemphyschem 2024:e202400089. [PMID: 38502679 DOI: 10.1002/cphc.202400089] [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: 01/29/2024] [Revised: 03/15/2024] [Accepted: 03/18/2024] [Indexed: 03/21/2024]
Abstract
The chirped-pulse Fourier Transform microwave spectrum of 2-tert-butylphenol, an industrial intermediate for the production of antioxidants, has been investigated in the 2-8 GHz frequency range. The spectral analysis has allowed obtaining precise structural information on the most stable conformer and its complex with argon. The conformation of the monomer reveals that the hydroxyl group is coplanar with the ring but points in the opposite direction to the tert-butyl group, reducing steric interactions. In the tert-butyl group one methyl group is coplanar and the other two are symmetrically staggered respect to the ring. The complex shows the rare gas sitting above the aromatic ring. Interestingly, neither the monomer nor the complex exhibit large-amplitude hydroxyl torsion motions, previously observed in 2,6-disubstituted phenols such as 2,6-di-tert-butylphenol or propofol. The experimental results are supported by computational calculations, validating the molecular structure. Additionally, symmetry-adapted perturbation theory has allowed determining the van der Waals intermolecular interaction energy of the complex.
Collapse
Affiliation(s)
- Wenqin Li
- Departamento de Química Física y Química Inorgánica, Facultad de Ciencias -, I.U. CINQUIMA, Universidad de Valladolid, Paseo de Belén 7, 47011, Valladolid, Spain
| | - Domingo Heras
- Departamento de Química Física y Química Inorgánica, Facultad de Ciencias -, I.U. CINQUIMA, Universidad de Valladolid, Paseo de Belén 7, 47011, Valladolid, Spain
| | - Assimo Maris
- Department of Chemistry "G. Ciamician", University of Bologna, Via F. Selmi 2, 40126, Bologna, Italy
| | - Sonia Melandri
- Department of Chemistry "G. Ciamician", University of Bologna, Via F. Selmi 2, 40126, Bologna, Italy
| | - Alberto Lesarri
- Departamento de Química Física y Química Inorgánica, Facultad de Ciencias -, I.U. CINQUIMA, Universidad de Valladolid, Paseo de Belén 7, 47011, Valladolid, Spain
| | - Luca Evangelisti
- Department of Chemistry "G. Ciamician", University of Bologna, Via F. Selmi 2, 40126, Bologna, Italy
| |
Collapse
|
6
|
Tama Saragi R, Li W, Juanes M, Enríquez L, Pinacho R, Rubio JE, Lesarri A. Rotational Spectroscopy and Conformational Flexibility of 2-Phenylethanethiol: The Dominant S-H⋅⋅⋅π Intramolecular Hydrogen Bond. Chemphyschem 2024; 25:e202300799. [PMID: 38282167 DOI: 10.1002/cphc.202300799] [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: 10/27/2023] [Revised: 01/19/2024] [Accepted: 01/23/2024] [Indexed: 01/30/2024]
Abstract
We present a rotational-computational investigation of the aromatic mercaptan 2-phenylethanethiol, addressing its potential energy surface, conformational equilibrium, internal dynamics and intramolecular interactions. The experiment used broadband chirped-pulse Fourier transform microwave spectroscopy in a supersonic jet expansion, recording the rotational spectrum in the 2-8 GHz frequency region. Two different conformers were detected in the spectrum. The most intense transitions correspond to a skew (gauche-gauche) conformation, identified as the global minimum. The spectra of ten different isotopologues were assigned for this species, leading to accurate effective and substitution structures. The weaker spectrum presents small tunnelling doublings caused by the torsional motion of the thiol group, which are only compatible with an antiperiplanar skeleton and a gauche thiol. The larger stability of the global minimum is attributed to an intramolecular S-H⋅⋅⋅π weak hydrogen bond. A comparison of the intramolecular interactions in the title molecule and 2-phenylethanol, similarly stabilized by a O-H⋅⋅⋅π hydrogen bond, shows the different strength of these interactions. Density functional (B3LYP-D3, B2PLYP-D3) and ab initio (MP2) calculations were conducted for the molecule.
Collapse
Affiliation(s)
- Rizalina Tama Saragi
- Departamento de Química Física y Química Inorgánica -, I.U. CINQUIMA, Facultad de Ciencias, Universidad de Valladolid, Paseo de Belén 7, 47011, Valladolid, Spain
- Present address: Institut für Ionenphysik und Angewandte Chemie, Universität Innsbruck, Technikerstr. 25/4. OG, 6020, Innsbruck, Austria
| | - Wenqin Li
- Departamento de Química Física y Química Inorgánica -, I.U. CINQUIMA, Facultad de Ciencias, Universidad de Valladolid, Paseo de Belén 7, 47011, Valladolid, Spain
| | - Marcos Juanes
- Departamento de Química Física y Química Inorgánica -, I.U. CINQUIMA, Facultad de Ciencias, Universidad de Valladolid, Paseo de Belén 7, 47011, Valladolid, Spain
| | - Lourdes Enríquez
- Departamento de Electrónica, ETSIT, Universidad de Valladolid, Paseo de Belén 11, 47011, Valladolid, Spain
| | - Ruth Pinacho
- Departamento de Electrónica, ETSIT, Universidad de Valladolid, Paseo de Belén 11, 47011, Valladolid, Spain
| | - José Emiliano Rubio
- Departamento de Electrónica, ETSIT, Universidad de Valladolid, Paseo de Belén 11, 47011, Valladolid, Spain
| | - Alberto Lesarri
- Departamento de Química Física y Química Inorgánica -, I.U. CINQUIMA, Facultad de Ciencias, Universidad de Valladolid, Paseo de Belén 7, 47011, Valladolid, Spain
| |
Collapse
|
7
|
Fortenberry RC. A Vision for the Future of Astrochemistry in the Interstellar Medium by 2050. ACS Phys Chem Au 2024; 4:31-39. [PMID: 38283789 PMCID: PMC10811777 DOI: 10.1021/acsphyschemau.3c00043] [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] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/12/2023] [Revised: 11/14/2023] [Accepted: 11/16/2023] [Indexed: 01/30/2024]
Abstract
By 2050, many, but not nearly all, unattributed astronomical spectral features will be conclusively linked to molecular carriers (as opposed to nearly none today in the visible and IR); amino acids will have been observed remotely beyond our solar system; the largest observatories ever constructed on the surface of the Earth or launched beyond it will be operational; high-throughput computation either from brute force or machine learning will provide unprecedented amounts of reference spectral and chemical reaction data; and the chemical fingerprints of the universe delivered by those of us who call ourselves astrochemists will provide astrophysicists with unprecedented resolution for determining how the stars evolve, planets form, and molecules that lead to life originate. Astrochemistry is a relatively young field, but with the entire universe as its playground, the discipline promises to persist as long as telescopic observations are made that require reference data and complementary chemical modeling. While the recent commissionings of the James Webb Space Telescope and Atacama Large Millimeter Array are ushering in the second "golden age" of astrochemistry (with the first being the radio telescopic boom period of the 1970s), this current period of discovery should facilitate unprecedented advances within the next 25 years. Astrochemistry forces the asking of hard questions beyond the physical conditions of our "pale blue dot", and such questions require creative solutions that are influential beyond astrophysics. By 2050, more creative solutions will have been provided, but even more will be needed to answer the continuing question of our astrochemical ignorance.
Collapse
Affiliation(s)
- Ryan C. Fortenberry
- Department of Chemistry &
Biochemistry, University of Mississippi, University, Mississippi 38677-1848, United
States
| |
Collapse
|
8
|
Li W, Maris A, Melandri S, Lesarri A, Evangelisti L. The Structure of 2,6-Di- tert-butylphenol-Argon by Rotational Spectroscopy. Molecules 2023; 28:8111. [PMID: 38138596 PMCID: PMC10745844 DOI: 10.3390/molecules28248111] [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: 10/29/2023] [Revised: 11/27/2023] [Accepted: 12/12/2023] [Indexed: 12/24/2023] Open
Abstract
The molecular structure of a van der Waals-bonded complex involving 2,6-di-tert-butylphenol and a single argon atom has been determined through rotational spectroscopy. The experimentally derived structural parameters were compared to the outcomes of quantum chemical calculations that can accurately account for dispersive interactions in the cluster. The findings revealed a π-bound configuration for the complex, with the argon atom engaging the aromatic ring. The microwave spectrum reveals both fine and hyperfine tunneling components. The main spectral doubling is evident as two distinct clusters of lines, with an approximate separation of 179 MHz, attributed to the torsional motion associated with the hydroxyl group. Additionally, each component of this doublet further splits into three components, each with separations measuring less than 1 MHz. Investigation into intramolecular dynamics using a one-dimensional flexible model suggests that the main tunneling phenomenon originates from equivalent positions of the hydroxyl group. A double-minimum potential function with a barrier of 1000 (100) cm-1 effectively describes this extensive amplitude motion. However, the three-fold fine structure, potentially linked to internal motions within the tert-butyl group, requires additional scrutiny for a comprehensive understanding.
Collapse
Affiliation(s)
- Wenqin Li
- Departamento de Química Física y Química Inorgánica, Facultad de Ciencias—I.U. CINQUIMA, Universidad de Valladolid, Paseo de Belén 7, 47011 Valladolid, Spain;
| | - Assimo Maris
- Department of Chemistry “G. Ciamician”, University of Bologna, Via F. Selmi 2, 40126 Bologna, Italy; (A.M.); (S.M.)
| | - Sonia Melandri
- Department of Chemistry “G. Ciamician”, University of Bologna, Via F. Selmi 2, 40126 Bologna, Italy; (A.M.); (S.M.)
| | - Alberto Lesarri
- Departamento de Química Física y Química Inorgánica, Facultad de Ciencias—I.U. CINQUIMA, Universidad de Valladolid, Paseo de Belén 7, 47011 Valladolid, Spain;
| | - Luca Evangelisti
- Department of Chemistry “G. Ciamician”, University of Bologna, Via S. Alberto 163, 48123 Ravenna, Italy
| |
Collapse
|
9
|
Vang ZP, Sonstrom RE, Scolati HN, Clark JR, Pate BH. Assignment of the absolute configuration of molecules that are chiral by virtue of deuterium substitution using chiral tag molecular rotational resonance spectroscopy. Chirality 2023; 35:856-883. [PMID: 37277968 PMCID: PMC11102577 DOI: 10.1002/chir.23596] [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: 03/11/2023] [Revised: 05/10/2023] [Accepted: 05/16/2023] [Indexed: 06/07/2023]
Abstract
Chiral tag molecular rotational resonance (MRR) spectroscopy is used to assign the absolute configuration of molecules that are chiral by virtue of deuterium substitution. Interest in the improved performance of deuterated active pharmaceutical ingredients has led to the development of precision deuteration reactions. These reactions often generate enantioisotopomer reaction products that pose challenges for chiral analysis. Chiral tag rotational spectroscopy uses noncovalent derivatization of the enantioisotopomer to create the diastereomers of the 1:1 molecular complexes of the analyte and a small, chiral molecule. Assignment of the absolute configuration requires high-confidence determinations of the structures of these weakly bound complexes. A general search method, CREST, is used to identify candidate geometries. Subsequent geometry optimization using dispersion corrected density functional theory gives equilibrium geometries with sufficient accuracy to identify the isomers of the chiral tag complexes produced in the pulsed jet expansion used to introduce the sample into the MRR spectrometer. Rotational constant scaling based on the fact that the diastereomers have the same equilibrium geometry gives accurate predictions allowing identification of the homochiral and heterochiral tag complexes and, therefore, assignment of absolute configuration. The method is successfully applied to three oxygenated substrates from enantioselective Cu-catalyzed alkene transfer hydrodeuteration reaction chemistry.
Collapse
Affiliation(s)
- Zoua Pa Vang
- Department of Chemistry, Marquette University, Milwaukee, Wisconsin, USA
| | - Reilly E. Sonstrom
- Department of Chemistry, University of Virginia, Charlottesville, Virginia, USA
- BrightSpec Inc, Charlottesville, Virginia, USA
| | - Haley N. Scolati
- Department of Chemistry, University of Virginia, Charlottesville, Virginia, USA
| | - Joseph R. Clark
- Department of Chemistry, Marquette University, Milwaukee, Wisconsin, USA
| | - Brooks H. Pate
- Department of Chemistry, University of Virginia, Charlottesville, Virginia, USA
| |
Collapse
|
10
|
Pinacho P, Loru D, Šumanovac T, Šekutor M, Schnell M. Increasing Complexity in Adamantyl Thioethers Characterized by Rotational Spectroscopy. Chemphyschem 2023:e202300561. [PMID: 37673788 DOI: 10.1002/cphc.202300561] [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: 08/08/2023] [Revised: 09/04/2023] [Accepted: 09/06/2023] [Indexed: 09/08/2023]
Abstract
We report on the synthesis and characterization using high-resolution rotational spectroscopy of three bulky thioethers that feature an adamantyl group connected to a sulfur atom. Detailed experimental and theoretical structures are provided and compared with the 1,1'-diadamantyl ether. In addition, we expand on previous findings concerning microsolvation of adamantyl derivatives by investigating the cluster formation between these thioethers and a water molecule. The investigation of such clusters provides valuable insights into the sulfur-centered hydrogen bonding in thioethers with increasing size and steric repulsion.
Collapse
Affiliation(s)
- Pablo Pinacho
- Deutsches Elektronen-Synchrotron DESY, Notkestr. 85, 22607, Hamburg, Germany
- Present address: Physical Chemistry Department, University of the Basque Country (UPV/EHU) B° Sarriena, S/N, 48940, Leioa, Spain
| | - Donatella Loru
- Deutsches Elektronen-Synchrotron DESY, Notkestr. 85, 22607, Hamburg, Germany
| | - Tatjana Šumanovac
- Department of Organic Chemistry and Biochemistry, Ruđer Bošković Institute, Bijenička cesta 54, 10000, Zagreb, Croatia
| | - Marina Šekutor
- Department of Organic Chemistry and Biochemistry, Ruđer Bošković Institute, Bijenička cesta 54, 10000, Zagreb, Croatia
| | - Melanie Schnell
- Deutsches Elektronen-Synchrotron DESY, Notkestr. 85, 22607, Hamburg, Germany
- Christian-Albrechts-Universität zu Kiel, Institute of Physical Chemistry, Max-Eyth-Str. 1, 24118, Kiel, Germany
| |
Collapse
|
11
|
Sonstrom RE, Vang ZP, Scolati HN, Neill JL, Pate BH, Clark JR. Rapid Enantiomeric Excess Measurements of Enantioisotopomers by Molecular Rotational Resonance Spectroscopy. Org Process Res Dev 2023; 27:1185-1197. [PMID: 38046274 PMCID: PMC10691865 DOI: 10.1021/acs.oprd.3c00028] [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] [Indexed: 03/19/2023]
Abstract
Recent work in drug discovery has shown that selectively deuterated small molecules can improve the safety and efficacy for active pharmaceutical ingredients. The advantages derive from changes in metabolism resulting from the kinetic isotope effect when deuterium is substituted for a hydrogen atom at a structural position where rate limiting C-H bond breaking occurs. This application has pushed the development of precision deuteration strategies in synthetic chemistry that can install deuterium atoms with high regioselectivity and with stereocontrol. Copper-catalyzed alkene transfer hydrodeuteration chemistry has recently been shown to have high stereoselectivity for deuteration at the metabolically important benzyl C-H position. In this case, stereocontrol results in the creation of enantioisotopomers-molecules that are chiral solely by virtue of the deuterium substitution-and chiral analysis techniques are needed to assess the reaction selectivity. It was recently shown that chiral tag molecular rotational resonance (MRR) spectroscopy provides a routine way to measure the enantiomeric excess and establish the absolute configuration of enantioisotopomers. High-throughput implementations of chiral tag MRR spectroscopy are needed to support optimization of the chemical synthesis. A measurement methodology for high-throughput chiral analysis is demonstrated in this work. The high-throughput ee measurements are performed using cavity-enhanced MRR spectroscopy, which reduces measurement times and sample consumption by more than an order-of-magnitude compared to the previous enantioisotopomer analysis using a broadband MRR spectrometer. It is also shown that transitions for monitoring the enantiomers can be selected from a broadband rotational spectrum without the need for spectroscopic analysis. The general applicability of chiral tag MRR spectroscopy is illustrated by performing chiral analysis on six enantioisotopomer reaction products using a single molecule as the tag for chiral discrimination.
Collapse
Affiliation(s)
| | - Zoua Pa Vang
- Department of Chemistry, Marquette University, Milwaukee, Wisconsin 53233-1881, United States
| | - Haley N Scolati
- Department of Chemistry, University of Virginia, Charlottesville, Virginia 22904-4319, United States
| | - Justin L Neill
- BrightSpec Inc., Charlottesville, Virginia 22903, United States
| | - Brooks H Pate
- Department of Chemistry, University of Virginia, Charlottesville, Virginia 22904-4319, United States
| | - Joseph R Clark
- Department of Chemistry, Marquette University, Milwaukee, Wisconsin 53233-1881, United States
| |
Collapse
|
12
|
Steber AL, Temelso B, Kisiel Z, Schnell M, Pérez C. Rotational dive into the water clusters on a simple sugar substrate. Proc Natl Acad Sci U S A 2023; 120:e2214970120. [PMID: 36802430 PMCID: PMC9992814 DOI: 10.1073/pnas.2214970120] [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: 09/04/2022] [Accepted: 12/27/2022] [Indexed: 02/23/2023] Open
Abstract
Most biomolecular activity takes place in aqueous environments, and it is strongly influenced by the surrounding water molecules. The hydrogen bond networks that these water molecules form are likewise influenced by their interactions with the solutes, and thus, it is crucial to understand this reciprocal process. Glycoaldehyde (Gly), often considered the smallest sugar, represents a good template to explore the steps of solvation and determine how the organic molecule shapes the structure and hydrogen bond network of the solvating water cluster. Here, we report a broadband rotational spectroscopy study on the stepwise hydration of Gly with up to six water molecules. We reveal the preferred hydrogen bond networks formed when water molecules start to form three-dimensional (3D) topologies around an organic molecule. We observe that water self-aggregation prevails even in these early stages of microsolvation. These hydrogen bond networks manifest themselves through the insertion of the small sugar monomer in the pure water cluster in a way in which the oxygen atom framework and hydrogen bond network resemble those of the smallest three-dimensional pure water clusters. Of particular interest is the identification, in both the pentahydrate and hexahydrate, of the previously observed prismatic pure water heptamer motif. Our results show that some specific hydrogen bond networks are preferred and survive the solvation of a small organic molecule, mimicking those of pure water clusters. A many-body decomposition analysis of the interaction energy is also performed to rationalize the strength of a particular hydrogen bond, and it successfully confirms the experimental findings.
Collapse
Affiliation(s)
- Amanda L. Steber
- Deutsches Elektronen-Synchrotron (DESY), D-22607Hamburg, Germany
- Christian-Albrechts-Universität zu Kiel, Institute of Physical Chemistry, D-24118Kiel, Germany
- Departamento de Química Física y Química Inorgánica, Facultad de Ciencias & Instituto Universitario Centro de Innovación en Química y Materiales Avanzados, Universidad de Valladolid, ValladolidE-47011, Spain
| | - Berhane Temelso
- Division of Information Technology, College of Charleston, Charleston, SC29403
| | - Zbigniew Kisiel
- Institute of Physics, Polish Academy of Sciences, Warszawa02-668, Poland
| | - Melanie Schnell
- Deutsches Elektronen-Synchrotron (DESY), D-22607Hamburg, Germany
- Christian-Albrechts-Universität zu Kiel, Institute of Physical Chemistry, D-24118Kiel, Germany
| | - Cristóbal Pérez
- Deutsches Elektronen-Synchrotron (DESY), D-22607Hamburg, Germany
- Christian-Albrechts-Universität zu Kiel, Institute of Physical Chemistry, D-24118Kiel, Germany
- Departamento de Química Física y Química Inorgánica, Facultad de Ciencias & Instituto Universitario Centro de Innovación en Química y Materiales Avanzados, Universidad de Valladolid, ValladolidE-47011, Spain
| |
Collapse
|
13
|
Verde A, López JC, Blanco S. The Role of the Transient Atropisomerism and Chirality of Flurbiprofen Unveiled by Laser-Ablation Rotational Spectroscopy. Chemistry 2023; 29:e202300064. [PMID: 36827623 DOI: 10.1002/chem.202300064] [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: 01/09/2023] [Revised: 02/17/2023] [Accepted: 02/24/2023] [Indexed: 02/26/2023]
Abstract
The combination of atropisomerism and chirality in flurbiprofen is shown to be relevant concerning its pharmacological activity. The two most stable conformers of a total of eight theoretically predicted for each R- or S- flurbiprofen enantiomers have been isolated in the cooling conditions of a supersonic jet and structurally characterized by laser ablation Fourier transform microwave spectroscopy. The detected conformers, whose structure is mainly defined by three dihedral angles, only differ in the sign of the phenyl torsion angle giving rise to Sa and Ra atropisomers. A comparison with the structures available for the R- and S- enantiomers complexed to COX isoforms reveals that the enzymes select only the Sa atropisomers, resulting in a diastereoisomer-specific recognition. The most stable gas phase conformer is exclusively selected when using the S- enantiomer while the second is recognized only for the R- enantiomer. These experimental results highlight the importance of atropisomerism in drug design.
Collapse
Affiliation(s)
- Andrés Verde
- Department of Physical Chemistry, IU CINQUIMA, Facultad de Ciencias, Universidad de Valladolid, Paseo Belén 7, 47011, Valladolid, Spain
| | - Juan Carlos López
- Department of Physical Chemistry, IU CINQUIMA, Facultad de Ciencias, Universidad de Valladolid, Paseo Belén 7, 47011, Valladolid, Spain
| | - Susana Blanco
- Department of Physical Chemistry, IU CINQUIMA, Facultad de Ciencias, Universidad de Valladolid, Paseo Belén 7, 47011, Valladolid, Spain
| |
Collapse
|
14
|
Baweja S, Antonelli E, Hussain S, Fernández-Ramos A, Kleiner I, Nguyen HVL, Sanz ME. Revealing Internal Rotation and 14N Nuclear Quadrupole Coupling in the Atmospheric Pollutant 4-Methyl-2-nitrophenol: Interplay of Microwave Spectroscopy and Quantum Chemical Calculations. Molecules 2023; 28:molecules28052153. [PMID: 36903397 PMCID: PMC10004196 DOI: 10.3390/molecules28052153] [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: 01/31/2023] [Revised: 02/17/2023] [Accepted: 02/17/2023] [Indexed: 03/02/2023] Open
Abstract
The structure and interactions of oxygenated aromatic molecules are of atmospheric interest due to their toxicity and as precursors of aerosols. Here, we present the analysis of 4-methyl-2-nitrophenol (4MNP) using chirped pulse and Fabry-Pérot Fourier transform microwave spectroscopy in combination with quantum chemical calculations. The rotational, centrifugal distortion, and 14N nuclear quadrupole coupling constants of the lowest-energy conformer of 4MNP were determined as well as the barrier to methyl internal rotation. The latter has a value of 106.4456(8) cm-1, significantly larger than those from related molecules with only one hydroxyl or nitro substituent in the same para or meta positions, respectively, as 4MNP. Our results serve as a basis to understand the interactions of 4MNP with atmospheric molecules and the influence of the electronic environment on methyl internal rotation barrier heights.
Collapse
Affiliation(s)
- Shefali Baweja
- Department of Chemistry, King’s College London, Britannia House, 7 Trinity Street, London SE1 1DB, UK
| | - Eleonore Antonelli
- Université Paris Est Créteil and Université Paris Cité, CNRS, LISA, F-94010 Créteil, France
| | - Safia Hussain
- Department of Chemistry, King’s College London, Britannia House, 7 Trinity Street, London SE1 1DB, UK
| | - Antonio Fernández-Ramos
- Departamento de Química Física and Centro Singular de Investigación en Química Biolóxica e Materiais Moleculares (CIQUS), Jenaro de la Fuente s/n, Universidad de Santiago de Compostela, 15782 Santiago de Compostela, Spain
| | - Isabelle Kleiner
- Université Paris Cité and Université Paris Est Créteil, CNRS, LISA, F-75013 Paris, France
| | - Ha Vinh Lam Nguyen
- Université Paris Est Créteil and Université Paris Cité, CNRS, LISA, F-94010 Créteil, France
- Institut Universitaire de France (IUF), 1 rue Descartes, F-75231 Paris, France
- Correspondence: (H.V.L.N.); (M.E.S.)
| | - M. Eugenia Sanz
- Department of Chemistry, King’s College London, Britannia House, 7 Trinity Street, London SE1 1DB, UK
- Correspondence: (H.V.L.N.); (M.E.S.)
| |
Collapse
|
15
|
Kisiel Z, Habdas K. Electric Dipole Moments from Stark Effect in Supersonic Expansion: n-Propanol, n-Butanol, and n-Butyl Cyanide. Molecules 2023; 28:1692. [PMID: 36838680 PMCID: PMC9961461 DOI: 10.3390/molecules28041692] [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] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2023] [Revised: 02/06/2023] [Accepted: 02/07/2023] [Indexed: 02/12/2023] Open
Abstract
The orientation and magnitude of the molecular electric dipole moment are key properties relevant to topics ranging from the nature of intermolecular interactions to the quantitative analysis of complex gas-phase mixtures, such as chemistry in astrophysical environments. Stark effect measurements on rotational spectra have been the method of choice for isolated molecules but have become less common with the practical disappearance of Stark modulation spectrometers. Their role has been taken over by supersonic expansion measurements within a Fabry-Perot resonator cavity, which introduces specific technical problems that need to be overcome. Several of the adopted solutions are described and compared. Presently, we report precise electric dipole moment determinations for the two most stable conformers of the selected molecules of confirmed or potential astrophysical relevance: n-propanol, n-butanol, and n-butyl cyanide. All dipole moment components have been precisely determined at supersonic expansion conditions by employing specially designed Stark electrodes and a computer program for fitting the measured Stark shifts, inclusive of cases with resolved nuclear quadrupole hyperfine structure. The experimental values are compared with suitable quantum chemistry computations. It is found that, among the tested levels of computation, vibrationally averaged dipole moments are the closest to the observation and the molecular values are, as in the lighter molecules in the series, largely determined by the hydroxyl or nitrile groups.
Collapse
Affiliation(s)
- Zbigniew Kisiel
- Institute of Physics, Polish Academy of Sciences, Al. Lotników 32/46, 02-668 Warszawa, Poland
| | - Krzysztof Habdas
- Department of Chemistry, University College London, 20 Gordon Street, London WC1H 0AJ, UK
| |
Collapse
|
16
|
Barone V, Di Grande S, Puzzarini C. Toward Accurate yet Effective Computations of Rotational Spectroscopy Parameters for Biomolecule Building Blocks. Molecules 2023; 28:molecules28020913. [PMID: 36677970 PMCID: PMC9863398 DOI: 10.3390/molecules28020913] [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] [Figures] [Subscribe] [Scholar Register] [Received: 01/01/2023] [Revised: 01/01/2023] [Accepted: 01/12/2023] [Indexed: 01/19/2023]
Abstract
The interplay of high-resolution rotational spectroscopy and quantum-chemical computations plays an invaluable role in the investigation of biomolecule building blocks in the gas phase. However, quantum-chemical methods suffer from unfavorable scaling with the dimension of the system under consideration. While a complete characterization of flexible systems requires an elaborate multi-step strategy, in this work, we demonstrate that the accuracy obtained by quantum-chemical composite approaches in the prediction of rotational spectroscopy parameters can be approached by a model based on density functional theory. Glycine and serine are employed to demonstrate that, despite its limited cost, such a model is able to predict rotational constants with an accuracy of 0.3% or better, thus paving the way toward the accurate characterization of larger flexible building blocks of biomolecules.
Collapse
Affiliation(s)
- Vincenzo Barone
- Scuola Normale Superiore, Piazza dei Cavalieri 7, I-50126 Pisa, Italy
- Correspondence: (V.B.); (C.P.)
| | - Silvia Di Grande
- Scuola Normale Superiore, Piazza dei Cavalieri 7, I-50126 Pisa, Italy
- Scuola Superiore Meridionale, Largo San Marcellino 10, I-80138 Napoli, Italy
| | - Cristina Puzzarini
- Rotational and Computational Spectroscopy Lab, Department of Chemistry “Giacomo Ciamician”, University of Bologna, Via F. Selmi 2, I-40126 Bologna, Italy
- Correspondence: (V.B.); (C.P.)
| |
Collapse
|
17
|
Verde A, Blanco S, López JC. The Conformations of Isolated Gallic Acid: A Laser-Ablation Rotational Study. Molecules 2022; 28. [PMID: 36615353 DOI: 10.3390/molecules28010159] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/24/2022] [Revised: 12/15/2022] [Accepted: 12/22/2022] [Indexed: 12/29/2022]
Abstract
The rotational spectrum of laser-ablated gallic acid has been recorded using CP-FTMW spectroscopy. Two rotamers have been detected, and their rotational spectra have been assigned and analyzed to obtain the molecular spectroscopic parameters. The observed rotamers have been unambiguously identified in the light of theoretical computations, based on the comparison of the experimental line intensities and rotational parameters with the rotational constants and electric dipole moments predicted from theoretical calculations. The values of the planar inertial moments confirm that the observed conformers are planar, and their relative stability and population have been determined from relative intensity measurements. The B3LYP-D3/6-311++G(2d,p) level has been shown to be the best method among a series of levels normally used to predict the rotational parameters in rotational spectroscopy. In the observed conformers, the three adjacent OH groups are arranged in a sequential form, and the only difference between them lies in the orientation of the COOH group. Although weak attractive OH···O interactions seem to exist, the analysis of the electron density topology does not show the existence of any critical point corresponding to these interactions.
Collapse
|
18
|
Wu B, Seifert NA, Oswald S, Jäger W, Xu Y. Rotational Spectroscopy of the 2,2,3,3,3-Pentafluoropropanol⋅⋅⋅Water Complex: Conformations and Large Amplitude Motions. Chemphyschem 2022; 23:e202200348. [PMID: 35759723 DOI: 10.1002/cphc.202200348] [Citation(s) in RCA: 2] [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: 05/22/2022] [Revised: 06/24/2022] [Indexed: 11/08/2022]
Abstract
The 2,2,3,3,3-pentafluoropropanol (PFP) monomer can exist in five conformations defined by the CCCO and CCOH dihedral angles: four mirror-imaged pairs (G+g+/G-g-, G+g-/G-g+, G+t/G-t, Tg+/Tg-) and an achiral Tt form. We examined the conformational landscape of the PFP⋅⋅⋅water complex using chirped pulsed Fourier transform microwave spectroscopy and theoretical calculations. Rotational spectra of two PFP⋅⋅⋅water conformers, PFPG+g+⋅⋅⋅WH and PFPTg+⋅⋅⋅WH , and seven deuterated isotopologues of each, were assigned. Tunneling splittings were observed for both conformers and are attributed to the exchange of the bonded and non-bonded hydrogen atoms of water. On the other hand, the tunneling splitting associated with the OH flipping motion in PFPTg+/Tg- appears to be quenched upon hydrogen bonding with water. The large amplitude motions associated with the water subunits were examined in detail to explain the very different magnitudes of the experimental and theoretical permanent electric dipole moment components. The study highlights the challenge in correctly identifying the conformers observed when large amplitude motions are involved. Quantum theory of atoms in molecules (QTAIM) and non-covalent interaction (NCI) analyses, as well as electrostatic potential (ESP) calculations were carried out to explore the nature of the non-covalent interactions and to appreciate the effects of fluorination.
Collapse
Affiliation(s)
- Bowei Wu
- Department of Chemistry, University of Alberta, Edmonton, Alberta, T6G 2G2, Canada
| | - Nathan A Seifert
- Department of Chemistry, University of Alberta, Edmonton, Alberta, T6G 2G2, Canada.,Chemistry and Chemical & Biomedical Engineering Department University of New Haven, 300 Boston Post Rd, West Haven, CT, 06516, USA
| | - Sönke Oswald
- Department of Chemistry, University of Alberta, Edmonton, Alberta, T6G 2G2, Canada.,Institut für Physikalische Chemie, Georg-August-Universität Göttingen, Tammannstraße 6, 37077, Göttingen, Germany
| | - Wolfgang Jäger
- Department of Chemistry, University of Alberta, Edmonton, Alberta, T6G 2G2, Canada
| | - Yunjie Xu
- Department of Chemistry, University of Alberta, Edmonton, Alberta, T6G 2G2, Canada
| |
Collapse
|
19
|
Nguyen HVL, Caminati W, Grabow JU. The LAM of the Rings: Large Amplitude Motions in Aromatic Molecules Studied by Microwave Spectroscopy. Molecules 2022; 27:3948. [PMID: 35745072 DOI: 10.3390/molecules27123948] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2022] [Revised: 05/27/2022] [Accepted: 06/06/2022] [Indexed: 11/17/2022] Open
Abstract
Large amplitude motions (LAMs) form a fundamental phenomenon that demands the development of specific theoretical and Hamiltonian models. In recent years, along with the strong progress in instrumental techniques on high-resolution microwave spectroscopy and computational capacity in quantum chemistry, studies on LAMs have become very diverse. Larger and more complex molecular systems have been taken under investigation, ranging from series of heteroaromatic molecules from five- and six-membered rings to polycyclic-aromatic-hydrocarbon derivatives. Such systems are ideally suited to create families of molecules in which the positions and the number of LAMs can be varied, while the heteroatoms often provide a sufficient dipole moment to the systems to warrant the observation of their rotational spectra. This review will summarize three types of LAMs: internal rotation, inversion tunneling, and ring puckering, which are frequently observed in aromatic five-membered rings such as furan, thiophene, pyrrole, thiazole, and oxazole derivatives, in aromatic six-membered rings such as benzene, pyridine, and pyrimidine derivatives, and larger combined rings such as naphthalene, indole, and indan derivatives. For each molecular class, we will present the representatives and summarize the recent insights on the molecular structure and internal dynamics and how they help to advance the field of quantum mechanics.
Collapse
|
20
|
Melli A, Melosso M, Lengsfeld KG, Bizzocchi L, Rivilla VM, Dore L, Barone V, Grabow JU, Puzzarini C. Spectroscopic Characterization of 3-Aminoisoxazole, a Prebiotic Precursor of Ribonucleotides. Molecules 2022; 27:molecules27103278. [PMID: 35630755 PMCID: PMC9147597 DOI: 10.3390/molecules27103278] [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] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/02/2022] [Revised: 05/16/2022] [Accepted: 05/18/2022] [Indexed: 11/17/2022]
Abstract
The processes and reactions that led to the formation of the first biomolecules on Earth play a key role in the highly debated theme of the origin of life. Whether the first chemical building blocks were generated on Earth (endogenous synthesis) or brought from space (exogenous delivery) is still unanswered. The detection of complex organic molecules in the interstellar medium provides valuable support to the latter hypothesis. To gather more insight, here we provide the astronomers with accurate rotational frequencies to guide the interstellar search of 3-aminoisoxazole, which has been recently envisaged as a key reactive species in the scenario of the so-called RNA-world hypothesis. Relying on an accurate computational characterization, we were able to register and analyze the rotational spectrum of 3-aminoisoxazole in the 6–24 GHz and 80–320 GHz frequency ranges for the first time, exploiting a Fourier-transform microwave spectrometer and a frequency-modulated millimeter/sub-millimeter spectrometer, respectively. Due to the inversion motion of the −NH2 group, two states arise, and both of them were characterized, with more than 1300 lines being assigned. Although the fit statistics were affected by an evident Coriolis interaction, we were able to produce accurate line catalogs for astronomical observations of 3-aminoisoxazole.
Collapse
Affiliation(s)
- Alessio Melli
- Scuola Normale Superiore, Piazza dei Cavalieri 7, 56126 Pisa, Italy; (A.M.); (V.B.)
- Dipartimento di Chimica “Giacomo Ciamician”, Università di Bologna, Via F. Selmi 2, 40126 Bologna, Italy; (L.B.); (L.D.)
| | - Mattia Melosso
- Scuola Superiore Meridionale, Università di Napoli Federico II, Largo San Marcellino 10, 80138 Naples, Italy
- Correspondence: (M.M.); (C.P.)
| | - Kevin G. Lengsfeld
- Institut für Physikalische Chemie und Elektrochemie, Gottfried Wilhelm Leibniz Universität Hannover, Callinstraße 3A, 30167 Hannover, Germany; (K.G.L.); (J.-U.G.)
| | - Luca Bizzocchi
- Dipartimento di Chimica “Giacomo Ciamician”, Università di Bologna, Via F. Selmi 2, 40126 Bologna, Italy; (L.B.); (L.D.)
| | - Víctor M. Rivilla
- Centro de Astrobiología (CSIC-INTA), Ctra. de Ajalvir Km. 4, Torrejón de Ardoz, 28850 Madrid, Spain;
| | - Luca Dore
- Dipartimento di Chimica “Giacomo Ciamician”, Università di Bologna, Via F. Selmi 2, 40126 Bologna, Italy; (L.B.); (L.D.)
| | - Vincenzo Barone
- Scuola Normale Superiore, Piazza dei Cavalieri 7, 56126 Pisa, Italy; (A.M.); (V.B.)
| | - Jens-Uwe Grabow
- Institut für Physikalische Chemie und Elektrochemie, Gottfried Wilhelm Leibniz Universität Hannover, Callinstraße 3A, 30167 Hannover, Germany; (K.G.L.); (J.-U.G.)
| | - Cristina Puzzarini
- Dipartimento di Chimica “Giacomo Ciamician”, Università di Bologna, Via F. Selmi 2, 40126 Bologna, Italy; (L.B.); (L.D.)
- Correspondence: (M.M.); (C.P.)
| |
Collapse
|
21
|
Palmer CZ, Fortenberry RC, Francisco JS. Spectral Signatures of Hydrogen Thioperoxide (HOSH) and Hydrogen Persulfide (HSSH): Possible Molecular Sulfur Sinks in the Dense ISM. Molecules 2022; 27:3200. [PMID: 35630675 DOI: 10.3390/molecules27103200] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/08/2022] [Revised: 05/02/2022] [Accepted: 05/05/2022] [Indexed: 11/17/2022]
Abstract
For decades, sulfur has remained underdetected in molecular form within the dense interstellar medium (ISM), and somewhere a molecular sulfur sink exists where it may be hiding. With the discovery of hydrogen peroxide (HOOH) in the ISM in 2011, a natural starting point may be found in sulfur-bearing analogs that are chemically similar to HOOH: hydrogen thioperoxide (HOSH) and hydrogen persulfide (HSSH). The present theoretical study couples the accuracy in the anharmonic fundamental vibrational frequencies from the explicitly correlated coupled cluster theory with the accurate rotational constants provided by canonical high-level coupled cluster theory to produce rovibrational spectra for use in the potential observation of HOSH and HSSH. The ν6 mode for HSSH at 886.1 cm−1 is within 0.2 cm−1 of the gas-phase experiment, and the B0 rotational constant for HSSH of 6979.5 MHz is within 9.0 MHz of the experimental benchmarks, implying that the unknown spectral features (such as the first overtones and combination bands) provided herein are similarly accurate. Notably, a previous experimentally-attributed 2ν1 mode, at 7041.8 cm−1, has been reassigned to the ν1+ν5 combination band based on the present work’s ν1+ν5 value at 7034.3 cm−1. The most intense vibrational transitions for each molecule are the torsions, with HOSH having a more intense transition of 72 km/mol compared to HSSH’s intensity of 14 km/mol. Furthermore, HOSH has a larger net dipole moment of 1.60 D compared to HSSH’s 1.15 D. While HOSH may be the more likely candidate of the two for possible astronomical observation via vibrational spectroscopy due to the notable difference in their intensities, both HSSH and HOSH have large enough net dipole moments to be detectable by rotational spectroscopy to discover the role these molecules may have as possible molecular sulfur sinks in the dense ISM.
Collapse
|
22
|
Vigorito A, Calabrese C, Maris A, Loru D, Peña I, Sanz ME, Melandri S. The Shapes of Sulfonamides: A Rotational Spectroscopy Study. Molecules 2022; 27:molecules27092820. [PMID: 35566169 PMCID: PMC9101976 DOI: 10.3390/molecules27092820] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/10/2022] [Revised: 04/24/2022] [Accepted: 04/26/2022] [Indexed: 11/23/2022]
Abstract
Benzenesulfonamides are a class of molecules of extreme interest in the biochemical field because many of them are active against a variety of diseases. In this work, the pharmacophoric group benzensulfonamide, its derivatives para-toluensulfonamide and ortho-toluensulfonamide, and the bioactive molecule sulfanilamide, were investigated using rotational spectroscopy to determine their conformations and the influence of different substituents on their structures. For all species, the hyperfine structure due to the 14N atom was analyzed, and this provided crucial information for the unambiguous identification of the observed conformation of all molecules. In addition, for ortho-toluensulfonamide, the vibration–rotation hyperfine structure related to the methyl torsion was analyzed, and the methyl group rotation barrier was determined. For benzensulfonamide, partial rS and r0 structures were established from the experimental rotational constants of the parent and two deuterated isotopic species. In all compounds except ortho-toluensulfonamide, the amino group of the sulfonamide group lies perpendicular to the benzene plane with the aminic hydrogens eclipsing the oxygen atoms. In ortho-toluensulfonamide, where weak attractive interactions occur between the nitrogen lone pair and the methyl hydrogen atoms, the amino group lies in a gauche orientation, retaining the eclipsed configuration with respect to the SO2 frame. A comparison of the geometrical arrangements found in the PDB database allowed us to understand that the bioactive conformations are different from those found in isolated conditions. The conformations within the receptor are reached with an energy cost, which is balanced by the interactions established in the receptor.
Collapse
Affiliation(s)
- Annalisa Vigorito
- Dipartimento di Chimica “G. Ciamician” dell’Università, via Selmi 2, I-40126 Bologna, Italy; (A.V.); (C.C.); (A.M.)
| | - Camilla Calabrese
- Dipartimento di Chimica “G. Ciamician” dell’Università, via Selmi 2, I-40126 Bologna, Italy; (A.V.); (C.C.); (A.M.)
| | - Assimo Maris
- Dipartimento di Chimica “G. Ciamician” dell’Università, via Selmi 2, I-40126 Bologna, Italy; (A.V.); (C.C.); (A.M.)
| | - Donatella Loru
- Department of Chemistry, King’s College London, Britannia House, 7 Trinity Street, London SE1 1DB, UK; (D.L.); (I.P.); (M.E.S.)
| | - Isabel Peña
- Department of Chemistry, King’s College London, Britannia House, 7 Trinity Street, London SE1 1DB, UK; (D.L.); (I.P.); (M.E.S.)
| | - M. Eugenia Sanz
- Department of Chemistry, King’s College London, Britannia House, 7 Trinity Street, London SE1 1DB, UK; (D.L.); (I.P.); (M.E.S.)
| | - Sonia Melandri
- Dipartimento di Chimica “G. Ciamician” dell’Università, via Selmi 2, I-40126 Bologna, Italy; (A.V.); (C.C.); (A.M.)
- Correspondence:
| |
Collapse
|
23
|
Dang NN, Pham HN, Kleiner I, Schwell M, Grabow JU, Nguyen HVL. Methyl Internal Rotation in Fruit Esters: Chain-Length Effect Observed in the Microwave Spectrum of Methyl Hexanoate. Molecules 2022; 27:molecules27092639. [PMID: 35565991 PMCID: PMC9105109 DOI: 10.3390/molecules27092639] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2022] [Revised: 04/13/2022] [Accepted: 04/18/2022] [Indexed: 12/02/2022] Open
Abstract
The gas-phase structures of the fruit ester methyl hexanoate, CH3-O-(C=O)-C5H11, have been determined using a combination of molecular jet Fourier-transform microwave spectroscopy and quantum chemistry. The microwave spectrum was measured in the frequency range of 3 to 23 GHz. Two conformers were assigned, one with Cs symmetry and the other with C1 symmetry where the γ-carbon atom of the hexyl chain is in a gauche orientation in relation to the carbonyl bond. Splittings of all rotational lines into doublets were observed due to internal rotation of the methoxy methyl group CH3-O, from which torsional barriers of 417 cm−1 and 415 cm−1, respectively, could be deduced. Rotational constants obtained from geometry optimizations at various levels of theory were compared to the experimental values, confirming the soft degree of freedom of the (C=O)-C bond observed for the C1 conformer of shorter methyl alkynoates like methyl butyrate and methyl valerate. Comparison of the barriers to methyl internal rotation of methyl hexanoate to those of other CH3-O-(C=O)-R molecules leads to the conclusion that though the barrier height is relatively constant at about 420 cm−1, it decreases in molecules with longer R.
Collapse
Affiliation(s)
- Nhu-Ngoc Dang
- Department of Life Sciences, University of Science and Technology of Hanoi, Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet, Hanoi, Vietnam; (N.-N.D.); (H.-N.P.)
| | - Hoang-Nam Pham
- Department of Life Sciences, University of Science and Technology of Hanoi, Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet, Hanoi, Vietnam; (N.-N.D.); (H.-N.P.)
| | - Isabelle Kleiner
- Université Paris Cité and Univ Paris Est Creteil, CNRS, LISA, 75013 Paris, France;
| | - Martin Schwell
- Univ Paris Est Creteil and Université Paris Cité, CNRS, LISA, 94010 Créteil, France;
| | - Jens-Uwe Grabow
- Institut für Physikalische Chemie und Elektrochemie, Gottfried-Wilhelm-Leibniz-Universität Hannover, Callinstraße 3A, 30167 Hannover, Germany
- Correspondence: (J.-U.G.); (H.V.L.N.)
| | - Ha Vinh Lam Nguyen
- Univ Paris Est Creteil and Université Paris Cité, CNRS, LISA, 94010 Créteil, France;
- Institut Universitaire de France (IUF), 75231 Paris, France
- Correspondence: (J.-U.G.); (H.V.L.N.)
| |
Collapse
|
24
|
Juanes M, Saragi RT, Pérez C, Evangelisti L, Enríquez L, Jaraíz M, Lesarri A. Hydrogen Bonding in the Dimer and Monohydrate of 2-Adamantanol: A Test Case for Dispersion-Corrected Density Functional Methods. Molecules 2022; 27:molecules27082584. [PMID: 35458782 PMCID: PMC9030514 DOI: 10.3390/molecules27082584] [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] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/26/2022] [Revised: 04/10/2022] [Accepted: 04/15/2022] [Indexed: 11/29/2022]
Abstract
Weakly-bound intermolecular clusters constitute reductionist physical models for non-covalent interactions. Here we report the observation of the monomer, the dimer and the monohydrate of 2-adamantanol, a secondary alcohol with a bulky ten-carbon aliphatic skeleton. The molecular species were generated in a supersonic jet expansion and characterized using broadband chirped-pulse microwave spectroscopy in the 2–8 GHz frequency region. Two different gauche-gauche O-H···O hydrogen-bonded isomers were observed for the dimer of 2-adamantanol, while a single isomer was observed for the monomer and the monohydrate. The experimental rotational parameters were compared with molecular orbital calculations using density functional theory (B3LYP-D3(BJ), B2PLYP-D3(BJ), CAM-B3LYP-D3(BJ), ωB97XD), additionally providing energetic and electron density characterization. The shallow potential energy surface makes the dimer an interesting case study to benchmark dispersion-corrected computational methods and conformational search procedures.
Collapse
Affiliation(s)
- Marcos Juanes
- Departamento de Química Física y Química Inorgánica, Facultad de Ciencias—I.U. CINQUIMA, Universidad de Valladolid, Paseo de Belén, 7, 47011 Valladolid, Spain; (M.J.); (R.T.S.); (C.P.)
| | - Rizalina Tama Saragi
- Departamento de Química Física y Química Inorgánica, Facultad de Ciencias—I.U. CINQUIMA, Universidad de Valladolid, Paseo de Belén, 7, 47011 Valladolid, Spain; (M.J.); (R.T.S.); (C.P.)
| | - Cristóbal Pérez
- Departamento de Química Física y Química Inorgánica, Facultad de Ciencias—I.U. CINQUIMA, Universidad de Valladolid, Paseo de Belén, 7, 47011 Valladolid, Spain; (M.J.); (R.T.S.); (C.P.)
| | - Luca Evangelisti
- Dipartimento di Chimica ‘‘Giacomo Ciamician’’, Università di Bologna, Via Selmi, 2, 40126 Bologna, Italy;
| | - Lourdes Enríquez
- Departamento de Electrónica, Escuela Técnica Superior de Ingenieros de Telecomunicación, Universidad de Valladolid, Paseo de Belén, 15, 47011 Valladolid, Spain; (L.E.); (M.J.)
| | - Martín Jaraíz
- Departamento de Electrónica, Escuela Técnica Superior de Ingenieros de Telecomunicación, Universidad de Valladolid, Paseo de Belén, 15, 47011 Valladolid, Spain; (L.E.); (M.J.)
| | - Alberto Lesarri
- Departamento de Química Física y Química Inorgánica, Facultad de Ciencias—I.U. CINQUIMA, Universidad de Valladolid, Paseo de Belén, 7, 47011 Valladolid, Spain; (M.J.); (R.T.S.); (C.P.)
- Correspondence: ; Tel.: +34-983-185895
| |
Collapse
|
25
|
Insausti A, Ma J, Yang Q, Xie F, Xu Y. Rotational Spectroscopy of 2-Furoic Acid and Its Dimer: Conformational Distribution and Double Proton Tunneling. Chemphyschem 2022; 23:e202200176. [PMID: 35390214 DOI: 10.1002/cphc.202200176] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [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: 03/17/2022] [Revised: 04/06/2022] [Indexed: 01/18/2023]
Abstract
Structural and tunneling properties of the 2-furoic acid (FA) monomer and dimer were investigated using rotational spectroscopy and DFT calculations. CREST, a conformational ensemble space exploration tool, was used to identify all possible low energy conformations of the FA monomer and dimer, followed by the DFT geometry optimization and harmonic frequency calculations. Broadband rotational spectra in the 2-6 GHz and in the 8-12 GHz regions were recorded in a supersonic jet expansion. The monomeric FA was found to exist dominantly as three different conformers: I , II , and III in a jet, with I and II taking on the trans -COOH configuration while III having the cis -COOH configuration. For the FA dimer, only the I - II conformer was observed experimentally, whereas the symmetric I - I and II - II conformers were not observed because of their zero dipole moments. The analysis of the splittings in the rotational transitions of I - II allowed one to extract the tunneling splitting to be 1056.0(12) MHz. The barrier height was determined to be ~442 cm -1 using the scaled potential energy scans at several different levels of theory.
Collapse
Affiliation(s)
- Aran Insausti
- UPV/EHU: Universidad del Pais Vasco, Departamento de Química Física, SPAIN
| | - Jiarui Ma
- University of Alberta Department of Renewable Resources, Chemistry, CANADA
| | - Qian Yang
- University of Alberta, Chemistry, CANADA
| | - Fan Xie
- DESY Accelerator Centre: Deutsches Elektronen-Synchrotron, Spectroscopy of molecular processes, GERMANY
| | - Yunjie Xu
- University of Alberta Faculty of Science, Chemistry Department, 11227 Saskatchewan Drive, T6G 2G2, Edmonton, CANADA
| |
Collapse
|
26
|
López JC, Macario A, Verde A, Pérez-Encabo A, Blanco S. Decoding the Structure of Non-Proteinogenic Amino Acids: The Rotational Spectrum of Jet-Cooled Laser-Ablated Thioproline. Molecules 2021; 26:molecules26247585. [PMID: 34946666 PMCID: PMC8715752 DOI: 10.3390/molecules26247585] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2021] [Revised: 12/10/2021] [Accepted: 12/12/2021] [Indexed: 01/17/2023] Open
Abstract
The broadband rotational spectrum of jet-cooled laser-ablated thioproline was recorded. Two conformers of this system were observed and identified with the help of DFT and ab initio computations by comparison of the observed and calculated rotational constants and 14N quadrupole coupling constants as well as the predicted energies compared to the observed relative populations. These conformers showed a mixed bent/twisted arrangement of the five-membered ring similar to that of the related compound thiazolidine with the N–H bond in axial configuration. The most stable form had the COOH group in an equatorial position on the same side of the ring as N-H. The arrangement of the C=O group close to the N-H bond led to a weak interaction between them (classified as type I) characterized by a noncovalent interaction analysis. The second form had a trans-COOH arrangement showing a type II O–H···N hydrogen bond. In thioproline, the stability of conformers of type I and type II was reversed with respect to proline. We show how the conformation of the ring depends on the function associated with the endocyclic N atom when comparing the structures of isolated thioproline with its zwitterion observed in condensed phases and with peptide forms.
Collapse
Affiliation(s)
- Juan Carlos López
- Departamento de Química Física y Química Inorgánica, Facultad de Ciencias, IU CINQUIMA Universidad de Valladolid, 47011 Valladolid, Spain; (J.C.L.); or (A.M.); (A.V.)
| | - Alberto Macario
- Departamento de Química Física y Química Inorgánica, Facultad de Ciencias, IU CINQUIMA Universidad de Valladolid, 47011 Valladolid, Spain; (J.C.L.); or (A.M.); (A.V.)
| | - Andrés Verde
- Departamento de Química Física y Química Inorgánica, Facultad de Ciencias, IU CINQUIMA Universidad de Valladolid, 47011 Valladolid, Spain; (J.C.L.); or (A.M.); (A.V.)
| | - Alfonso Pérez-Encabo
- Departamento de Química Orgánica, Facultad de Ciencias, Universidad de Valladolid, 47011 Valladolid, Spain;
| | - Susana Blanco
- Departamento de Química Física y Química Inorgánica, Facultad de Ciencias, IU CINQUIMA Universidad de Valladolid, 47011 Valladolid, Spain; (J.C.L.); or (A.M.); (A.V.)
- Correspondence: ; Tel.: +34-983423272
| |
Collapse
|
27
|
Westbrook BR, Fortenberry RC. Anharmonic Vibrational Frequencies of Water Borane and Associated Molecules. Molecules 2021; 26:molecules26237348. [PMID: 34885929 PMCID: PMC8658819 DOI: 10.3390/molecules26237348] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2021] [Revised: 11/26/2021] [Accepted: 11/29/2021] [Indexed: 12/03/2022] Open
Abstract
Water borane (BH3OH2) and borinic acid (BH2OH) have been proposed as intermediates along the pathway of hydrogen generation from simple reactants: water and borane. However, the vibrational spectra for neither water borane nor borinic acid has been investigaged experimentally due to the difficulty of isolating them in the gas phase, making accurate quantum chemical predictions for such properties the most viable means of their determination. This work presents theoretical predictions of the full rotational and fundamental vibrational spectra of these two potentially application-rich molecules using quartic force fields at the CCSD(T)-F12b/cc-pCVTZ-F12 level with additional corrections included for the effects of scalar relativity. This computational scheme is further benchmarked against the available gas-phase experimental data for the related borane and HBO molecules. The differences are found to be within 3 cm−1 for the fundamental vibrational frequencies and as close as 15 MHz in the B0 and C0 principal rotational constants. Both BH2OH and BH3OH2 have multiple vibrational modes with intensities greater than 100 km mol−1, namely ν2 and ν4 in BH2OH, and ν1, ν3, ν4, ν9, and ν13 in BH3OH2. Finally, BH3OH2 has a large dipole moment of 4.24 D, which should enable it to be observable by rotational spectroscopy, as well.
Collapse
|
28
|
Li W, Tikhonov DS, Schnell M. Double Proton Transfer Across a Table: The Formic Acid Dimer-Fluorobenzene Complex. Angew Chem Int Ed Engl 2021; 60:25674-25679. [PMID: 34448334 PMCID: PMC9293461 DOI: 10.1002/anie.202108242] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2021] [Revised: 08/06/2021] [Indexed: 11/30/2022]
Abstract
Proton transfer via tunneling is a fundamental quantum‐mechanical phenomenon. We report rotational spectroscopy measurements of this process in the complex of the formic acid dimer with fluorobenzene. The assignment of the spectrum indicates that this complex exists in the form of a π–π stacked structure. Each rotational transition of the parent isotopologue exhibits splitting. Isotopic substitution experiments show that the spectral splitting results from double‐proton transfer tunneling in the formic acid dimer. Presence of fluorobenzene as a neighboring molecule does not quench the double proton transfer in the formic acid dimer but decreases its tunneling splitting from 341(3) MHz to 267.608(1) MHz. Calculations suggest that the presence of the weakly bounded fluorobenzene does not influence the activation energy of the proton transfer. The fluorobenzene is reoriented with respect to the formic acid dimer during the course of the reaction, slowing down the proton transfer motion.
Collapse
Affiliation(s)
- Weixing Li
- Deutsches Elektronen-Synchrotron DESY, Notkestr. 85, 22607, Hamburg, Germany.,Institute of Physical Chemistry, Christian-Albrechts-Universität zu Kiel, Max-Eyth-Str. 1, 24118, Kiel, Germany.,Current address: Department of Chemistry, Fudan University, Songhu Rd. 2005, 200438, Shanghai, China
| | - Denis S Tikhonov
- Deutsches Elektronen-Synchrotron DESY, Notkestr. 85, 22607, Hamburg, Germany.,Institute of Physical Chemistry, Christian-Albrechts-Universität zu Kiel, Max-Eyth-Str. 1, 24118, Kiel, Germany
| | - Melanie Schnell
- Deutsches Elektronen-Synchrotron DESY, Notkestr. 85, 22607, Hamburg, Germany.,Institute of Physical Chemistry, Christian-Albrechts-Universität zu Kiel, Max-Eyth-Str. 1, 24118, Kiel, Germany
| |
Collapse
|
29
|
Kraśnicki A, Kisiel Z, Guillemin JC. From Molecular to Cluster Properties: Rotational Spectroscopy of 2-Aminopyridine and of Its Biomimetic Cluster with Water. Molecules 2021; 26:6870. [PMID: 34833962 DOI: 10.3390/molecules26226870] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2021] [Revised: 11/04/2021] [Accepted: 11/05/2021] [Indexed: 11/16/2022] Open
Abstract
We report the observation and analysis of the rotational spectrum of a 1:1 cluster between 2-aminopyridine and water (AMW) carried out with supersonic expansion Fourier transform microwave spectroscopy at 4.7–16.5 GHz. Measurements of the 2-aminopyridine monomer (AMP) were also extended up to 333 GHz for the room-temperature rotational spectrum and to resolved hyperfine splitting resulting from the presence of two 14N quadrupolar nuclei. Supersonic expansion measurements for both AMP and AMW were also carried out for two synthesized isotopic species with single deuteration on the phenyl ring. Nuclear quadrupole hyperfine structure has also been resolved for AMW and the derived splitting constants were used as an aid in structural analysis. The structure of the AMW cluster was determined from the three sets of available rotational constants and the hydrogen bonding configuration is compared with those for clusters with water of similarly sized single-ring molecules. Experimental results aided by quantum chemistry computations allow the conclusion that the water molecule is unusually strongly bound by two hydrogen bonds, OH...N and O...HN, to the NCNH atomic chain of AMP with the potential to replace hydrogen bonds to the identical structural segment in cytosine and adenine in CT and AT nucleic acid base pairs.
Collapse
|
30
|
Kolesniková L, León I, Alonso ER, Mata S, Alonso JL. An Innovative Approach for the Generation of Species of the Interstellar Medium. Angew Chem Int Ed Engl 2021; 60:24461-24466. [PMID: 34496111 PMCID: PMC8597129 DOI: 10.1002/anie.202110325] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2021] [Revised: 09/02/2021] [Indexed: 11/16/2022]
Abstract
The large amount of unstable species in the realm of interstellar chemistry drives an urgent need to develop efficient methods for the in situ generations of molecules that enable their spectroscopic characterizations. Such laboratory experiments are fundamental to decode the molecular universe by matching the interstellar and terrestrial spectra. We propose an approach based on laser ablation of nonvolatile solid organic precursors. The generated chemical species are cooled in a supersonic expansion and probed by high‐resolution microwave spectroscopy. We present a proof of concept through a simultaneous formation of interstellar compounds and the first generation of aminocyanoacetylene using diaminomaleonitrile as a prototypical precursor. With this micro‐laboratory, we open the door to generation of unsuspected species using precursors not typically accessible to traditional techniques such as electric discharge and pyrolysis.
Collapse
Affiliation(s)
- Lucie Kolesniková
- Department of Analytical Chemistry, University of Chemistry and Technology, Technická 5, 16628, Prague 6, Czech Republic
| | - Iker León
- Grupo de Espectroscopia Molecular (GEM), Edificio Quifima, Área de Química-Física, Laboratorios de Espectroscopia y, Bioespectroscopia, Parque Científico UVa, Unidad Asociada CSIC, Universidad de Valladolid, 47011, Valladolid, Spain
| | - Elena R Alonso
- Instituto Biofisika (UPV/EHU, CSIC), University of the Basque Country, 48940, Leioa, Spain.,Departamento de Química Física, Facultad de Ciencia y Tecnología, Universidad del País Vasco, Barrio Sarriena s/n, 48940, Leioa, Spain
| | - Santiago Mata
- Grupo de Espectroscopia Molecular (GEM), Edificio Quifima, Área de Química-Física, Laboratorios de Espectroscopia y, Bioespectroscopia, Parque Científico UVa, Unidad Asociada CSIC, Universidad de Valladolid, 47011, Valladolid, Spain
| | - Jose Luis Alonso
- Grupo de Espectroscopia Molecular (GEM), Edificio Quifima, Área de Química-Física, Laboratorios de Espectroscopia y, Bioespectroscopia, Parque Científico UVa, Unidad Asociada CSIC, Universidad de Valladolid, 47011, Valladolid, Spain
| |
Collapse
|
31
|
Sonstrom RE, Neill JL, Mikhonin AV, Doetzer R, Pate BH. Chiral analysis of pantolactone with molecular rotational resonance spectroscopy. Chirality 2021; 34:114-125. [PMID: 34698412 DOI: 10.1002/chir.23379] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [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: 09/03/2021] [Revised: 09/27/2021] [Accepted: 09/30/2021] [Indexed: 11/07/2022]
Abstract
A molecular rotational resonance spectroscopy method for measuring the enantiomeric excess of pantolactone, an intermediate in the synthesis of panthenol and pantothenic acid, is presented. The enantiomers are distinguished via complexation with a small chiral tag molecule, which produces diastereomeric complexes in the pulsed jet expansion used to inject the sample into the spectrometer. These complexes have distinct moments of inertia, so their spectra are resolved by MRR spectroscopy. Quantitative enantiomeric excess (EE) measurements are made by taking the ratio of normalized complex signal levels when a chiral tag sample of high, known EE is used, while the absolute configuration of the sample can be determined from electronic structure calculations of the complex geometries. These measurements can be performed without the need for reference samples with known enantiopurity. Two instruments were used in the analysis. A broadband, chirped-pulse spectrometer is used to perform structural characterization of the complexes. The broadband spectrometer is also used to determine the EE; however, this approach requires relatively long measurement times. A targeted MRR spectrometer is also used to demonstrate EE analysis with approximately 15-min sample-to-sample cycle time. The quantitative accuracy of the method is demonstrated by comparison with chiral gas chromatography and through the measurement of a series of reference samples prepared from mixtures of (R)-pantolactone and (S)-pantolactone samples of known EE.
Collapse
Affiliation(s)
- Reilly E Sonstrom
- Department of Chemistry, University of Virginia, Charlottesville, Virginia, USA
- BrightSpec, Inc., Charlottesville, Virginia, USA
| | | | | | | | - Brooks H Pate
- Department of Chemistry, University of Virginia, Charlottesville, Virginia, USA
| |
Collapse
|
32
|
Li X, Spada L, Alessandrini S, Zheng Y, Lengsfeld KG, Grabow JU, Feng G, Puzzarini C, Barone V. Stacked but not Stuck: Unveiling the Role of π→π* Interactions with the Help of the Benzofuran-Formaldehyde Complex. Angew Chem Int Ed Engl 2021; 61:e202113737. [PMID: 34697878 PMCID: PMC9298890 DOI: 10.1002/anie.202113737] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2021] [Indexed: 12/14/2022]
Abstract
The 1:1 benzofuran–formaldehyde complex has been chosen as model system for analyzing π→π* interactions in supramolecular organizations involving heteroaromatic rings and carbonyl groups. A joint “rotational spectroscopy–quantum chemistry” strategy unveiled the dominant role of π→π* interactions in tuning the intermolecular interactions of such adduct. The exploration of the intermolecular potential energy surface led to the identification of 14 low‐energy minima, with 4 stacked isomers being more stable than those linked by hydrogen bond or lone‐pair→π interactions. All energy minima are separated by loose transition states, thus suggesting an effective relaxation to the global minimum under the experimental conditions. This expectation has been confirmed by the experimental detection of only one species, which was unambiguously assigned owing to the computation of accurate spectroscopic parameters and the characterization of 11 isotopologues. The large number of isotopic species opened the way to the determination of the first semi‐experimental equilibrium structure for a molecular complex of such a dimension.
Collapse
Affiliation(s)
- Xiaolong Li
- School of Chemistry and Chemical Engineering, Chongqing University, Daxuecheng South Rd. 55, Chongqing, 401331, China
| | - Lorenzo Spada
- Scuola Normale Superiore, Piazza dei Cavalieri 7, 56126, Pisa, Italy
| | - Silvia Alessandrini
- Scuola Normale Superiore, Piazza dei Cavalieri 7, 56126, Pisa, Italy.,Dipartimento di Chimica "Giacomo Ciamician", University of Bologna, Via F. Selmi 2, 40126, Bologna, Italy
| | - Yang Zheng
- School of Chemistry and Chemical Engineering, Chongqing University, Daxuecheng South Rd. 55, Chongqing, 401331, China
| | - Kevin Gregor Lengsfeld
- Institut für Physikalische Chemie and Elektrochemie, Gottfried Wilhelm Leibniz Universität Hannover, Callinstrasse 3A, 30167, Hannover, Germany
| | - Jens-Uwe Grabow
- Institut für Physikalische Chemie and Elektrochemie, Gottfried Wilhelm Leibniz Universität Hannover, Callinstrasse 3A, 30167, Hannover, Germany
| | - Gang Feng
- School of Chemistry and Chemical Engineering, Chongqing University, Daxuecheng South Rd. 55, Chongqing, 401331, China
| | - Cristina Puzzarini
- Dipartimento di Chimica "Giacomo Ciamician", University of Bologna, Via F. Selmi 2, 40126, Bologna, Italy
| | - Vincenzo Barone
- Scuola Normale Superiore, Piazza dei Cavalieri 7, 56126, Pisa, Italy
| |
Collapse
|
33
|
López JC, Macario A, Maris A, Alkorta I, Blanco S. How Aromatic Fluorination Exchanges the Interaction Role of Pyridine with Carbonyl Compounds: The Formaldehyde Adduct. Chemistry 2021; 27:13870-13878. [PMID: 34347915 PMCID: PMC8518414 DOI: 10.1002/chem.202102163] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2021] [Indexed: 11/11/2022]
Abstract
The rotational spectrum of the weakly bound complex pentafluoropyridine⋅⋅⋅formaldehyde has been investigated using Fourier transform microwave spectroscopy. From the analysis of the rotational parameters of the parent species and of the 13 C and 15 N isotopologues, the structural arrangement of the adduct has been unambiguously established. The full ring fluorination of pyridine has a dramatic effect on its binding properties: It alters the electron density distribution at the π-cloud of pyridine creating a π-hole and changing its electron donor-acceptor capabilities. In the complex, formaldehyde lies above the aromatic ring with one of the oxygen lone pairs, as conventionally envisaged, pointing toward its centre. This lone pair⋅⋅⋅π-hole interaction, reinforced by a weak C-H⋅⋅⋅N interaction, indicates an exchange of the electron-acceptor roles of both molecules when compared to the pyridine⋅⋅⋅formaldehyde adduct. Tunnelling doublets due to the internal rotation of formaldehyde have also been observed and analysed leading to a discussion on the competition between lone pair⋅⋅⋅π-hole and π⋅⋅⋅π stacking interactions.
Collapse
Affiliation(s)
- Juan Carlos López
- Departamento de Química Física y Química InorgánicaFacultad de CienciasIU CINQUIMAUniversidad de Valladolid47011ValladolidSpain
| | - Alberto Macario
- Departamento de Química Física y Química InorgánicaFacultad de CienciasIU CINQUIMAUniversidad de Valladolid47011ValladolidSpain
| | - Assimo Maris
- Dipartimento di Chimica “G. Ciamician”Università di BolognaVia Selmi 2I-40126BolognaItaly
| | - Ibon Alkorta
- Instituto de Química Médica (CSIC)Juan de la Cierva 328006MadridSpain
| | - Susana Blanco
- Departamento de Química Física y Química InorgánicaFacultad de CienciasIU CINQUIMAUniversidad de Valladolid47011ValladolidSpain
| |
Collapse
|
34
|
Abstract
The microwave spectrum of 2-acetyl-3-methylthiophene (2A3MT) was recorded in the frequency range from 2 to 26.5 GHz using a molecular jet Fourier transform microwave spectrometer and could be fully assigned to the anti-conformer of the molecule, while the syn-conformer was not observable. Torsional splittings of all rotational transitions in quintets due to internal rotations of the acetyl methyl and the ring methyl groups were resolved and analyzed, yielding barriers to internal rotation of 306.184(46) cm-1 and 321.813(64) cm-1 , respectively. The rotational and centrifugal distortion constants were determined with high accuracy, and the experimental values are compared to those derived from quantum chemical calculations. The experimentally determined inertial defect supports the conclusion that anti-2A3MT is planar, even though a number of MP2 calculations predicted the contrary.
Collapse
Affiliation(s)
- Christina Dindić
- Institute of Physical Chemistry, RWTH Aachen University, Landoltweg 2, 52074, Aachen, Germany
| | - Ha Vinh Lam Nguyen
- Univ Paris Est Creteil and Université de Paris, CNRS, LISA, 94010, Créteil, France.,Institut Universitaire de France (IUF), 75231, Paris cedex 05, France
| |
Collapse
|
35
|
Burevschi E, Sanz ME. Seven Conformations of the Macrocycle Cyclododecanone Unveiled by Microwave Spectroscopy. Molecules 2021; 26:molecules26175162. [PMID: 34500596 PMCID: PMC8433831 DOI: 10.3390/molecules26175162] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2021] [Revised: 08/15/2021] [Accepted: 08/21/2021] [Indexed: 11/16/2022] Open
Abstract
The physicochemical properties and reactivity of macrocycles are critically shaped by their conformations. In this work, we have identified seven conformations of the macrocyclic ketone cyclododecanone using chirped-pulse Fourier transform microwave spectroscopy in combination with ab initio and density functional theory calculations. Cyclododecanone is strongly biased towards adopting a square configuration of the heavy atom framework featuring three C-C bonds per side. The substitution and effective structures of this conformation have been determined through the observation of its 13C isotopologues. The minimisation of transannular interactions and, to a lesser extent, HCCH eclipsed configurations drive conformational preferences. Our results contribute to a better understanding of the intrinsic forces mediating structural choices in macrocycles.
Collapse
|
36
|
Calabrese C, Temelso B, Usabiaga I, Seifert NA, Basterretxea FJ, Prampolini G, Shields GC, Pate BH, Evangelisti L, Cocinero EJ. The Role of Non-Covalent Interactions on Cluster Formation: Pentamer, Hexamers and Heptamer of Difluoromethane. Angew Chem Int Ed Engl 2021; 60:16894-16899. [PMID: 34028158 PMCID: PMC8362204 DOI: 10.1002/anie.202103900] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2021] [Revised: 04/27/2021] [Indexed: 01/30/2023]
Abstract
The role of non-covalent interactions (NCIs) has broadened with the inclusion of new types of interactions and a plethora of weak donor/acceptor partners. This work illustrates the potential of chirped-pulse Fourier transform microwave technique, which has revolutionized the field of rotational spectroscopy. In particular, it has been exploited to reveal the role of NCIs' in the molecular self-aggregation of difluoromethane where a pentamer, two hexamers and a heptamer were detected. The development of a new automated assignment program and a sophisticated computational screening protocol was essential for identifying the homoclusters in conditions of spectral congestion. The major role of dispersion forces leads to less directional interactions and more distorted structures than those found in polar clusters, although a detailed analysis demonstrates that the dominant interaction energy is the pairwise interaction. The tetramer cluster is identified as a structural unit in larger clusters, representing the maximum expression of bond between dimers.
Collapse
Affiliation(s)
- Camilla Calabrese
- Departament of Physical ChemistryUniversity of the Basque Country (UPV/EHU)Barrio Sarriena, S/N48940LeioaSpain
- Instituto Biofisika (UPV/EHU, CSIC)48940LeioaSpain
- Fundación Biofísica Bizkaia/Biofisika Bizkaia Fundazioa (FBB)48940LeioaSpain
| | - Berhane Temelso
- George Mason UniversityInformation Technology ServicesFairfaxVA22030USA
| | - Imanol Usabiaga
- Departament of Physical ChemistryUniversity of the Basque Country (UPV/EHU)Barrio Sarriena, S/N48940LeioaSpain
- Instituto Biofisika (UPV/EHU, CSIC)48940LeioaSpain
- Dipartimento di Chimica “Giacomo Ciamician”Università degli Studi di Bolognavia S. Alberto 16348100RavennaItaly
| | - Nathan A. Seifert
- Department of ChemistryUniversity of VirginiaMcCormick RoadCharlottesvilleVA22903USA
| | - Francisco J. Basterretxea
- Departament of Physical ChemistryUniversity of the Basque Country (UPV/EHU)Barrio Sarriena, S/N48940LeioaSpain
| | - Giacomo Prampolini
- Istituto di Chimica dei Composti OrganoMetallici (ICCOM-CNR)Area della Ricercavia G. Moruzzi 156124PisaItaly
| | | | - Brooks H. Pate
- Department of ChemistryUniversity of VirginiaMcCormick RoadCharlottesvilleVA22903USA
| | - Luca Evangelisti
- Dipartimento di Chimica “Giacomo Ciamician”Università degli Studi di Bolognavia S. Alberto 16348100RavennaItaly
| | - Emilio J. Cocinero
- Departament of Physical ChemistryUniversity of the Basque Country (UPV/EHU)Barrio Sarriena, S/N48940LeioaSpain
- Instituto Biofisika (UPV/EHU, CSIC)48940LeioaSpain
| |
Collapse
|
37
|
Abstract
The unbiased, naked structures of tartaric acid, one of the most important organic compounds existing in nature and a candidate to be present in the interstellar medium, has been revealed in this work for the first time. Solid samples of its naturally occurring (R,R) enantiomer have been vaporized by laser ablation, expanded in a supersonic jet, and characterized by Fourier transform microwave spectroscopy. In the isolation conditions of the jet, we have discovered up to five different structures stabilized by intramolecular hydrogen-bond networks dominated by O-H⋅⋅⋅O=C and O-H⋅⋅⋅O motifs extended along the entire molecule. These five forms, two with an extended (trans) disposition of the carbon chain and three with a bent (gauche) disposition, can serve as a basis to represent the shape of tartaric acid. This work also reports the first set of spectroscopy data that can be used to detect tartaric acid in the interstellar medium.
Collapse
Affiliation(s)
- Elena R Alonso
- Instituto Biofisika (UPV/EHU, CSIC), University of the Basque Country, 48940, Leioa, Spain.,Departamento de Química Física, Facultad de Ciencia y Tecnología, Universidad del País Vasco, Barrio Sarriena s/n, 48940, Leioa, Spain
| | - Iker León
- Grupo de Espectroscopia Molecular (GEM), Edificio Quifima, Área de Química-Física, Laboratorios de Espectroscopia y Bioespectroscopia, Parque Científico UVa, Unidad Asociada CSIC, Universidad de Valladolid, 47011, Valladolid, Spain
| | - Lucie Kolesniková
- Department of Analytical Chemistry, University of Chemistry and Technology, Technická 5, 16628, Prague 6, Czech Republic
| | - Santiago Mata
- Grupo de Espectroscopia Molecular (GEM), Edificio Quifima, Área de Química-Física, Laboratorios de Espectroscopia y Bioespectroscopia, Parque Científico UVa, Unidad Asociada CSIC, Universidad de Valladolid, 47011, Valladolid, Spain
| | - Jose Luis Alonso
- Grupo de Espectroscopia Molecular (GEM), Edificio Quifima, Área de Química-Física, Laboratorios de Espectroscopia y Bioespectroscopia, Parque Científico UVa, Unidad Asociada CSIC, Universidad de Valladolid, 47011, Valladolid, Spain
| |
Collapse
|
38
|
Léon I, Tasinato N, Spada L, Alonso ER, Mata S, Balbi A, Puzzarini C, Alonso JL, Barone V. Looking for the Elusive Imine Tautomer of Creatinine: Different States of Aggregation Studied by Quantum Chemistry and Molecular Spectroscopy. Chempluschem 2021; 86:1374-1386. [PMID: 34255935 PMCID: PMC8519097 DOI: 10.1002/cplu.202100224] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2021] [Revised: 06/22/2021] [Indexed: 01/06/2023]
Abstract
New spectroscopic experiments and state-of-the-art quantum-chemical computations of creatinine in different aggregation states unequivocally unveiled a significant tuning of tautomeric equilibrium by the environment: from the exclusive presence of the amine tautomer in the solid state and aqueous solution to a mixture of amine and imine tautomers in the gas phase. Quantum-chemical calculations predict the amine species as the most stable tautomer by about 30 kJ mol-1 in condensed phases. On the contrary, moving to the isolated forms, both Z and E imine isomers become more stable by about 7 kJ mol-1 . Since the imine isomers and one amine tautomer are separated by significant energy barriers, all of them should be present in the gas phase. This prediction has indeed been confirmed by high-resolution rotational spectroscopy, which provides the first experimental characterization of the elusive imine tautomer. The interpretation of the complicated hyperfine structure of the rotational spectrum, originated by three 14 N nuclei, makes it possible to use the spectral signatures as a sort of fingerprint for each individual tautomer in the complex sample.
Collapse
Affiliation(s)
- Iker Léon
- Grupo de Espectroscopia Molecular (GEM), Edificio Quifima, Laboratorios de Espectroscopia y Bioespectroscopia Parque Cientifico UVa, Universidad de Valladolid, 47011, Valladolid, Spain
| | - Nicola Tasinato
- Scuola Normale Superiore, Piazza dei Cavalieri 7, I-56126, Pisa, Italy
| | - Lorenzo Spada
- Scuola Normale Superiore, Piazza dei Cavalieri 7, I-56126, Pisa, Italy.,Dipartimento di Chimica "Giacomo Ciamician", Alma Mater Studiorum -, Università di Bologna, Via Selmi 2, 40126, Bologna, Italy
| | - Elena R Alonso
- Grupo de Espectroscopia Molecular (GEM), Edificio Quifima, Laboratorios de Espectroscopia y Bioespectroscopia Parque Cientifico UVa, Universidad de Valladolid, 47011, Valladolid, Spain
| | - Santiago Mata
- Grupo de Espectroscopia Molecular (GEM), Edificio Quifima, Laboratorios de Espectroscopia y Bioespectroscopia Parque Cientifico UVa, Universidad de Valladolid, 47011, Valladolid, Spain
| | - Alice Balbi
- Scuola Normale Superiore, Piazza dei Cavalieri 7, I-56126, Pisa, Italy
| | - Cristina Puzzarini
- Dipartimento di Chimica "Giacomo Ciamician", Alma Mater Studiorum -, Università di Bologna, Via Selmi 2, 40126, Bologna, Italy
| | - Jose L Alonso
- Grupo de Espectroscopia Molecular (GEM), Edificio Quifima, Laboratorios de Espectroscopia y Bioespectroscopia Parque Cientifico UVa, Universidad de Valladolid, 47011, Valladolid, Spain
| | - Vincenzo Barone
- Scuola Normale Superiore, Piazza dei Cavalieri 7, I-56126, Pisa, Italy
| |
Collapse
|
39
|
Quesada-Moreno MM, Pinacho P, Pérez C, Šekutor M, Schreiner PR, Schnell M. Do Docking Sites Persist Upon Fluorination? The Diadamantyl Ether-Aromatics Challenge for Rotational Spectroscopy and Theory. Chemistry 2021; 27:6198-6203. [PMID: 33512017 PMCID: PMC8048501 DOI: 10.1002/chem.202100078] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2021] [Indexed: 12/28/2022]
Abstract
Fluorinated derivatives of biological molecules have proven to be highly efficient at modifying the biological activity of a given protein through changes in the stability and the kind of docking interactions. These interactions can be hindered or facilitated based on the hydrophilic/hydrophobic character of a particular protein region. Diadamantyl ether (C20H30O) possesses both kinds of docking sites, serving as a good template to model these important contacts with aromatic fluorinated counterparts. In this work, an experimental study on the structures of several complexes between diadamantyl ether and benzene as well as a series of fluorinated benzenes is reported to analyze the effect of H→F substitution on the interaction and structure of the resulting molecular clusters using rotational spectroscopy. All experimentally observed complexes are largely dominated by London dispersion interactions with the hydrogen‐terminated surface areas of diadamantyl ether. Already single substitution of one hydrogen atom with fluorine changes the preferred docking site of the complexes. However, the overall contributions of the different intermolecular interactions are similar for the different complexes, contrary to previous studies focusing on the difference in interactions using fluorinated and non‐fluorinated molecules.
Collapse
Affiliation(s)
| | - Pablo Pinacho
- Deutsches Elektronen-Synchrotron (DESY), Notkestr. 85, 22607, Hamburg, Germany
| | - Cristóbal Pérez
- Deutsches Elektronen-Synchrotron (DESY), Notkestr. 85, 22607, Hamburg, Germany
| | - Marina Šekutor
- Institute of Organic Chemistry, Justus Liebig University, Heinrich-Buff-Ring 17, 35392, Giessen, Germany
| | - Peter R Schreiner
- Institute of Organic Chemistry, Justus Liebig University, Heinrich-Buff-Ring 17, 35392, Giessen, Germany
| | - Melanie Schnell
- Deutsches Elektronen-Synchrotron (DESY), Notkestr. 85, 22607, Hamburg, Germany.,Institute of Physical Chemistry, Christian-Albrechts-Universität zu Kiel, Max-Eyth-Str. 1, 24118, Kiel, Germany
| |
Collapse
|
40
|
Xie F, Seifert NA, Hazrah AS, Jäger W, Xu Y. Conformational Landscape, Chirality Recognition and Chiral Analyses: Rotational Spectroscopy of Tetrahydro-2-Furoic Acid⋅⋅⋅Propylene Oxide Conformers. Chemphyschem 2021; 22:455-460. [PMID: 33453085 DOI: 10.1002/cphc.202000995] [Citation(s) in RCA: 3] [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: 12/08/2020] [Revised: 12/31/2020] [Indexed: 11/05/2022]
Abstract
A chiral adduct formed between a chiral carboxylic acid, tetrahydro-2-furoic acid (THFA), and a chiral ester, propylene oxide (PO), was investigated using rotational spectroscopy and DFT calculations. Isolated THFA exists dominantly as three different conformers: I, II, and III in a jet, with I and II taking on the trans-COOH configuration and III having the cis-COOH configuration. We utilized CREST, a conformational ensemble space exploration tool, to identify the possible conformations of the binary adduct, THFA⋅⋅⋅PO. Subsequent DFT geometry optimizations predicted about two hundred homochiral and heterochiral binary structures with 28 low energy structures within an energy window of 15 kJ mol-1 . A rich broadband rotational spectrum was obtained with a mixture of trace amounts of THFA+PO in neon in a supersonic jet expansion. Six THFA⋅⋅⋅PO conformers were identified experimentally. Kinetically favored binary products which contain trans-COOH I dominate among the observed conformers, while thermodynamically more stable adducts were also detected. Detailed analyses of the structures of the observed conformers show interesting chirality-controlled structural preferences. Such non-covalently bound chiral contact pairs are the foundation of chiral-tag rotational spectroscopy, an exciting new analytical application of rotational spectroscopy for determination of enantiomeric excess. Enantiomeric excess analyses were performed and the results are discussed.
Collapse
Affiliation(s)
- Fan Xie
- Department of Chemistry, University of Alberta Edmonton, Alberta, T6G 2G2, Canada
| | - Nathan A Seifert
- Current address: Chemical Sciences and Engineering Division, Argonne National Laboratory, Argonne, IL 60439, USA
| | - Arsh S Hazrah
- Department of Chemistry, University of Alberta Edmonton, Alberta, T6G 2G2, Canada
| | - Wolfgang Jäger
- Department of Chemistry, University of Alberta Edmonton, Alberta, T6G 2G2, Canada
| | - Yunjie Xu
- Department of Chemistry, University of Alberta Edmonton, Alberta, T6G 2G2, Canada
| |
Collapse
|
41
|
Li W, Quesada-Moreno MM, Pinacho P, Schnell M. Unlocking the Water Trimer Loop: Isotopic Study of Benzophenone-(H 2 O) 1-3 Clusters with Rotational Spectroscopy. Angew Chem Int Ed Engl 2021; 60:5323-5330. [PMID: 33289239 PMCID: PMC7986920 DOI: 10.1002/anie.202013899] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2020] [Indexed: 12/16/2022]
Abstract
Examined here are the structures of complexes of benzophenone microsolvated with up to three water molecules by using broadband rotational spectroscopy and the cold conditions of a molecular jet. The analysis shows that the water molecules dock sideways on benzophenone for the water monomer and dimer moieties, and they move above one of the aromatic rings when the water cluster grows to the trimer. The rotational spectra shows that the water trimer moiety in the complex adopts an open‐loop arrangement. Ab initio calculations face a dilemma of identifying the global minimum between the open loop and the closed loop, which is only solved when zero‐point vibrational energy correction is applied. An OH⋅⋅⋅π bond and a Bürgi‐Dunitz interaction between benzophenone and the water trimer are present in the cluster. This work shows the subtle balance between water–water and water–solute interactions when the solute molecule offers several different anchor sites for water molecules.
Collapse
Affiliation(s)
- Weixing Li
- Deutsches Elektronen-Synchrotron, Notkestrasse 85, 22607, Hamburg, Germany
| | | | - Pablo Pinacho
- Deutsches Elektronen-Synchrotron, Notkestrasse 85, 22607, Hamburg, Germany
| | - Melanie Schnell
- Deutsches Elektronen-Synchrotron, Notkestrasse 85, 22607, Hamburg, Germany.,Christian-Albrechts-Universität zu Kiel, Institute of Physical Chemistry, Max-Eyth-Str. 1, 24118, Kiel, Germany
| |
Collapse
|
42
|
Cheng W, Zheng Y, Herbers S, Zheng H, Gou Q. Conformational Equilibria of 2-Methoxypyridine⋅⋅⋅CO 2 : Cooperative and Competitive Tetrel and Weak Hydrogen Bonds. Chemphyschem 2021; 22:154-159. [PMID: 33315294 DOI: 10.1002/cphc.202000910] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [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: 11/02/2020] [Revised: 11/16/2020] [Indexed: 11/11/2022]
Abstract
The rotational spectrum of 2-methoxypyridine⋅⋅⋅CO2 was recorded and analysed employing a cavity-based Fourier transform microwave spectrometer, complemented with quantum chemical calculations which predicted three possible isomers within energies less than 1000 cm-1 . The two most stable isomers were observed in the pulsed jet, which are stabilized by a network of C⋅⋅⋅N/O tetrel and C-H⋅⋅⋅O weak hydrogen bonds. The relative population ratio of the two detected isomers was estimated to be NI /NII ≈2.5. The competition and cooperation of the present non-covalent interactions in both isomers are discussed within the framework of Bader's quantum theory of atoms in molecules and Johnson's non-covalent interaction analyses. The study shows, that when looking for CO2 adsorbents, one might prefer candidates with multiple interactions in one site over candidates with few but strong interactions.
Collapse
Affiliation(s)
- Wanying Cheng
- Department of Chemistry, School of Chemistry and Chemical Engineering, Chongqing University, No.55 Daxuecheng South Rd., Shapingba, 401331, Chongqing, China
| | - Yang Zheng
- Department of Chemistry, School of Chemistry and Chemical Engineering, Chongqing University, No.55 Daxuecheng South Rd., Shapingba, 401331, Chongqing, China
| | - Sven Herbers
- Department of Chemistry, School of Chemistry and Chemical Engineering, Chongqing University, No.55 Daxuecheng South Rd., Shapingba, 401331, Chongqing, China
| | - Huaili Zheng
- Key Laboratory of the Three Gorges Reservoir Region's Eco-Environment, State Ministry of Education, Chongqing University, No.83 Shabei Str., Shapingba, 400045, Chongqing, China
| | - Qian Gou
- Department of Chemistry, School of Chemistry and Chemical Engineering, Chongqing University, No.55 Daxuecheng South Rd., Shapingba, 401331, Chongqing, China
| |
Collapse
|
43
|
Saxena S, Panchagnula S, Sanz ME, Pérez C, Evangelisti L, Pate BH. Structural Changes Induced by Quinones: High-Resolution Microwave Study of 1,4-Naphthoquinone. Chemphyschem 2020; 21:2579-2584. [PMID: 32954594 PMCID: PMC7756206 DOI: 10.1002/cphc.202000665] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2020] [Revised: 08/26/2020] [Indexed: 12/20/2022]
Abstract
1,4-Naphthoquinone (1,4-NQ) is an important product of naphthalene oxidation, and it appears as a motif in many biologically active compounds. We have investigated the structure of 1,4-NQ using chirped-pulse Fourier transform microwave spectroscopy and quantum chemistry calculations. The rotational spectra of the parent species, and its 13 C and 18 O isotopologues were observed in natural abundance, and their spectroscopic parameters were obtained. This allowed the determination of the substitution rs , mass-weighted rm and semi-experimental reSE structures of 1,4-NQ. The obtained structural parameters show that the quinone moiety mainly changes the structure of the benzene ring where it is inserted, modifying the C-C bonds to having predominantly single or double bond character. Furthermore, the molecular electrostatic surface potential reveals that the quinone ring becomes electron deficient while the benzene ring remains a nucleophile. The most electrophilic areas are the hydrogens attached to the double bond in the quinone ring. Knowledge of the nucleophilic and electrophilic areas in 1,4-NQ will help understanding its behaviour interacting with other molecules and guide modifications to tune its properties.
Collapse
Affiliation(s)
- Shefali Saxena
- Department of ChemistryKing's College LondonLondonUnited Kingdom
| | | | - M. Eugenia Sanz
- Department of ChemistryKing's College LondonLondonUnited Kingdom
| | - Cristóbal Pérez
- Department of ChemistryUniversity of VirginiaCharlottesvilleVAUSA
| | - Luca Evangelisti
- Department of ChemistryUniversity of VirginiaCharlottesvilleVAUSA
- Department of Chemistry “G. Ciamician”University of BolognaVia Selmi 2Bologna40126Italy
| | - Brooks H. Pate
- Department of ChemistryUniversity of VirginiaCharlottesvilleVAUSA
| |
Collapse
|
44
|
Melli A, Potenti S, Melosso M, Herbers S, Spada L, Gualandi A, Lengsfeld KG, Dore L, Buschmann P, Cozzi PG, Grabow J, Barone V, Puzzarini C. A Journey from Thermally Tunable Synthesis to Spectroscopy of Phenylmethanimine in Gas Phase and Solution. Chemistry 2020; 26:15016-15022. [PMID: 32717136 PMCID: PMC7756512 DOI: 10.1002/chem.202003270] [Citation(s) in RCA: 4] [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] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2020] [Indexed: 11/11/2022]
Abstract
Phenylmethanimine is an aromatic imine with a twofold relevance in chemistry: organic synthesis and astrochemistry. To tackle both aspects, a multidisciplinary strategy has been exploited and a new, easily accessible synthetic approach to generate stable imine-intermediates in the gas phase and in solution has been introduced. The combination of this formation pathway, based on the thermal decomposition of hydrobenzamide, with a state-of-the-art computational characterization of phenylmethanimine laid the foundation for its first laboratory observation by means of rotational electric resonance spectroscopy. Both E and Z isomers have been accurately characterized, thus providing a reliable basis to guide future astronomical observations. A further characterization has been carried out by nuclear magnetic resonance spectroscopy, showing the feasibility of this synthetic approach in solution. The temperature dependence as well as possible mechanisms of the thermolysis process have been examined.
Collapse
Affiliation(s)
- Alessio Melli
- Scuola Normale SuperiorePiazza dei Cavalieri 756126PisaItaly
- Dipartimento di Chimica “Giacomo Ciamician”Universitá di BolognaVia Selmi 240126BolognaItaly
| | - Simone Potenti
- Scuola Normale SuperiorePiazza dei Cavalieri 756126PisaItaly
- Dipartimento di Chimica “Giacomo Ciamician”Universitá di BolognaVia Selmi 240126BolognaItaly
| | - Mattia Melosso
- Dipartimento di Chimica “Giacomo Ciamician”Universitá di BolognaVia Selmi 240126BolognaItaly
| | - Sven Herbers
- Institut für Physikalische Chemie und ElektrochemieGottfried Wilhelm Leibniz Universität HannoverCallinstraße 3A30167HannoverGermany
| | - Lorenzo Spada
- Scuola Normale SuperiorePiazza dei Cavalieri 756126PisaItaly
- Dipartimento di Chimica “Giacomo Ciamician”Universitá di BolognaVia Selmi 240126BolognaItaly
| | - Andrea Gualandi
- Dipartimento di Chimica “Giacomo Ciamician”Universitá di BolognaVia Selmi 240126BolognaItaly
| | - Kevin G. Lengsfeld
- Institut für Physikalische Chemie und ElektrochemieGottfried Wilhelm Leibniz Universität HannoverCallinstraße 3A30167HannoverGermany
| | - Luca Dore
- Dipartimento di Chimica “Giacomo Ciamician”Universitá di BolognaVia Selmi 240126BolognaItaly
| | - Philipp Buschmann
- Institut für Physikalische Chemie und ElektrochemieGottfried Wilhelm Leibniz Universität HannoverCallinstraße 3A30167HannoverGermany
| | - Pier Giorgio Cozzi
- Dipartimento di Chimica “Giacomo Ciamician”Universitá di BolognaVia Selmi 240126BolognaItaly
| | - Jens‐Uwe Grabow
- Institut für Physikalische Chemie und ElektrochemieGottfried Wilhelm Leibniz Universität HannoverCallinstraße 3A30167HannoverGermany
| | - Vincenzo Barone
- Scuola Normale SuperiorePiazza dei Cavalieri 756126PisaItaly
| | - Cristina Puzzarini
- Dipartimento di Chimica “Giacomo Ciamician”Universitá di BolognaVia Selmi 240126BolognaItaly
| |
Collapse
|
45
|
Lei J, Alessandrini S, Chen J, Zheng Y, Spada L, Gou Q, Puzzarini C, Barone V. Rotational Spectroscopy Meets Quantum Chemistry for Analyzing Substituent Effects on Non-Covalent Interactions: The Case of the Trifluoroacetophenone-Water Complex. Molecules 2020; 25:E4899. [PMID: 33113920 PMCID: PMC7660205 DOI: 10.3390/molecules25214899] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2020] [Revised: 10/20/2020] [Accepted: 10/21/2020] [Indexed: 01/01/2023] Open
Abstract
The most stable isomer of the 1:1 complex formed by 2,2,2-trifluoroacetophenone and water has been characterized by combining rotational spectroscopy in supersonic expansion and state-of-the-art quantum-chemical computations. In the observed isomer, water plays the double role of proton donor and acceptor, thus forming a seven-membered ring with 2,2,2-trifluoroacetophenone. Accurate intermolecular parameters featuring one classical O-H···O hydrogen bond and one weak C-H···O hydrogen bond have been determined by means of a semi-experimental approach for equilibrium structure. Furthermore, insights on the nature of the established non-covalent interactions have been unveiled by means of different bond analyses. The comparison with the analogous complex formed by acetophenone with water points out the remarkable role played by fluorine atoms in tuning non-covalent interactions.
Collapse
Affiliation(s)
- Juncheng Lei
- Department of Chemistry, School of Chemistry and Chemical Engineering, Chongqing University, Daxuecheng South Rd. 55, Chongqing 401331, China; (J.L.); (J.C.); (Y.Z.)
| | - Silvia Alessandrini
- Scuola Normale Superiore, Piazza dei Cavalieri 7, I-56126 Pisa, Italy;
- Department of Chemistry “Giacomo Ciamician”, University of Bologna, Via Selmi 2, 40126 Bologna, Italy;
| | - Junhua Chen
- Department of Chemistry, School of Chemistry and Chemical Engineering, Chongqing University, Daxuecheng South Rd. 55, Chongqing 401331, China; (J.L.); (J.C.); (Y.Z.)
| | - Yang Zheng
- Department of Chemistry, School of Chemistry and Chemical Engineering, Chongqing University, Daxuecheng South Rd. 55, Chongqing 401331, China; (J.L.); (J.C.); (Y.Z.)
| | - Lorenzo Spada
- Scuola Normale Superiore, Piazza dei Cavalieri 7, I-56126 Pisa, Italy;
| | - Qian Gou
- Department of Chemistry, School of Chemistry and Chemical Engineering, Chongqing University, Daxuecheng South Rd. 55, Chongqing 401331, China; (J.L.); (J.C.); (Y.Z.)
| | - Cristina Puzzarini
- Department of Chemistry “Giacomo Ciamician”, University of Bologna, Via Selmi 2, 40126 Bologna, Italy;
| | - Vincenzo Barone
- Scuola Normale Superiore, Piazza dei Cavalieri 7, I-56126 Pisa, Italy;
| |
Collapse
|
46
|
Barone V, Ceselin G, Fusè M, Tasinato N. Accuracy Meets Interpretability for Computational Spectroscopy by Means of Hybrid and Double-Hybrid Functionals. Front Chem 2020; 8:584203. [PMID: 33195078 PMCID: PMC7645164 DOI: 10.3389/fchem.2020.584203] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2020] [Accepted: 08/17/2020] [Indexed: 11/13/2022] Open
Abstract
Accuracy and interpretability are often seen as the devil and holy grail in computational spectroscopy and their reconciliation remains a primary research goal. In the last few decades, density functional theory has revolutionized the situation, paving the way to reliable yet effective models for medium size molecules, which could also be profitably used by non-specialists. In this contribution we will compare the results of some widely used hybrid and double hybrid functionals with the aim of defining the most suitable recipe for all the spectroscopic parameters of interest in rotational and vibrational spectroscopy, going beyond the rigid rotor/harmonic oscillator model. We will show that last-generation hybrid and double hybrid functionals in conjunction with partially augmented double- and triple-zeta basis sets can offer, in the framework of second order vibrational perturbation theory, a general, robust, and user-friendly tool with unprecedented accuracy for medium-size semi-rigid molecules.
Collapse
Affiliation(s)
- Vincenzo Barone
- SMART Laboratory, Scuola Normale Superiore di Pisa, Pisa, Italy
| | - Giorgia Ceselin
- SMART Laboratory, Scuola Normale Superiore di Pisa, Pisa, Italy
| | - Marco Fusè
- SMART Laboratory, Scuola Normale Superiore di Pisa, Pisa, Italy
| | - Nicola Tasinato
- SMART Laboratory, Scuola Normale Superiore di Pisa, Pisa, Italy
| |
Collapse
|
47
|
Xie F, Fusè M, Hazrah AS, Jäger W, Barone V, Xu Y. Discovering the Elusive Global Minimum in a Ternary Chiral Cluster: Rotational Spectra of Propylene Oxide Trimer. Angew Chem Int Ed Engl 2020; 59:22427-22430. [PMID: 32896062 PMCID: PMC7984290 DOI: 10.1002/anie.202010055] [Citation(s) in RCA: 27] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2020] [Indexed: 12/31/2022]
Abstract
The chirality controlled conformational landscape of the trimer of propylene oxide (PO), a prototypical chiral molecule, was investigated using rotational spectroscopy and a range of theoretical tools for conformational searches and for evaluating vibrational contributions to effective structures. Two sets of homochiral (PO)3 rotational transitions were assigned and the associated conformers identified with theoretical support. One set of heterochiral (PO)3 transitions was assigned, but no structures generated by one of the latest, advanced conformational search codes could account for them. With the aid of a Python program, the carbon atom backbone and then the heterochiral (PO)3 structure were generated using 13C isotopic data. Excellent agreement between theoretical and experimental rotational constants and relative dipole moment components of all three conformers was achieved, especially after applying vibrational corrections to the rotational constants.
Collapse
Affiliation(s)
- Fan Xie
- Department of Chemistry, University of Alberta, Edmonton, Alberta, T6G 2G2, Canada
| | - Marco Fusè
- Scuola Normale Superiore, Piazza dei Cavalieri 7, 56126, Pisa, Italy
| | - Arsh S Hazrah
- Department of Chemistry, University of Alberta, Edmonton, Alberta, T6G 2G2, Canada
| | - Wolfgang Jäger
- Department of Chemistry, University of Alberta, Edmonton, Alberta, T6G 2G2, Canada
| | - Vincenzo Barone
- Scuola Normale Superiore, Piazza dei Cavalieri 7, 56126, Pisa, Italy
| | - Yunjie Xu
- Department of Chemistry, University of Alberta, Edmonton, Alberta, T6G 2G2, Canada
| |
Collapse
|
48
|
Burevschi E, Alonso ER, Sanz ME. Binding Site Switch by Dispersion Interactions: Rotational Signatures of Fenchone-Phenol and Fenchone-Benzene Complexes. Chemistry 2020; 26:11327-11333. [PMID: 32428270 PMCID: PMC7497235 DOI: 10.1002/chem.202001713] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2020] [Indexed: 12/15/2022]
Abstract
Non-covalent interactions between molecules determine molecular recognition and the outcome of chemical and biological processes. Characterising how non-covalent interactions influence binding preferences is of crucial importance in advancing our understanding of these events. Here, we analyse the interactions involved in smell and specifically the effect of changing the balance between hydrogen-bonding and dispersion interactions by examining the complexes of the common odorant fenchone with phenol and benzene, mimics of tyrosine and phenylalanine residues, respectively. Using rotational spectroscopy and quantum chemistry, two isomers of each complex have been identified. Our results show that the increased weight of dispersion interactions in these complexes changes the preferred binding site in fenchone and sets the basis for a better understanding of the effect of different residues in molecular recognition and binding events.
Collapse
|
49
|
Quesada Moreno MM, Pinacho P, Pérez C, Šekutor M, Schreiner PR, Schnell M. London Dispersion and Hydrogen-Bonding Interactions in Bulky Molecules: The Case of Diadamantyl Ether Complexes. Chemistry 2020; 26:10817-10825. [PMID: 32428323 PMCID: PMC7497036 DOI: 10.1002/chem.202001444] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2020] [Revised: 05/12/2020] [Indexed: 02/05/2023]
Abstract
Diadamantyl ether (DAE, C20 H30 O) represents a good model to study the interplay between London dispersion and hydrogen-bond interactions. By using broadband rotational spectroscopy, an accurate experimental structure of the diadamantyl ether monomer is obtained and its aggregates with water and a variety of aliphatic alcohols of increasing size are analyzed. In the monomer, C-H⋅⋅⋅H-C London dispersion attractions between the two adamantyl subunits further stabilize its structure. Water and the alcohol partners bind to diadamantyl ether through hydrogen bonding and non-covalent Owater/alcohol ⋅⋅⋅H-CDAE and C-Halcohol ⋅⋅⋅H-CDAE interactions. Electrostatic contributions drive the stabilization of all the complexes, whereas London dispersion interactions become more pronounced with increasing size of the alcohol. Complexes with dominant dispersion contributions are significantly higher in energy and were not observed in the experiment. The results presented herein shed light on the first steps of microsolvation and aggregation of molecular complexes with London dispersion energy donor (DED) groups and the kind of interactions that control them.
Collapse
Affiliation(s)
- María Mar Quesada Moreno
- Deutsches Elektronen-SynchrotronNotkestr. 8522607HamburgGermany
- Institute of Physical ChemistryChristian-Albrechts-Universität zu KielMax-Eyth-Str. 124118KielGermany
| | - Pablo Pinacho
- Deutsches Elektronen-SynchrotronNotkestr. 8522607HamburgGermany
- Institute of Physical ChemistryChristian-Albrechts-Universität zu KielMax-Eyth-Str. 124118KielGermany
| | - Cristóbal Pérez
- Deutsches Elektronen-SynchrotronNotkestr. 8522607HamburgGermany
- Institute of Physical ChemistryChristian-Albrechts-Universität zu KielMax-Eyth-Str. 124118KielGermany
| | - Marina Šekutor
- Institute of Organic ChemistryJustus Liebig UniversityHeinrich-Buff-Ring 1735392GiessenGermany
| | - Peter R. Schreiner
- Institute of Organic ChemistryJustus Liebig UniversityHeinrich-Buff-Ring 1735392GiessenGermany
| | - Melanie Schnell
- Deutsches Elektronen-SynchrotronNotkestr. 8522607HamburgGermany
- Institute of Physical ChemistryChristian-Albrechts-Universität zu KielMax-Eyth-Str. 124118KielGermany
| |
Collapse
|
50
|
Neeman EM, León I, Alonso ER, Mata S, Alonso JL. Gas-Phase Conformational Map of the Amino Acid Isovaline. Chemphyschem 2020; 21:525-530. [PMID: 32012435 DOI: 10.1002/cphc.201901201] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [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: 12/19/2019] [Revised: 01/28/2020] [Indexed: 11/11/2022]
Abstract
Four conformers of the non-proteinogenic α-amino acid isovaline, vaporized by laser ablation, are characterized by Fourier-transform microwave techniques in a supersonic expansion. The comparison between the experimental rotational and 14 N nuclear quadrupole coupling constants and the ab initio calculated ones provides conclusive evidence for the identification of the conformers. The most stable species is stabilized by an N-H⋅⋅⋅O =C intramolecular hydrogen bond and a cis-COOH interaction, whereas the higher-energy conformers exhibit an N⋅⋅⋅H-O intramolecular hydrogen bond and trans-COOH, as in other aliphatic amino acids. The spectroscopic data herein reported can be used for the astrophysical purpose in a possible detection of isovaline in space.
Collapse
Affiliation(s)
- E M Neeman
- Grupo de Espectroscopia Molecular (GEM), Edificio Quifima Laboratorios de Espectroscopia y Bioespectroscopia, Parque Científico Universidad de Valladolid, 47011, Valladolid, Spain
| | - I León
- Grupo de Espectroscopia Molecular (GEM), Edificio Quifima Laboratorios de Espectroscopia y Bioespectroscopia, Parque Científico Universidad de Valladolid, 47011, Valladolid, Spain
| | - E R Alonso
- Grupo de Espectroscopia Molecular (GEM), Edificio Quifima Laboratorios de Espectroscopia y Bioespectroscopia, Parque Científico Universidad de Valladolid, 47011, Valladolid, Spain
| | - S Mata
- Grupo de Espectroscopia Molecular (GEM), Edificio Quifima Laboratorios de Espectroscopia y Bioespectroscopia, Parque Científico Universidad de Valladolid, 47011, Valladolid, Spain
| | - J L Alonso
- Grupo de Espectroscopia Molecular (GEM), Edificio Quifima Laboratorios de Espectroscopia y Bioespectroscopia, Parque Científico Universidad de Valladolid, 47011, Valladolid, Spain
| |
Collapse
|