1
|
Lu T, Xie F, Seifert NA, Hamidi Mejlej R, Jäger W, Xu Y. Binary conformers of a flexible, long-chain fluoroalcohol: dispersion controlled selectivity and relative abundances in a jet. Phys Chem Chem Phys 2024; 26:10538-10545. [PMID: 38505957 DOI: 10.1039/d4cp00401a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/21/2024]
Abstract
The complex conformational panorama of binary 4,4,4-trifluoro-1-butanol (TFB) aggregates was investigated using chirped-pulse Fourier transform microwave spectroscopy, aided by conformational searches using CREST (Conformer-Rotamer Ensemble Sampling Tool) and quantum chemistry calculations. From nearly 1500 initial dimer geometries, 16 most stable binary candidates were obtained within a relative energy window of ∼4 kJ mol-1. Rotational spectra of five binary conformers were experimentally observed in supersonic expansion and assigned. Interestingly, three out of the five observed binary conformers are composed solely of monomer conformers, which were not observed in their isolated gas phase forms in jet expansion. In addition, an observed dimer that is made exclusively of the most stable TFB monomer subunits does not correspond to the global minimum. The intricate kinetically and thermodynamically controlled dimer formation mechanisms are discussed, and a modified kinetic-thermodynamic model was developed, providing conformational abundances that are in good agreement with the experiment. Subsequent non-covalent interaction analyses reveal that the observed conformers are held together by one primary O-H⋯O hydrogen bond and secondary intermolecular C-H⋯O, C-H⋯F, and/or O-H⋯F interactions, as well as C-H⋯H-C London dispersion interactions between the methylene groups. Further symmetry-adapted perturbation theory analyses of the TFB dimer conformers and related alcohol dimers reveal a considerable rise in dispersion contributions with increasing n-alkyl carbon chain length and highlight the role of dispersion interactions in preferentially stabilizing the global minimum of the TFB dimer.
Collapse
Affiliation(s)
- Tao Lu
- Department of Chemistry, University of Alberta, 11227 Saskatchewan Drive, Edmonton, AB, Canada.
- Key Laboratory of Biology and Medical Engineering, School of Biology and Engineering, Guizhou Medical University, Guiyang 550025, China
| | - Fan Xie
- Department of Chemistry, University of Alberta, 11227 Saskatchewan Drive, Edmonton, AB, Canada.
| | - Nathan A Seifert
- Department of Chemistry, University of Alberta, 11227 Saskatchewan Drive, Edmonton, AB, Canada.
- Chemistry and Chemical & Biomedical Engineering Department, University of New Haven, 300 Boston Post Rd, West Haven, CT 06516, USA
| | - Reihaneh Hamidi Mejlej
- Department of Chemistry, University of Alberta, 11227 Saskatchewan Drive, Edmonton, AB, Canada.
| | - Wolfgang Jäger
- Department of Chemistry, University of Alberta, 11227 Saskatchewan Drive, Edmonton, AB, Canada.
| | - Yunjie Xu
- Department of Chemistry, University of Alberta, 11227 Saskatchewan Drive, Edmonton, AB, Canada.
| |
Collapse
|
2
|
Casoria M, Macchiagodena M, Rovero P, Andreini C, Papini AM, Cardini G, Pagliai M. Upgrading of the general AMBER force field 2 for fluorinated alcohol biosolvents: A validation for water solutions and melittin solvation. J Pept Sci 2024; 30:e3543. [PMID: 37734745 DOI: 10.1002/psc.3543] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2023] [Revised: 07/16/2023] [Accepted: 08/22/2023] [Indexed: 09/23/2023]
Abstract
The standard GAFF2 force field parameterization has been refined for the fluorinated alcohols 2,2,2-trifluoroethanol (TFE), 1,1,1,3,3,3-hexafluoro-2-propanol (HFIP), and 1,1,1,3,3,3-hexafluoropropan-2-one (HFA), which are commonly used to study proteins and peptides in biomimetic media. The structural and dynamic properties of both proteins and peptides are significantly influenced by the biomimetic environment created by the presence of these cosolvents in aqueous solutions. Quantum mechanical calculations on stable conformers were used to parameterize the atomic charges. Different systems, such as pure liquids, aqueous solutions, and systems formed by melittin protein and cosolvent/water solutions, have been used to validate the new models. The calculated macroscopic and structural properties are in agreement with experimental findings, supporting the validity of the newly proposed models.
Collapse
Affiliation(s)
- Michele Casoria
- Dipartimento di Chimica "Ugo Schiff", Università degli Studi di Firenze, Sesto Fiorentino, Italy
- Interdepartmental Research Unit of Peptide and Protein Chemistry and Biology, Università degli Studi di Firenze, Sesto Fiorentino, Italy
| | - Marina Macchiagodena
- Dipartimento di Chimica "Ugo Schiff", Università degli Studi di Firenze, Sesto Fiorentino, Italy
| | - Paolo Rovero
- Interdepartmental Research Unit of Peptide and Protein Chemistry and Biology, Università degli Studi di Firenze, Sesto Fiorentino, Italy
- Department of NeuroFarBa, Università degli Studi di Firenze, Sesto Fiorentino, Italy
| | - Claudia Andreini
- Dipartimento di Chimica "Ugo Schiff", Università degli Studi di Firenze, Sesto Fiorentino, Italy
- Magnetic Resonance Center (CERM), Università degli Studi di Firenze, Sesto Fiorentino, Italy
| | - Anna Maria Papini
- Dipartimento di Chimica "Ugo Schiff", Università degli Studi di Firenze, Sesto Fiorentino, Italy
- Interdepartmental Research Unit of Peptide and Protein Chemistry and Biology, Università degli Studi di Firenze, Sesto Fiorentino, Italy
| | - Gianni Cardini
- Dipartimento di Chimica "Ugo Schiff", Università degli Studi di Firenze, Sesto Fiorentino, Italy
| | - Marco Pagliai
- Dipartimento di Chimica "Ugo Schiff", Università degli Studi di Firenze, Sesto Fiorentino, Italy
| |
Collapse
|
3
|
Carlson CD, Hazrah AS, Mason D, Yang Q, Seifert NA, Xu Y. Alternating 1-Phenyl-2,2,2-Trifluoroethanol Conformational Landscape With the Addition of One Water: Conformations and Large Amplitude Motions. J Phys Chem A 2022; 126:7250-7260. [PMID: 36191084 DOI: 10.1021/acs.jpca.2c05803] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The 1:1 adduct of 1-phenyl-2,2,2-trifluoroethanol (PhTFE), a chiral fluoroalcohol, with water was investigated using chirped pulse Fourier transform microwave spectroscopy and computational methods. While PhTFE itself was predicted to have three minima, I (gauche+), II (trans), and III (gauche-), only I and II were stable and only I was observed experimentally. A systematic search of the PhTFE···H2O conformational landscape identified 110 stable minima, 14 of which are within a 15 kJ mol-1 energy window. Rotational spectra of the two PhTFE···H2O conformers along with several deuterium and 18O isotopologues were assigned, and the isotopic data were used to verify the corresponding structures. In the two observed monohydrate conformers, one contains PhTFE I where the water subunit is inserted into the existing intramolecular OH···F contact of I, and the binary adduct is stabilized by two intermolecular contacts: OH···OW and HW···F, whereas the other contains PhTFE II where the water subunit interacts with both the alcohol hydrogen and phenyl ring of II, demonstrating that interaction with water sufficiently stabilizes II for its observation in a jet expansion. Interestingly, the predicted electric dipole moment components at the identified minima deviate considerably from the experimental ones. Such deviations were analyzed in terms of dynamic effects associated with the large amplitude motions of the unbound HW. In addition, tunnelling effects associated with the exchange of the bonded and nonbonded HW were also discussed.
Collapse
Affiliation(s)
- Colton D Carlson
- Department of Chemistry, University of Alberta, Edmonton, Alberta T6G 2G2, Canada
| | - Arsh S Hazrah
- Department of Chemistry, University of Alberta, Edmonton, Alberta T6G 2G2, Canada
| | - Daniel Mason
- Department of Chemistry, University of Alberta, Edmonton, Alberta T6G 2G2, Canada
| | - Qian Yang
- 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.,Department of Chemistry and Chemical & Biomedical Engineering, University of New Haven, 300 Boston Post Rd, West Haven, Connecticut 06516, United States
| | - Yunjie Xu
- Department of Chemistry, University of Alberta, Edmonton, Alberta T6G 2G2, Canada
| |
Collapse
|
4
|
Koszinowski K, Rahrt R. Anionic Dimers of Fluorinated Alcohols. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2022; 33:1411-1418. [PMID: 35609237 DOI: 10.1021/jasms.2c00070] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Negative-ion mode electrospray ionization of solutions of ethanol (RF0OH), 2-fluoroethanol (RF1OH), 2,2-difluoroethanol (RF2OH), and/or 2,2,2-trifluoroethanol (RF3OH) produces anionic dimers of the types (RFnO)2H- and (RFnO)(RFn+1O)H-. The exchange reactions of these anionic dimers with the neutral alcohols are examined in a quadrupole-ion trap to extract kinetic data, from which the reaction Gibbs energies are obtained. In all cases, the formation of anionic dimers containing the more highly fluorinated alcohols is favored. Quantum chemical calculations confirm this trend and, besides affording structural data, also determine the dissociation energies of the anionic dimers. These dissociation energies are much higher than those of the corresponding neutral dimers and increase further for the more highly fluorinated alcohols due to the stronger hydrogen-bond donor ability of the latter. The present results on the interaction of individual alkoxide anions and neutral alcohol molecules contribute to a better understanding of the association of the fluorinated alcohols in solution.
Collapse
Affiliation(s)
- Konrad Koszinowski
- Universität Göttingen, Institut für Organische und Biomolekulare Chemie, Tammannstr. 2, 37077 Göttingen, Germany
| | - Rene Rahrt
- Universität Göttingen, Institut für Organische und Biomolekulare Chemie, Tammannstr. 2, 37077 Göttingen, Germany
| |
Collapse
|
5
|
Shinkai T, Hsu PJ, Fujii A, Kuo JL. Infrared spectroscopy and theoretical structure analyses of protonated fluoroalcohol clusters: the impact of fluorination on the hydrogen bond networks. Phys Chem Chem Phys 2022; 24:12631-12644. [PMID: 35579401 DOI: 10.1039/d2cp01300b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
To explore the impact of fluorination on the hydrogen bond networks of protonated alkylalcohols, infrared spectroscopy and theoretical computations of protonated 2,2,2-trifluoroethanol clusters, H+(TFE)n, (n = 4-7), were performed. It has been demonstrated that the development of the hydrogen bond networks from a linear type to cyclic types occurs in this size region for the protonated alkylalcohol clusters. In contrast, infrared spectroscopy of H+(TFE)n in the OH/CH stretch region clearly indicated that the linear type structures are held in the whole size range, irrespective of temperature of the clusters. The extensive stable isomer structure search of H+(TFE)n based on our latest sampling approach supported the strong preference of the linear type hydrogen bond networks. Detailed analyses of the free OH stretching vibrational bands evidenced the intra- and intermolecular OH⋯FC interactions in the clusters. In addition, infrared spectra of protonated clusters of 2,2-difluoroethanol, 2,2-difluoropropanol, and 3,3,3-trifluoropropanol were measured for n = 4 and 5, and their spectra also indicated the effective inhibition of the cyclic hydrogen bond network formation by the fluorination.
Collapse
Affiliation(s)
- Takahiro Shinkai
- Department of Chemistry, Graduate School of Science, Tohoku University, Sendai 980-8578, Japan.
| | - Po-Jen Hsu
- Institute of Atomic and Molecular Sciences, Academia Sinica, Taipei 10617, Taiwan.
| | - Asuka Fujii
- Department of Chemistry, Graduate School of Science, Tohoku University, Sendai 980-8578, Japan.
| | - Jer-Lai Kuo
- Institute of Atomic and Molecular Sciences, Academia Sinica, Taipei 10617, Taiwan.
| |
Collapse
|
6
|
Wu B, Seifert NA, Insausti A, Ma J, Oswald S, Jaeger W, Xu Y. 2,2,3,3,3-pentafluoro-1-propanol and its dimer: structural diversity, conformational conversion, and tunnelling motion. Phys Chem Chem Phys 2022; 24:14975-14984. [DOI: 10.1039/d2cp01895k] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Rotational spectra of the 2,2,3,3,3-pentafluoro-1-propanol (PFP) were measured using cavity and chirped pulse Fourier transform microwave spectrometers. Of the nine possible PFP configurations which include four mirror-imaged pairs and an...
Collapse
|
7
|
Fischer TLL, Bödecker MADI, Zehnacker A, Mata RA, Suhm MA. Setting up the HyDRA blind challenge for the microhydration of organic molecules. Phys Chem Chem Phys 2022; 24:11442-11454. [DOI: 10.1039/d2cp01119k] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The procedure leading to the first HyDRA blind challenge for the prediction of water donor stretching vibrations in monohydrates of organic molecules is described. A training set of 10 monohydrates...
Collapse
|
8
|
Schweer SM, Nejad A, Suhm MA. Coupled proton vibrations between two weak acids: the hinge complex between formic acid and trifluoroethanol. Phys Chem Chem Phys 2022; 24:26449-26457. [DOI: 10.1039/d2cp04176f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
Raman and FTIR spectra of an acid–alcohol complex show complementary signatures from acidic and alcoholic OH stretching, proving its existence.
Collapse
Affiliation(s)
- Sophie M. Schweer
- Institute of Physical Chemistry, University of Goettingen, Tammannstr. 6, 37077 Goettingen, Germany
| | - Arman Nejad
- Institute of Physical Chemistry, University of Goettingen, Tammannstr. 6, 37077 Goettingen, Germany
| | - Martin A. Suhm
- Institute of Physical Chemistry, University of Goettingen, Tammannstr. 6, 37077 Goettingen, Germany
| |
Collapse
|
9
|
Thomas J, Peña I, Carlson CD, Yang Y, Jäger W, Xu Y. Structural and dynamical features of the 2,2,2-trifluoroethanol⋯ammonia complex. Phys Chem Chem Phys 2020; 22:23019-23027. [DOI: 10.1039/d0cp03329d] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The preferred conformation of trifluoroethanol⋯ammonia is established experimentally and the effects of large vibrational motions on its properties evaluated.
Collapse
Affiliation(s)
- Javix Thomas
- Department of Chemistry
- University of Alberta
- Edmonton
- Canada
| | - Isabel Peña
- Departamento de Química Física y Química Inorgánica
- Facultad de Ciencias
- Universidad de Valladolid
- 47011 Valladolid
- Spain
| | | | - Yisi Yang
- Department of Chemistry
- University of Alberta
- Edmonton
- Canada
| | - Wolfgang Jäger
- Department of Chemistry
- University of Alberta
- Edmonton
- Canada
| | - Yunjie Xu
- Department of Chemistry
- University of Alberta
- Edmonton
- Canada
| |
Collapse
|
10
|
Dey A, Banerjee A. Unusual Overhauser Dynamic Nuclear Polarization Behavior of Fluorinated Alcohols at Room Temperature. J Phys Chem B 2019; 123:10463-10469. [PMID: 31714083 DOI: 10.1021/acs.jpcb.9b08144] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The structure of fluorinated alcohols is a matter of considerable interest in view of wide-ranging biomolecular applications. The microheterogeneity of fluorinated alcohols in the liquid state, in particular, has been a matter of debate and discussion in recent years using experimental and theoretical methods, including neutron or X-ray diffraction, as well as density functional theory (DFT) and molecular dynamics (MD) simulations. Here, we show that 1H and 19F Overhauser dynamic nuclear polarization (ODNP) buildup curves in solution state at room temperature show unusual behavior that could offer a novel approach to investigate the structural heterogeneity and dynamics of such homogeneous liquids with improved sensitivity. A detailed analysis of multiexponential ODNP buildup curves as a function of microwave irradiation time is shown to evidence microheterogeneity in such systems. Experimental ODNP buildup rates are interpreted using simple motional models that yield the motional correlation times of the relevant species in solution. It may be emphasized that this information is not available from standard approaches of high-resolution nuclear magnetic resonance (NMR) spectroscopy. While the present study focuses on fluorinated alcohols, it is to be anticipated that this approach would be valuable in the study of molecular assemblies in the solution state, including peptides, surfactant systems, etc.
Collapse
Affiliation(s)
- Arnab Dey
- MRI-MRS Centre and Department of Chemistry , Indian Institute of Technology-Madras , Chennai 600036 , Tamil Nadu , India
| | - Abhishek Banerjee
- MRI-MRS Centre and Department of Chemistry , Indian Institute of Technology-Madras , Chennai 600036 , Tamil Nadu , India
| |
Collapse
|
11
|
Vincenzi M, Mercurio FA, Leone M. About TFE: Old and New Findings. Curr Protein Pept Sci 2019; 20:425-451. [PMID: 30767740 DOI: 10.2174/1389203720666190214152439] [Citation(s) in RCA: 25] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2018] [Revised: 07/16/2018] [Accepted: 07/18/2018] [Indexed: 01/28/2023]
Abstract
The fluorinated alcohol 2,2,2-Trifluoroethanol (TFE) has been implemented for many decades now in conformational studies of proteins and peptides. In peptides, which are often disordered in aqueous solutions, TFE acts as secondary structure stabilizer and primarily induces an α -helical conformation. The exact mechanism through which TFE plays its stabilizing roles is still debated and direct and indirect routes, relying either on straight interaction between TFE and molecules or indirect pathways based on perturbation of solvation sphere, have been proposed. Another still unanswered question is the capacity of TFE to favor in peptides a bioactive or a native-like conformation rather than simply stimulate the raise of secondary structure elements that reflect only the inherent propensity of a specific amino-acid sequence. In protein studies, TFE destroys unique protein tertiary structure and often leads to the formation of non-native secondary structure elements, but, interestingly, gives some hints about early folding intermediates. In this review, we will summarize proposed mechanisms of TFE actions. We will also describe several examples, in which TFE has been successfully used to reveal structural properties of different molecular systems, including antimicrobial and aggregation-prone peptides, as well as globular folded and intrinsically disordered proteins.
Collapse
Affiliation(s)
- Marian Vincenzi
- Institute of Biostructures and Bioimaging, National Research Council (CNR), Via Mezzocannone 16, 80134 Naples, Italy
| | - Flavia A Mercurio
- Institute of Biostructures and Bioimaging, National Research Council (CNR), Via Mezzocannone 16, 80134 Naples, Italy.,Cirpeb, InterUniversity Research Centre on Bioactive Peptides, University of Naples "Federico II", Via Mezzocannone 16, 80134 Naples, Italy
| | - Marilisa Leone
- Institute of Biostructures and Bioimaging, National Research Council (CNR), Via Mezzocannone 16, 80134 Naples, Italy.,Cirpeb, InterUniversity Research Centre on Bioactive Peptides, University of Naples "Federico II", Via Mezzocannone 16, 80134 Naples, Italy
| |
Collapse
|
12
|
Oswald S, Suhm MA. Soft experimental constraints for soft interactions: a spectroscopic benchmark data set for weak and strong hydrogen bonds. Phys Chem Chem Phys 2019; 21:18799-18810. [PMID: 31453998 DOI: 10.1039/c9cp03651b] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
An experimental benchmark data base on rotational constants, vibrational properties and energy differences for weakly and more strongly hydrogen-bonded complexes and their constituents from the spectroscopic literature is assembled. It is characterized in detail and finally contracted to a more compact, discriminatory set (ENCH-51, for Experimental Non-Covalent Harmonic with 51 entries). The meeting points between theory and experiment consist of equilibrium rotational constants and harmonic frequencies and energies, which are back-corrected from experimental observables and are very easily accessible by quantum chemical calculations. The relative performance of B3LYP-D3, PBE0-D3 and M06-2X density functional theory predictions with a quadruple-zeta basis set is used to illustrate systematic errors, error compensation and selective performance for structural, vibrational and energetical observables. The current focus is on perspectives and different benchmarking methodologies, rather than on a specific theoretical method or a specific class of compounds. Extension of the data base in chemical, observable and quantum chemical method space is encouraged.
Collapse
Affiliation(s)
- Sönke Oswald
- Institut für Physikalische Chemie, Universität Göttingen, Tammannstr. 6, 37077 Göttingen, Germany.
| | - Martin A Suhm
- Institut für Physikalische Chemie, Universität Göttingen, Tammannstr. 6, 37077 Göttingen, Germany.
| |
Collapse
|
13
|
Tang S, Du L. Effects of methylation in acceptors on the hydrogen bond complexes between 2,2,2-trifluoroethanol and cyclic ethers. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2019; 217:237-246. [PMID: 30947132 DOI: 10.1016/j.saa.2019.03.088] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/13/2019] [Revised: 03/24/2019] [Accepted: 03/25/2019] [Indexed: 05/15/2023]
Abstract
In order to explore the effect of methylation on the stability and spectral shift of hydrogen bond complexes, the complexes of 2,2,2-trifluoroethanol (TFE) with propylene oxide (PO) and isobutylene oxide (IBO) were investigated by Fourier transform infrared (FTIR) spectroscopy and ab initio computations. The comparable OH-stretching red shifts were observed upon complexation, and an enhancement of the OH-stretching band is shown with the partial pressure of monomers increasing. The OH-stretching frequency of TFE is red shifted by 180 and 201 cm-1 with PO and IBO, respectively. By using quantum chemical calculations, we predicted the geometric parameters, binding energies, and spectral shifts of TFEPO/IBO hydrogen bond complexes. The calculated and observed spectral shifts follow the same trends. Compared with the TFEethylene oxide (EO) complex, the strength of the hydrogen bond in complex increases with the addition of methyl group, which likely results from the increase in basicity of the hydrogen bond acceptor. By combining the experimental integrated absorbance and the calculated IR intensity of the OH-stretching vibrational transition, the equilibrium constant for the complex formation was determined. In addition, atoms-in-molecules (AIM) and natural bond orbital (NBO) analyses were carried out to explain the red shift and the nature of the interaction in these complexes.
Collapse
Affiliation(s)
- Shanshan Tang
- Environment Research Institute, Shandong University, Binhai Road 72, Qingdao 266237, China
| | - Lin Du
- Environment Research Institute, Shandong University, Binhai Road 72, Qingdao 266237, China.
| |
Collapse
|
14
|
Oswald S, Seifert NA, Bohle F, Gawrilow M, Grimme S, Jäger W, Xu Y, Suhm MA. The Chiral Trimer and a Metastable Chiral Dimer of Achiral Hexafluoroisopropanol: A Multi-Messenger Study. Angew Chem Int Ed Engl 2019; 58:5080-5084. [PMID: 30767337 DOI: 10.1002/anie.201813881] [Citation(s) in RCA: 37] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2018] [Revised: 01/10/2019] [Indexed: 01/05/2023]
Abstract
1,1,1,3,3,3-hexafluoro-propan-2-ol aggregates preferentially into an achiral dimer of achiral monomers, but the trimer is found to prefer three metastable chiral monomer units arranged into a strained OH⋅⋅⋅O hydrogen-bonded ring, which is reinforced by secondary CH⋅⋅⋅FC interactions. This is shown by a combination of infrared, microwave, and Raman spectroscopy in supersonic jet expansions and supported by high-level quantum chemical calculations. It involves an activation of the monomers by >15 kJ mol-1 , clearly driven by the much stronger hydrogen-bond interaction available to the gauche and even more to the cis monomer units.
Collapse
Affiliation(s)
- Sönke Oswald
- Institut für Physikalische Chemie, Georg-August Universität Göttingen, Tammannstraße 6, 37077, Göttingen, Germany
| | - Nathan A Seifert
- Department of Chemistry, University of Alberta, Edmonton, Alberta, T6G 2G2, Canada
| | - Fabian Bohle
- Mulliken Center for Theoretical Chemistry, Institut für Physikalische und Theoretische Chemie, Universität Bonn, Beringstraße 4, 53115, Bonn, Germany
| | - Maxim Gawrilow
- Institut für Physikalische Chemie, Georg-August Universität Göttingen, Tammannstraße 6, 37077, Göttingen, Germany
| | - Stefan Grimme
- Mulliken Center for Theoretical Chemistry, Institut für Physikalische und Theoretische Chemie, Universität Bonn, Beringstraße 4, 53115, Bonn, 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
| | - Martin A Suhm
- Institut für Physikalische Chemie, Georg-August Universität Göttingen, Tammannstraße 6, 37077, Göttingen, Germany
| |
Collapse
|
15
|
Oswald S, Seifert NA, Bohle F, Gawrilow M, Grimme S, Jäger W, Xu Y, Suhm MA. The Chiral Trimer and a Metastable Chiral Dimer of Achiral Hexafluoroisopropanol: A Multi‐Messenger Study. Angew Chem Int Ed Engl 2019. [DOI: 10.1002/ange.201813881] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Sönke Oswald
- Institut für Physikalische ChemieGeorg-August Universität Göttingen Tammannstraße 6 37077 Göttingen Germany
| | - Nathan A. Seifert
- Department of ChemistryUniversity of Alberta Edmonton Alberta T6G 2G2 Canada
| | - Fabian Bohle
- Mulliken Center for Theoretical ChemistryInstitut für Physikalische und Theoretische ChemieUniversität Bonn Beringstraße 4 53115 Bonn Germany
| | - Maxim Gawrilow
- Institut für Physikalische ChemieGeorg-August Universität Göttingen Tammannstraße 6 37077 Göttingen Germany
| | - Stefan Grimme
- Mulliken Center for Theoretical ChemistryInstitut für Physikalische und Theoretische ChemieUniversität Bonn Beringstraße 4 53115 Bonn Germany
| | - Wolfgang Jäger
- Department of ChemistryUniversity of Alberta Edmonton Alberta T6G 2G2 Canada
| | - Yunjie Xu
- Department of ChemistryUniversity of Alberta Edmonton Alberta T6G 2G2 Canada
| | - Martin A. Suhm
- Institut für Physikalische ChemieGeorg-August Universität Göttingen Tammannstraße 6 37077 Göttingen Germany
| |
Collapse
|
16
|
Thomas J, Carrillo MJ, Serrato A, Xie F, Jäger W, Xu Y, Lin W. Microwave spectrum of the complex of 3,3,3-trifluoro-2-(trifluoromethyl)propanoic acid and formic acid. Mol Phys 2018. [DOI: 10.1080/00268976.2018.1532539] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
Affiliation(s)
- Javix Thomas
- Department of Chemistry, University of Alberta, Edmonton, Alberta, Canada
| | - Michael J. Carrillo
- Department of Chemistry, The University of Texas Rio Grande Valley, Brownsville, US
| | - Agapito Serrato
- Department of Chemistry, The University of Texas Rio Grande Valley, Brownsville, US
| | - Fan Xie
- Department of Chemistry, University of Alberta, Edmonton, Alberta, Canada
| | - Wolfgang Jäger
- Department of Chemistry, University of Alberta, Edmonton, Alberta, Canada
| | - Yunjie Xu
- Department of Chemistry, University of Alberta, Edmonton, Alberta, Canada
| | - Wei Lin
- Department of Chemistry, The University of Texas Rio Grande Valley, Brownsville, US
| |
Collapse
|
17
|
Mondal S, Biswas B, Nandy T, Singh PC. Understanding the Role of Hydrophobic Terminal in the Hydrogen Bond Network of the Aqueous Mixture of 2,2,2-Trifluoroethanol: IR, Molecular Dynamics, Quantum Chemical as Well as Atoms in Molecules Studies. J Phys Chem B 2018; 122:6616-6626. [DOI: 10.1021/acs.jpcb.8b04365] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Saptarsi Mondal
- Department of Spectroscopy, Indian Association for the Cultivation of Science, Kolkata 700032, India
| | - Biswajit Biswas
- Department of Spectroscopy, Indian Association for the Cultivation of Science, Kolkata 700032, India
| | - Tonima Nandy
- Department of Spectroscopy, Indian Association for the Cultivation of Science, Kolkata 700032, India
| | - Prashant Chandra Singh
- Department of Spectroscopy, Indian Association for the Cultivation of Science, Kolkata 700032, India
| |
Collapse
|
18
|
Jiang X, Tsona NT, Tang S, Du L. Hydrogen bond docking preference in furans: OH⋯π vs. OH⋯O. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2018; 191:155-164. [PMID: 29028507 DOI: 10.1016/j.saa.2017.10.006] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/22/2017] [Revised: 09/23/2017] [Accepted: 10/01/2017] [Indexed: 05/15/2023]
Abstract
The docking sites of hydrogen bonds in complexes formed between 2,2,2-trifluoroethanol (TFE), furan (Fu), and 2-methyl furan (MF) have been investigated. Using density functional theory (DFT) calculations, gas phase and matrix isolation FTIR spectroscopies, the strengths of OH⋯O and OH⋯π hydrogen bonds in the complexes were compared to find the docking preference. Calculations suggest that the hydrogen bond donor, TFE, is more likely to dock onto the oxygen atom of the aromatic furans ring, and consequently, the OH⋯O type hydrogen bond is relatively stronger than the OH⋯π type. The FTIR spectrum in the OH-stretching fundamental range obtained at room temperatures has been compared with that obtained at extremely low temperatures in the matrix. The fundamental and the red shifts of OH-stretching vibrations were observed in both FTIR spectra, confirming the formation of hydrogen bonded complexes. By assessing the ability of furan and MF to participate in the formation of OH⋯O hydrogen bond, the effect of ring methylation has been highlighted. From the calculated geometric and thermodynamic parameters as well as the frequency shift of the OH-stretching vibrations in complexes, TFE-MF is found to be more stable than TFE-Fu, which suggests that the strength of the OH⋯O hydrogen bond in TFE-MF originates from the high activity of the furan molecule caused by the methylation of the aromatic ring. The present study furthers the knowledge of docking preference in heteroaromatic molecules and is helpful to understand the nature of intermolecular interactions between hydrogen bond donors and acceptors, including both electron-deficient atoms and π cloud.
Collapse
Affiliation(s)
- Xiaotong Jiang
- Environment Research Institute, Shandong University, Shanda South Road 27, 250100, Shandong, China
| | - Narcisse T Tsona
- Environment Research Institute, Shandong University, Shanda South Road 27, 250100, Shandong, China
| | - Shanshan Tang
- Environment Research Institute, Shandong University, Shanda South Road 27, 250100, Shandong, China
| | - Lin Du
- Environment Research Institute, Shandong University, Shanda South Road 27, 250100, Shandong, China.
| |
Collapse
|
19
|
Cheng S, Tang S, Tsona NT, Du L. The Influence of the Position of the Double Bond and Ring Size on the Stability of Hydrogen Bonded Complexes. Sci Rep 2017; 7:11310. [PMID: 28900230 PMCID: PMC5596019 DOI: 10.1038/s41598-017-11921-7] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2017] [Accepted: 08/31/2017] [Indexed: 11/18/2022] Open
Abstract
To study the influence of the position of the double bond and ring size on the stability of hydrogen bonded complexes, the 1:1 complexes formed between 2,2,2-trifluoroethanol (TFE) and three heterocyclic compounds including 2,3-dihydrofuran (2,3-DHF), 2,5-dihydrofuran (2,5-DHF) and 3,4-dihydropyran (3,4-DHP) were investigated systematically. The formation of hydrogen bonded TFE−2,3-DHF, TFE−2,5-DHF and TFE−3,4-DHP complexes were identified by gas phase FTIR spectroscopy at room temperature, and the OH-stretching fundamental transition of TFE was red shifted upon complexation. The competition between the O atom and π-electrons bonding sites within the complexes was studied, and the O−H···π type hydrogen bond was found to be less stable than the O−H···O in all three cases. The observed red shifts of the OH-stretching fundamental transitions in the complexes were attributed to the formation of O−H···O hydrogen bond. Equilibrium constants of the complexation reactions were determined from measured and calculated OH-stretching fundamental intensities. Both theoretical calculations and experimental results reveal that the hydrogen bond strengths in the complexes follow the sequence: TFE−2,5-DHF > TFE−2,3-DHF ≈ TFE−3,4-DHP, thus the position of the double bond exerts significantly larger influence than ring size on the stability of the selected hydrogen bonded complexes.
Collapse
Affiliation(s)
- Shumin Cheng
- Environment Research Institute, Shandong University, Shanda South Road 27, 250100, Shandong, China
| | - Shanshan Tang
- Environment Research Institute, Shandong University, Shanda South Road 27, 250100, Shandong, China
| | - Narcisse T Tsona
- Environment Research Institute, Shandong University, Shanda South Road 27, 250100, Shandong, China
| | - Lin Du
- Environment Research Institute, Shandong University, Shanda South Road 27, 250100, Shandong, China.
| |
Collapse
|
20
|
A combined molecular dynamics simulation, atoms in molecule analysis and IR study on the biologically important bulk fluorinated ethanols to understand the role of weak interactions in their cluster formation and hydrogen bond network. J Mol Liq 2017. [DOI: 10.1016/j.molliq.2017.05.098] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register]
|
21
|
Thomas J, Seifert NA, Jäger W, Xu Y. A Direct Link from the Gas to the Condensed Phase: A Rotational Spectroscopic Study of 2,2,2-Trifluoroethanol Trimers. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201612161] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Javix Thomas
- 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
| | - 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
|
22
|
Thomas J, Seifert NA, Jäger W, Xu Y. A Direct Link from the Gas to the Condensed Phase: A Rotational Spectroscopic Study of 2,2,2-Trifluoroethanol Trimers. Angew Chem Int Ed Engl 2017; 56:6289-6293. [PMID: 28229516 DOI: 10.1002/anie.201612161] [Citation(s) in RCA: 47] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2016] [Indexed: 11/07/2022]
Abstract
Rotational spectra of the three most stable conformers (I, II, III) of the ternary 2,2,2-trifluoroethanol (TFE) cluster were measured using Fourier transform microwave spectrometers, and unambiguously assigned with the aid of ab initio calculations. The most stable conformer, I, contains one trans-TFE subunit which is unstable in its isolated gas phase form. The study offers new insights into how the trans conformation is stabilized in TFE clusters of increasing size, and eventually becomes a dominant conformation in the liquid phase. A detailed analysis shows that while O-H⋅⋅⋅O-H and O-H⋅⋅⋅F-C hydrogen bonds are the most significant attractive interactions which stabilize all three conformers, the main driving force for the stability of I over III, which has all gauche-TFE subunits, is the attractive interaction of C-F⋅⋅⋅F-C contact pairs. A new type of three-point F⋅⋅⋅F⋅⋅⋅F attractive contact interaction is also identified.
Collapse
Affiliation(s)
- Javix Thomas
- 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
| | - 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
|
23
|
Tang S, Zhao H, Du L. Hydrogen bonding in alcohol–ethylene oxide and alcohol–ethylene sulfide complexes. RSC Adv 2016. [DOI: 10.1039/c6ra16205c] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
The O–H⋯O and O–H⋯S hydrogen bonds are of similar strength in the corresponding alcohol–EO and alcohol–ES complexes.
Collapse
Affiliation(s)
- Shanshan Tang
- Environment Research Institute
- Shandong University
- China
| | - Hailiang Zhao
- Environment Research Institute
- Shandong University
- China
| | - Lin Du
- Environment Research Institute
- Shandong University
- China
| |
Collapse
|
24
|
Thomas J, Liu X, Jäger W, Xu Y. Unusual H-Bond Topology and Bifurcated H-bonds in the 2-Fluoroethanol Trimer. Angew Chem Int Ed Engl 2015. [DOI: 10.1002/ange.201505934] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
|
25
|
Thomas J, Liu X, Jäger W, Xu Y. Unusual H-Bond Topology and Bifurcated H-bonds in the 2-Fluoroethanol Trimer. Angew Chem Int Ed Engl 2015; 54:11711-5. [PMID: 26276699 DOI: 10.1002/anie.201505934] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2015] [Indexed: 11/06/2022]
Abstract
By using a combination of rotational spectroscopy and ab initio calculations, an unusual H-bond topology was revealed for the 2-fluoroethanol trimer. The trimer exhibits a strong heterochiral preference and adopts an open OH⋅⋅⋅OH H-bond topology while utilizing two types of bifurcated H-bonds involving organic fluorine. This is in stark contrast to the cyclic OH⋅⋅⋅OH H-bond topology adopted by trimers of water and other simple alcohols. The strengths of different H-bonds in the trimer were analyzed by using the quantum theory of atoms in molecules. The study showcases a remarkable example of a chirality-induced switch in H-bond topology in a simple transient chiral fluoroalcohol. It provides important insight into the H-bond topologies of small fluoroalcohol aggregates, which are proposed to play a key role in protein folding and in enantioselective reactions and separations where fluoroalcohols serve as a (co)solvent.
Collapse
Affiliation(s)
- Javix Thomas
- Department of Chemistry, University of Alberta, Edmonton, Alberta, T6G 2G2 (Canada)
| | - Xunchen Liu
- School of Mechanical Engineering, Shanghai Jiao Tong University, No.800 Dong Chuan Road, Shanghai, 200240 (P.R. China)
| | - 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
|
26
|
Heger M, Otto KE, Mata RA, Suhm MA. Bracketing subtle conformational energy differences between self-solvated and stretched trifluoropropanol. Phys Chem Chem Phys 2015; 17:9899-909. [DOI: 10.1039/c4cp05868b] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The interconversion landscape between stretched and folded trifluoropropanol conformations is characterized by Raman jet spectroscopy and theory.
Collapse
Affiliation(s)
- Matthias Heger
- Institut für Physikalische Chemie
- Universität Göttingen
- 37077 Göttingen
- Germany
| | - Katharina E. Otto
- Institut für Physikalische Chemie
- Universität Göttingen
- 37077 Göttingen
- Germany
| | - Ricardo A. Mata
- Institut für Physikalische Chemie
- Universität Göttingen
- 37077 Göttingen
- Germany
| | - Martin A. Suhm
- Institut für Physikalische Chemie
- Universität Göttingen
- 37077 Göttingen
- Germany
| |
Collapse
|
27
|
Seifert NA, Pérez C, Neill JL, Pate BH, Vallejo-López M, Lesarri A, Cocinero EJ, Castaño F. Chiral recognition and atropisomerism in the sevoflurane dimer. Phys Chem Chem Phys 2015; 17:18282-7. [DOI: 10.1039/c5cp01025j] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Transient chirality in the anesthetic sevoflurane results in two different homo- and heterochiral clusters on formation of the dimer, as observed by rotational spectroscopy.
Collapse
Affiliation(s)
| | - Cristóbal Pérez
- Department of Chemistry
- University of Virginia
- Charlottesville
- USA
| | - Justin L. Neill
- Department of Chemistry
- University of Virginia
- Charlottesville
- USA
| | - Brooks H. Pate
- Department of Chemistry
- University of Virginia
- Charlottesville
- USA
| | - Montserrat Vallejo-López
- Departamento de Química Física y Química Inorgánica
- Facultad de Ciencias
- Universidad de Valladolid
- 47011 Valladolid
- Spain
| | - Alberto Lesarri
- Departamento de Química Física y Química Inorgánica
- Facultad de Ciencias
- Universidad de Valladolid
- 47011 Valladolid
- Spain
| | - Emilio J. Cocinero
- Departamento de Química Física
- Facultad de Ciencia y Tecnología
- Universidad del País Vasco (UPV-EHU)
- 48080 Bilbao
- Spain
| | - Fernando Castaño
- Departamento de Química Física
- Facultad de Ciencia y Tecnología
- Universidad del País Vasco (UPV-EHU)
- 48080 Bilbao
- Spain
| |
Collapse
|
28
|
Hansen AS, Du L, Kjaergaard HG. Positively Charged Phosphorus as a Hydrogen Bond Acceptor. J Phys Chem Lett 2014; 5:4225-4231. [PMID: 26278958 DOI: 10.1021/jz502150d] [Citation(s) in RCA: 68] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Phosphorus (P) is an element that is essential to the life of all organisms, and the atmospheric detection of phosphine suggests the existence of a volatile biogeochemical P cycle. Here, we investigate the ability of P to participate in the formation of OH···P hydrogen bonds. Three bimolecular alcohol-trimethylphosphine complexes have been detected. Initially, the complexes were detected using matrix isolation spectroscopy, which favors complex formation. Subsequently, the fundamental OH-stretching vibration was observed in room-temperature gas-phase spectra. On the basis of our measured OH-stretching frequency red shifts and quantum chemical calculations, we find that P is an acceptor atom similar in strength to O and S and that all three P, O, and S atoms are weaker acceptors than N. The quantum chemical calculations show that both H and P in the OH···P hydrogen bond have partial positive charges, as expected from their electronegativities. However, the electrostatic potentials show a negative potential area on the electron density surface around P that facilitates formation of hydrogen bonds.
Collapse
Affiliation(s)
- Anne S Hansen
- Department of Chemistry, University of Copenhagen, Universitetsparken 5, DK-2100 Copenhagen, Denmark
| | - Lin Du
- Department of Chemistry, University of Copenhagen, Universitetsparken 5, DK-2100 Copenhagen, Denmark
| | - Henrik G Kjaergaard
- Department of Chemistry, University of Copenhagen, Universitetsparken 5, DK-2100 Copenhagen, Denmark
| |
Collapse
|
29
|
Culik RM, Abaskharon RM, Pazos IM, Gai F. Experimental validation of the role of trifluoroethanol as a nanocrowder. J Phys Chem B 2014; 118:11455-61. [PMID: 25215518 PMCID: PMC4183368 DOI: 10.1021/jp508056w] [Citation(s) in RCA: 46] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
![]()
Trifluoroethanol
(TFE) is commonly used to induce protein secondary
structure, especially α-helix formation. Due to its amphiphilic
nature, however, TFE can also self-associate to form micellelike,
nanometer-sized clusters. Herein, we hypothesize that such clusters
can act as nanocrowders to increase protein folding rates via the
excluded volume effect. To test this hypothesis, we measure the conformational
relaxation kinetics of an intrinsically disordered protein, the phosphorylated
kinase inducible domain (pKID), which forms a helix–turn–helix
in TFE solutions. We find that the conformational relaxation rate
of pKID displays a rather complex dependence on TFE percentage (v/v):
while it first decreases between 0 and 5%, between 5 and 15% the rate
increases and then remains relatively unchanged between 15 and 30%
and finally decreases again at higher percentages (i.e., 50%). This
trend coincides with the fact that TFE clustering is maximized in
the range of 15–30%, thus providing validation of our hypothesis.
Another line of supporting evidence comes from the observation that
the relaxation rate of a monomeric helical peptide, which due to its
predominantly local interactions in the folded state is less affected
by crowding, does not show a similar TFE dependence.
Collapse
Affiliation(s)
- Robert M Culik
- Department of Biochemistry & Biophysics and ‡Department of Chemistry, University of Pennsylvania , Philadelphia, Pennsylvania 19104, United States
| | | | | | | |
Collapse
|
30
|
Vymětal J, Vondrášek J. Parametrization of 2,2,2-trifluoroethanol based on the generalized AMBER force field provides realistic agreement between experimental and calculated properties of pure liquid as well as water-mixed solutions. J Phys Chem B 2014; 118:10390-404. [PMID: 25110944 DOI: 10.1021/jp505861b] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Abstract
We present a novel force field model of 2,2,2-trifluoroethanol (TFE) based on the generalized AMBER force field. The model was exhaustively parametrized to reproduce liquid-state properties of pure TFE, namely, density, enthalpy of vaporization, self-diffusion coefficient, and population of trans and gauche conformers. The model predicts excellently other liquid-state properties such as shear viscosity, thermal expansion coefficient, and isotropic compressibility. The resulting model describes unexpectedly well the state equation of the liquid region in the range of 100 K and 10 MPa. More importantly, the proposed TFE model was optimized for use in combination with the TIP4P/Ew and TIP4P/2005 water models. It does not manifest excessive aggregation, which is known for other models, and therefore, it is supposed to more realistically describe the behavior of TFE/water mixtures. This was demonstrated by means of the Kirkwood-Buff theory of solutions and reasonable agreement with experimental data. We explored a considerable part of the parameter space and systematically tested individual combinations of parameters for performance in combination with the TIP4P/Ew and TIP4P/2005 water models. We observed ambiguity in parameters describing pure liquid TFE; however, most of them failed for TFE/water mixtures. We clearly demonstrated the necessity for balanced TFE-TFE, TFE-water, and water-water interactions which can be acquired only by employing implicit polarization correction in the course of parametrization.
Collapse
Affiliation(s)
- Jiří Vymětal
- Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic (AS CR) , Flemingovo nám. 2, 166 10 Praha 6, Czech Republic
| | | |
Collapse
|
31
|
Thomas J, Jäger W, Xu Y. Chirality Induction and Amplification in the 2,2,2‐Trifluoroethanol⋅⋅⋅Propylene Oxide Adduct. Angew Chem Int Ed Engl 2014; 53:7277-80. [DOI: 10.1002/anie.201403838] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2014] [Revised: 05/07/2014] [Indexed: 11/10/2022]
Affiliation(s)
- Javix Thomas
- Department of Chemistry, University of Alberta, Edmonton, AB, T6G 2G2 (Canada)
| | - Wolfgang Jäger
- Department of Chemistry, University of Alberta, Edmonton, AB, T6G 2G2 (Canada)
| | - Yunjie Xu
- Department of Chemistry, University of Alberta, Edmonton, AB, T6G 2G2 (Canada)
| |
Collapse
|
32
|
Thomas J, Xu Y. Structure and tunneling dynamics in a model system of peptide co-solvents: Rotational spectroscopy of the 2,2,2-trifluoroethanol⋯water complex. J Chem Phys 2014; 140:234307. [DOI: 10.1063/1.4883518] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
|
33
|
Thomas J, Xu Y. Chirality Synchronization in Trifluoroethanol Dimer Revisited: The Missing Heterochiral Dimer. J Phys Chem Lett 2014; 5:1850-1855. [PMID: 26273864 DOI: 10.1021/jz500718f] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Chirality self-recognition in the dimer of transient chiral 2,2,2-trifluoroethanol (TFE) is studied using chirped pulse and cavity-based Fourier transform microwave spectroscopy with the aid of ab initio calculations. The broad-band and extreme high-resolution capabilities enable us to assign rotational spectra of the most stable homo- and heterochiral dimers and analyze their structural and dynamical properties in detail. A strong preference for the homochiral over the heterochiral diastereomers is observed. The current study unambiguously identifies the structure of the most stable homochiral dimer and supports the identification by the previous low-resolution infrared study. More importantly, it also indisputably detects the so far elusive, most stable heterochiral dimer.
Collapse
Affiliation(s)
- Javix Thomas
- 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
|
34
|
Thomas J, Jäger W, Xu Y. Chirality Induction and Amplification in the 2,2,2‐Trifluoroethanol⋅⋅⋅Propylene Oxide Adduct. Angew Chem Int Ed Engl 2014. [DOI: 10.1002/ange.201403838] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Javix Thomas
- Department of Chemistry, University of Alberta, Edmonton, AB, T6G 2G2 (Canada)
| | - Wolfgang Jäger
- Department of Chemistry, University of Alberta, Edmonton, AB, T6G 2G2 (Canada)
| | - Yunjie Xu
- Department of Chemistry, University of Alberta, Edmonton, AB, T6G 2G2 (Canada)
| |
Collapse
|
35
|
Chen Y, Morisawa Y, Futami Y, Czarnecki MA, Wang HS, Ozaki Y. Combined IR/NIR and density functional theory calculations analysis of the solvent effects on frequencies and intensities of the fundamental and overtones of the C ═ O stretching vibrations of acetone and 2-hexanone. J Phys Chem A 2014; 118:2576-83. [PMID: 24654701 DOI: 10.1021/jp411855b] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Vibrational overtone studies primarily focus on X-H stretching overtone transitions, where X is an atom like C, O, N, or S. In contrast, the studies on the C ═ O stretching overtones are very scattered. To advance the research in this field, we measured the fundamental, first, and second overtones of the C ═ O stretching vibration of acetone and 2-hexanone in n-hexane, CCl4, and CHCl3, as well as in the vapor phase using FT-IR/FT-NIR spectroscopy. Density functional theory (DFT) calculations have also been performed to help the assignment of the C ═ O stretching bands and to guide interpretation of the experimental results. It was found that the wavenumbers, absorption intensities, and oscillator strengths of the C ═ O stretching bands show marked solvent dependence. In the fundamental and the first overtone regions, the intensities of the C ═ O stretching vibration were found to be pronouncedly more intense than those of the C-H stretching vibration. In the second overtone region, the intensities of the C-H stretching vibration are comparable to those of the C ═ O stretching vibration. The theoretical and observed decrease in integrated intensity upon going from the fundamental to the first overtone of the C ═ O stretching vibration is around 50, which is significantly larger than those of the O-H, C-H, and S-H stretching vibration. Both the calculated and experimental results suggest that excessive weakness in the C ═ O stretching overtone was shown to be a result of both a low anharmonicity and a substantial reduction in the oscillator strength. These results provide new insight into our understanding of the C ═ O stretching vibration.
Collapse
Affiliation(s)
- Yujing Chen
- School of Chemistry and Chemical Engineering, South China University of Technology , Guangzhou 510640, China
| | | | | | | | | | | |
Collapse
|
36
|
Zischang J, Suhm MA. The OH stretching spectrum of warm water clusters. J Chem Phys 2014; 140:064312. [DOI: 10.1063/1.4865130] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022] Open
|
37
|
Gerig JT. Toward a Molecular Dynamics Force Field for Simulations of 40% Trifluoroethanol–Water. J Phys Chem B 2014; 118:1471-80. [DOI: 10.1021/jp408879g] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- J. T. Gerig
- Department of Chemistry and
Biochemistry, University of California, Santa Barbara, Santa Barbara, California 93106, United States
| |
Collapse
|
38
|
Hansen AS, Du L, Kjaergaard HG. The effect of fluorine substitution in alcohol–amine complexes. Phys Chem Chem Phys 2014; 16:22882-91. [DOI: 10.1039/c4cp02500h] [Citation(s) in RCA: 55] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The effect of fluorine substitution on the hydrogen bond strength in alcohol–amine molecular complexes was investigated, with a combination of vapour phase infrared and near infrared spectroscopy and theoretical calculations.
Collapse
Affiliation(s)
- Anne S. Hansen
- Department of Chemistry
- University of Copenhagen
- Universitetsparken 5
- DK-2100 Copenhagen, Denmark
| | - Lin Du
- Department of Chemistry
- University of Copenhagen
- Universitetsparken 5
- DK-2100 Copenhagen, Denmark
| | - Henrik G. Kjaergaard
- Department of Chemistry
- University of Copenhagen
- Universitetsparken 5
- DK-2100 Copenhagen, Denmark
| |
Collapse
|
39
|
Jia X, Zhang JZ, Mei Y. Assessing the accuracy of the general AMBER force field for 2,2,2-trifluoroethanol as solvent. J Mol Model 2013; 19:2355-61. [DOI: 10.1007/s00894-013-1776-1] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2012] [Accepted: 01/17/2013] [Indexed: 10/27/2022]
|
40
|
Heger M, Scharge T, Suhm MA. From hydrogen bond donor to acceptor: the effect of ethanol fluorination on the first solvating water molecule. Phys Chem Chem Phys 2013; 15:16065-73. [DOI: 10.1039/c3cp53115e] [Citation(s) in RCA: 45] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
|
41
|
Suhm MA, Kollipost F. Femtisecond single-mole infrared spectroscopy of molecular clusters. Phys Chem Chem Phys 2013; 15:10702-21. [DOI: 10.1039/c3cp51515j] [Citation(s) in RCA: 69] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
|
42
|
Yamada Y, Noboru Y, Sakaguchi T, Nibu Y. Conformation of 2,2,2-Trifluoroethanol and the Solvation Structure of Its 2-Fluoropyridine Clusters. J Phys Chem A 2012; 116:2845-54. [DOI: 10.1021/jp300721r] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Affiliation(s)
- Yuji Yamada
- Department
of Chemistry, Faculty of Science, Fukuoka University, Jonan-ku, Fukuoka 814-0180, Japan
| | - Yusuke Noboru
- Department
of Chemistry, Faculty of Science, Fukuoka University, Jonan-ku, Fukuoka 814-0180, Japan
| | - Takuma Sakaguchi
- Department
of Chemistry, Faculty of Science, Fukuoka University, Jonan-ku, Fukuoka 814-0180, Japan
| | - Yoshinori Nibu
- Department
of Chemistry, Faculty of Science, Fukuoka University, Jonan-ku, Fukuoka 814-0180, Japan
| |
Collapse
|
43
|
Hazra MK, Kuang X, Sinha A. Influence of Intramolecular Hydrogen Bonding on OH-Stretching Overtone Intensities and Band Positions in Peroxyacetic Acid. J Phys Chem A 2011; 116:5784-95. [DOI: 10.1021/jp206637t] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Montu K. Hazra
- Department of Chemistry and Biochemistry, University of California, San Diego La Jolla, California 92093-0314, United States
| | | | - Amitabha Sinha
- Department of Chemistry and Biochemistry, University of California, San Diego La Jolla, California 92093-0314, United States
| |
Collapse
|
44
|
Maity S, Maity DK, Patwari GN. Interaction of Alcohols with 2-Fluoro- and 4-Fluorophenylacetylenes: Infrared-Optical Double Resonance Spectroscopic and Computational Investigation. J Phys Chem A 2011; 115:11229-37. [DOI: 10.1021/jp204286b] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Surajit Maity
- Department of Chemistry, Indian Institute of Technology Bombay, Powai, Mumbai 400076, India
| | - Dilip K. Maity
- Theoretical Chemistry Section, Chemistry Group, Bhabha Atomic Research Center, Trombay, Mumbai 400085, India
| | - G. Naresh Patwari
- Department of Chemistry, Indian Institute of Technology Bombay, Powai, Mumbai 400076, India
| |
Collapse
|
45
|
Hazra MK, Sinha A. Spectra and Integrated Band Intensities of the Low Order OH Stretching Overtones in Peroxyformic Acid: An Atmospheric Molecule with Prototypical Intramolecular Hydrogen Bonding. J Phys Chem A 2011; 115:5294-306. [DOI: 10.1021/jp112028c] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Affiliation(s)
- Montu K. Hazra
- Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093-0314, United States
| | - Amitabha Sinha
- Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093-0314, United States
| |
Collapse
|
46
|
Wassermann TN, Suhm MA. Ethanol Monomers and Dimers Revisited: A Raman Study of Conformational Preferences and Argon Nanocoating Effects. J Phys Chem A 2010; 114:8223-33. [DOI: 10.1021/jp104861q] [Citation(s) in RCA: 49] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Tobias N. Wassermann
- Institut für Physikalische Chemie, Universität Göttingen, Tammannstrasse 6, 37077 Göttingen, Germany
| | - Martin A. Suhm
- Institut für Physikalische Chemie, Universität Göttingen, Tammannstrasse 6, 37077 Göttingen, Germany
| |
Collapse
|
47
|
Scharge T, Wassermann TN, Suhm MA. Weak Hydrogen Bonds Make a Difference: Dimers of Jet-Cooled Halogenated Ethanols. ACTA ACUST UNITED AC 2009. [DOI: 10.1524/zpch.2008.5420] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
Abstract
Abstract
Hydrogen-bonded clusters of fluorinated and chlorinated ethanols exhibit rich isomerism in terms of monomer conformation, secondary contacts between the OH and CH groups and the halogen atoms, hydrogen bond topology, chirality recognition and acceptor lone electron pair choice. By expanding the six alcohols involving one to three fluorine or chlorine atoms at the methyl group in a supersonic slit jet expansion and by probing their monomer, dimer and trimer IR spectra between 800 and 4000 cm−1, this isomerism is unravelled in substantial detail. Argon relaxation experiments and complementary cluster Raman spectroscopy provide further information on the individual dimer conformations and on trimer assignments. Energy sequences, helicity- and topology-dependent OH red-shifts, differences between fluorine and chlorine, the influence of dispersion-like interactions and halogen number trends are uncovered and compared to systematic quantum-chemical calculations up to MP2/6–311+G* level. The experimental data provide rigorous reference values for an accurate and balanced quantum-mechanical description of weak hydrogen bond interactions to halogens in the presence of a strong hydrogen bond between oxygen atoms.
Collapse
|
48
|
Liu X, Borho N, Xu Y. Molecular Self-Recognition: Rotational Spectra of the Dimeric 2-Fluoroethanol Conformers. Chemistry 2009; 15:270-7. [DOI: 10.1002/chem.200802028] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
|
49
|
|
50
|
Zehnacker A, Suhm MA. Chirality recognition between neutral molecules in the gas phase. Angew Chem Int Ed Engl 2008; 47:6970-92. [PMID: 18696527 DOI: 10.1002/anie.200800957] [Citation(s) in RCA: 203] [Impact Index Per Article: 12.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
Noncovalent interactions are particularly intriguing when they involve chiral molecules, because the interactions change in a subtle way upon replacing one of the partners by its mirror image. The resulting phenomena involving chirality recognition are relevant in the biosphere, in organic synthesis, and in polymer design. They may be classified according to the permanent or transient chirality of the interacting partners, leading to chirality discrimination, chirality induction, and chirality synchronization processes. For small molecules, high-level quantum chemical calculations for such processes are feasible. To provide reliable connections between theory and experiment, such phenomena are best studied in vacuum isolation at low temperature, using rotational, vibrational, electronic, and photoionization spectroscopy. We review these techniques and the results which have become available in recent years, with special emphasis on dimers of permanently chiral molecules and on the influence of conformational flexibility. Analogies between the microscopic mechanisms and macroscopic phenomena and between intra- and intermolecular cases are drawn.
Collapse
Affiliation(s)
- Anne Zehnacker
- CNRS, Laboratoire de Photophysique Moléculaire, UPR3361, Univ. Paris-Sud, 91405 Orsay, France.
| | | |
Collapse
|