1
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Mahato B, Panda AN. Effect of Terminal Fluorination on Chiroptical Properties of Carbo[5-8]helicenes: A Systematic Computational Study at the RI-ADC(2) Level. J Phys Chem A 2023; 127:2284-2294. [PMID: 36882992 DOI: 10.1021/acs.jpca.2c08474] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/09/2023]
Abstract
In this article, effects of di-, tetra-, and octafluorination on the structural and chiroptical properties of carbo[5-8]helicenes are reported. Three fluorinated derivatives are designed from each parent carbohelicene by substituting either one, two, or four hydrogens at each terminal ring with fluorine atoms. Excited states properties such as UV-vis and CD spectra of all the six fluorinated carbohelicenes are computed at the ADC(2)/def2-TZVP level, and the results are compared against the results of their respective parent carbohelicene. In addition, CPL properties are also computed at the same level of theory. In the case of carbo[5]helicene (5H), gCPL decreases with an increase in the degree of fluorination. A similar observation is made in carbo[6]helicene (6H) too, although the value for tetrafluorinated 6H is slightly larger than for difluorinated 6H. Di- and tetrafluorination in carbo[7]helicene (7H), and all types of considered fluorination in carbo[8]helicene (8H) produce improved gCPL results. Results for fluorescence rate constants are also shown. Results are analyzed in terms of the transition dipole moment vectors and the angles between those.
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Affiliation(s)
- Bishwanath Mahato
- Department of Chemistry, Indian Institute of Technology Guwahati, Guwahati 781039, India
| | - Aditya N Panda
- Department of Chemistry, Indian Institute of Technology Guwahati, Guwahati 781039, India
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2
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Chen L, Feng Q, Wang C, Yin S, Mo Y. Classical Electrostatics Remains the Driving Force for Interanion Hydrogen and Halogen Bonding. J Phys Chem A 2021; 125:10428-10438. [PMID: 34818021 DOI: 10.1021/acs.jpca.1c09250] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Interanion hydrogen bonding (IAHB) and halogen bonding (IAXB) have emerged as a counterintuitive linker in a range of fascinating applications. Despite the overall repulsive (positive) binding energy, anions are trapped in a local minimum with its corresponding transition state (TS) preventing dissociation. In other words, the adduct of anions is metastable. Seemingly, the electrostatic paradigm and force field description of hydrogen/halogen bonding (HB/XB) are challenged, because of the preconceived Coulombic repulsion. Aiming at an insightful understanding of these interanion phenomena, we employed the energy decomposition approach based on the block-localized wavefunction method (BLW-ED) to investigate a series of exemplary interanion complexes. As expected, the key distinction from the conventional HB/XB lies in the electrostatic interaction, which is not increasingly repulsive as anions gradually approach to each other. Rather, there is a Coulombic barrier at a certain point. After this point, the electrostatic repulsion diminishes with the decreasing distance between anions. Differently, other energy components vary monotonically just like in conventional cases. The nonmonotonic characteristic of the electrostatic interaction in interanion complexes was reproduced using the multipole expansion in AMOEBA polarizable force field in which the state-specified atomic multipoles were adopted. This suggests that the nonmonotonicity can be well interpreted by classical electrostatic theory and there is no conceptual difference between conventional HB/XB and IAHB/IAXB. The stability of IAHB/IAXB depends on the competition between the local attractive HB/XB and the global Coulombic repulsion of net charges, though there is cooperativity between these two contrasting forces. This concise model was supported by the attractive IAHB/IAXB in modified molecular capsules, which exhibit strong quadruple HB/XBs and a considerable distance between charged substituents.
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Affiliation(s)
- Li Chen
- Key Laboratory for Macromolecular Science of Shaanxi Province, School of Chemistry & Chemical Engineering, Shaanxi Normal University, Xi'an 710119, China
| | - Qiuyan Feng
- Key Laboratory for Macromolecular Science of Shaanxi Province, School of Chemistry & Chemical Engineering, Shaanxi Normal University, Xi'an 710119, China
| | - Changwei Wang
- Key Laboratory for Macromolecular Science of Shaanxi Province, School of Chemistry & Chemical Engineering, Shaanxi Normal University, Xi'an 710119, China
| | - Shiwei Yin
- Key Laboratory for Macromolecular Science of Shaanxi Province, School of Chemistry & Chemical Engineering, Shaanxi Normal University, Xi'an 710119, China
| | - Yirong Mo
- Department of Nanoscience, Joint School of Nanoscience and Nanoengineering, University of North Carolina at Greensboro, Greensboro, North Carolina 27401, United States
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3
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Du J, Wang C, Yin S, Wang W, Mo Y. Resonance-assisted/impaired anion-π interaction: towards the design of novel anion receptors. RSC Adv 2020; 10:36181-36191. [PMID: 35517107 PMCID: PMC9056982 DOI: 10.1039/d0ra07877h] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2020] [Accepted: 09/23/2020] [Indexed: 01/23/2023] Open
Abstract
Substituents alter the electron density distribution in benzene in various ways, depending on their electron withdrawing and donating capabilities, as summarized by the empirical Hammett equation. The change of the π electron density distribution subsequently impacts the interaction of substituted benzenes or other cyclic conjugated rings with anions. Currently the design and synthesis of conjugated cyclic receptors capable of binding anions is an active field due to their applications in the sensing and removal of environmental contaminants and molecular recognition. By using the block-localized wavefunction (BLW) method, which is a variant of ab initio valence bond (VB) theory and can derive the reference resonance-free state self-consistently, we quantified the resonance-assisted (RA) or resonance-impaired (RI) phenomena in anion–π interactions from both structural and energetic perspectives. The frozen interaction, in which the electrostatic attraction is involved, has been shown to be the governing factor for the RA or RI interactions with anions. Energy analyses based on the empirical point charge (EPC) model indicated that the anion–π interactions can be simplified as the attraction between a negative point charge (anion) and a group of local dipoles, affected by the enriched or diminished π-cloud due to the resonance between the substituents and the conjugated ring. Hence, two strategies for the design of novel anion receptors can be envisioned. One is the enhancement of the magnitudes and/or numbers of local dipoles (polarized σ bonds), and the other is the reduction of π electron density in conjugated rings. For cases with the RI characteristics, “curved” aromatic molecules are preferred to be anion receptors. Indeed, extremely strong binding was found in complexes formed with fluorinated corannulene (F-CDD) and fluorinated [5]cycloparaphenylene (F-[5]CPP). Inspired by the RA phenomenon, complexes of p-, o- and m-benzoquinones with halides were revisited. Substituents alter the electron density distribution in benzene in various ways, depending on their electron withdrawing and donating capabilities, as summarized by the empirical Hammett equation.![]()
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Affiliation(s)
- Juan Du
- Key Laboratory for Macromolecular Science of Shaanxi Province, School of Chemistry & Chemical Engineering, Shaanxi Normal University Xi'an 710119 China
| | - Changwei Wang
- Key Laboratory for Macromolecular Science of Shaanxi Province, School of Chemistry & Chemical Engineering, Shaanxi Normal University Xi'an 710119 China
| | - Shiwei Yin
- Key Laboratory for Macromolecular Science of Shaanxi Province, School of Chemistry & Chemical Engineering, Shaanxi Normal University Xi'an 710119 China
| | - Wenliang Wang
- Key Laboratory for Macromolecular Science of Shaanxi Province, School of Chemistry & Chemical Engineering, Shaanxi Normal University Xi'an 710119 China
| | - Yirong Mo
- Department of Nanoscience Joint School of Nanoscience & Nanoengineering, University of North Carolina at Greensboro Greensboro NC 27401 USA
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4
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Cormanich RA, Zeoly LA, Santos H, Camilo NS, Bühl M, Coelho F. Origin of the Diastereoselectivity of the Heterogeneous Hydrogenation of a Substituted Indolizine. J Org Chem 2020; 85:11541-11548. [PMID: 32786618 PMCID: PMC7498159 DOI: 10.1021/acs.joc.0c01338] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
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In this work, the stereoselective
heterogeneous hydrogenation of
a tetrasubstituted indolizine was studied. Partial hydrogenation products
were obtained in three steps from a substituted pyridine-2-carboxaldehyde
prepared from commercial pyridoxine hydrochloride. The hydrogenation
of the indolizine ring was shown to be diastereoselective, forming trans-6b and cis-9. Theoretical calculations (ab initio and DFT) were
used to rationalize the unusual trans stereoselectivity
for 6b, and a keto–enol tautomerism under kinetic
control has been proposed as the source of diastereoselectivity.
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Affiliation(s)
- Rodrigo A Cormanich
- University of Campinas, Institute of Chemistry, Department of Organic Chemistry, PO Box 6154, 13083-970, Campinas, São Paulo, Brazil
| | - Lucas A Zeoly
- University of Campinas, Institute of Chemistry, Department of Organic Chemistry, PO Box 6154, 13083-970, Campinas, São Paulo, Brazil
| | - Hugo Santos
- University of Campinas, Institute of Chemistry, Department of Organic Chemistry, PO Box 6154, 13083-970, Campinas, São Paulo, Brazil
| | - Nilton S Camilo
- University of Campinas, Institute of Chemistry, Department of Organic Chemistry, PO Box 6154, 13083-970, Campinas, São Paulo, Brazil
| | - Michael Bühl
- School of Chemistry, University of St Andrews, North Haugh, St Andrews, Fife KY169ST, U.K
| | - Fernando Coelho
- University of Campinas, Institute of Chemistry, Department of Organic Chemistry, PO Box 6154, 13083-970, Campinas, São Paulo, Brazil
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DL-3-Aminoisobutyric acid: vibrational, NBO and AIM analysis of N-H⋯O bonded-zwitterionic dimer model. Heliyon 2019; 5:e01933. [PMID: 31286081 PMCID: PMC6587070 DOI: 10.1016/j.heliyon.2019.e01933] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2019] [Revised: 05/03/2019] [Accepted: 06/06/2019] [Indexed: 01/18/2023] Open
Abstract
A zwitterionic dimer model constructed of inter-molecular -N-H⋯O bonding has been proposed for the solid sample of DL-3-Aminoisobutyric acid consistent with IR absorption and Raman spectral features measured in the 3500-400/50 cm-1. This zwitterionic dimer model in water as solvent has been computed at B3LYP/6-311++G(d,p) and B3LYP-D3/6-311++G(d,p) levels including Grimme's dispersion correction associated with the -N-H⋯O interaction and SCRF-SMD method. Of the several possible monomer and dimer conformational structures, the most stable dimer constructed of two zwitterion monomer units has produced vibrational modes due to the -NH3 + cation and -CO2‾ anion involved in the -N-H⋯O bonding in fair agreement with the observed broad but composite IR modal features near the 3500-2000 cm-1. Except for the frequency of asymmetric stretching mode of the -NH3 + cation, its symmetric and bending modes agree with the observed values. As for the -CO2‾ anion, the frequencies of all of its modes are in good agreement with the experiment. Natural bond orbital (NBO), molecular electrostatic potential (MEP), atoms-in-molecules (AIM) and non-covalent interaction (NCI) analyses have been used to understand electronic characterization of the -N-H⋯O bonding.
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6
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Wang C, Danovich D, Shaik S, Wu W, Mo Y. Attraction between electrophilic caps: A counterintuitive case of noncovalent interactions. J Comput Chem 2018; 40:1015-1022. [DOI: 10.1002/jcc.25566] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2018] [Revised: 07/03/2018] [Accepted: 07/29/2018] [Indexed: 12/13/2022]
Affiliation(s)
- Changwei Wang
- School of Chemistry & Chemical EngineeringShaanxi Normal University Xi'an 710119 China
| | - David Danovich
- Institute of ChemistryThe Hebrew University Jerusalem 91904 Israel
| | - Sason Shaik
- Institute of ChemistryThe Hebrew University Jerusalem 91904 Israel
| | - Wei Wu
- Fujian Provincial Key Laboratory of Theoretical and Computational Chemistry and State Key Laboratory of Physical Chemistry of Solid Surfaces, College of Chemistry and Chemical EngineeringXiamen University Xiamen 360015 China
| | - Yirong Mo
- Department of ChemistryWestern Michigan University Kalamazoo Michigan 49008
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7
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Yost SR, Head-Gordon M. Efficient Implementation of NOCI-MP2 Using the Resolution of the Identity Approximation with Application to Charged Dimers and Long C–C Bonds in Ethane Derivatives. J Chem Theory Comput 2018; 14:4791-4805. [DOI: 10.1021/acs.jctc.8b00697] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Shane R. Yost
- Department of Chemistry and Biochemistry, Texas State University, San Marcos, Texas 78666, United States
- Department of Chemistry, University of California, Berkeley, California 94720, United States
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States
| | - Martin Head-Gordon
- Department of Chemistry, University of California, Berkeley, California 94720, United States
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States
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8
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Wang C, Fu Y, Zhang L, Danovich D, Shaik S, Mo Y. Hydrogen- and Halogen-Bonds between Ions of like Charges: Are They Anti-Electrostatic in Nature? J Comput Chem 2017; 39:481-487. [DOI: 10.1002/jcc.25068] [Citation(s) in RCA: 47] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2017] [Revised: 08/28/2017] [Accepted: 09/05/2017] [Indexed: 01/16/2023]
Affiliation(s)
- Changwei Wang
- Department of Chemistry, College of Science; China University of Petroleum (East China), Changjiangxi Road 66; 266580 Tsingtao China
| | - Yuzhuang Fu
- Department of Chemistry, College of Science; China University of Petroleum (East China), Changjiangxi Road 66; 266580 Tsingtao China
| | - Lina Zhang
- Department of Chemistry, College of Science; China University of Petroleum (East China), Changjiangxi Road 66; 266580 Tsingtao China
| | - David Danovich
- Institute of Chemistry; The Hebrew University; Jerusalem 91904 Israel
| | - Sason Shaik
- Institute of Chemistry; The Hebrew University; Jerusalem 91904 Israel
| | - Yirong Mo
- Department of Chemistry; Western Michigan University; Kalamazoo Michigan 49008
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9
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Wang C, Danovich D, Shaik S, Mo Y. Halogen Bonds in Novel Polyhalogen Monoanions. Chemistry 2017; 23:8719-8728. [DOI: 10.1002/chem.201701116] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2017] [Indexed: 11/11/2022]
Affiliation(s)
- Changwei Wang
- College of Science; China University of Petroleum (East China); Changjiangxi Road 66 266580 Tsingtao P. R. China
| | - David Danovich
- Institute of Chemistry and Lise Meitner Minerva Center for Computational Quantum Chemistry; The Hebrew University; Jerusalem 91904 Israel
| | - Sason Shaik
- Institute of Chemistry and Lise Meitner Minerva Center for Computational Quantum Chemistry; The Hebrew University; Jerusalem 91904 Israel
| | - Yirong Mo
- Department of Chemistry; Western Michigan University; Kalamazoo MI 49008 USA
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10
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Kumar S, Singh SK, Vaishnav JK, Hill JG, Das A. Interplay among Electrostatic, Dispersion, and Steric Interactions: Spectroscopy and Quantum Chemical Calculations of π-Hydrogen Bonded Complexes. Chemphyschem 2017; 18:828-838. [PMID: 28124829 DOI: 10.1002/cphc.201601405] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2016] [Revised: 01/24/2017] [Indexed: 11/07/2022]
Abstract
π-Hydrogen bonding interactions are ubiquitous in both materials and biology. Despite their relatively weak nature, great progress has been made in their investigation by experimental and theoretical methods, but this becomes significantly more complicated when secondary intermolecular interactions are present. In this study, the effect of successive methyl substitution on the supramolecular structure and interaction energy of indole⋅⋅⋅methylated benzene (ind⋅⋅⋅n-mb, n=1-6) complexes is probed through a combination of supersonic jet experiments and benchmark-quality quantum chemical calculations. It is demonstrated that additional secondary interactions introduce a subtle interplay among electrostatic and dispersion forces, as well as steric repulsion, which fine-tunes the overall structural motif. Resonant two-photon ionization and IR-UV double-resonance spectroscopy techniques are used to probe jet-cooled ind⋅⋅⋅n-mb (n=2, 3, 6) complexes, with redshifting of the N-H IR stretching frequency showing that increasing the degree of methyl substitution increases the strength of the primary N-H⋅⋅⋅π interaction. Ab initio harmonic frequency and binding energy calculations confirm this trend for all six complexes. Electronic spectra of the three dimers are broad and structureless, with quantum chemical calculations revealing that this is likely to be due to multiple tilted conformations of each dimer possessing similar stabilization energies.
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Affiliation(s)
- Sumit Kumar
- Department of Chemistry, Indian Institute of Science Education and Research (IISER), Dr. Homi Bhabha Road, Pashan, Pune, 411008, Maharashtra, India.,Present address: Department of Dynamics at Surfaces, Max Planck Institute of Biophysical Chemistry, Am Faßberg 11, 37077, Gottingen, Germany
| | - Santosh K Singh
- Department of Chemistry, Indian Institute of Science Education and Research (IISER), Dr. Homi Bhabha Road, Pashan, Pune, 411008, Maharashtra, India
| | - Jamuna K Vaishnav
- Department of Chemistry, Indian Institute of Science Education and Research (IISER), Dr. Homi Bhabha Road, Pashan, Pune, 411008, Maharashtra, India.,Present address: Indian Institute of Technology (IIT) Indore, Khandwa Rd, Simrol, Madhya, Pradesh, 452020, India
| | - J Grant Hill
- Department of Chemistry, University of Sheffield, Sheffield, S3 7HF, UK
| | - Aloke Das
- Department of Chemistry, Indian Institute of Science Education and Research (IISER), Dr. Homi Bhabha Road, Pashan, Pune, 411008, Maharashtra, India
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11
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Yamada H, Mochizuki Y, Fukuzawa K, Okiyama Y, Komeiji Y. Fragment molecular orbital (FMO) calculations on DNA by a scaled third-order Møller-Plesset perturbation (MP2.5) scheme. COMPUT THEOR CHEM 2017. [DOI: 10.1016/j.comptc.2016.12.008] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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12
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Maity S, Knochenmuss R, Holzer C, Féraud G, Frey J, Klopper W, Leutwyler S. Accurate dissociation energies of two isomers of the 1-naphthol⋅cyclopropane complex. J Chem Phys 2016; 145:164304. [DOI: 10.1063/1.4965821] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Affiliation(s)
- Surajit Maity
- Departement für Chemie und Biochemie, Universität Bern, Freiestrasse 3, CH-3000 Bern 9, Switzerland
| | - Richard Knochenmuss
- Departement für Chemie und Biochemie, Universität Bern, Freiestrasse 3, CH-3000 Bern 9, Switzerland
| | - Christof Holzer
- Karlsruher Institut für Technologie (KIT), Institut für Physikalische Chemie, Fritz-Haber-Weg 2, D-76131 Karlsruhe, Germany
| | - Géraldine Féraud
- Departement für Chemie und Biochemie, Universität Bern, Freiestrasse 3, CH-3000 Bern 9, Switzerland
| | - Jann Frey
- Departement für Chemie und Biochemie, Universität Bern, Freiestrasse 3, CH-3000 Bern 9, Switzerland
| | - Wim Klopper
- Karlsruher Institut für Technologie (KIT), Institut für Physikalische Chemie, Fritz-Haber-Weg 2, D-76131 Karlsruhe, Germany
| | - Samuel Leutwyler
- Departement für Chemie und Biochemie, Universität Bern, Freiestrasse 3, CH-3000 Bern 9, Switzerland
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13
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Singh SK, Vaishnav JK, Das A. Experimental observation of structures with subtle balance between strong hydrogen bond and weak n → π* interaction: Gas phase laser spectroscopy of 7-azaindole⋯fluorosubstituted pyridines. J Chem Phys 2016; 145:104302. [DOI: 10.1063/1.4962358] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023] Open
Affiliation(s)
- Santosh K. Singh
- Department of Chemistry, Indian Institute of Science Education and Research (IISER) Pune, Dr. Homi Bhabha Road, Pashan, Pune 411008, Maharashtra, India
| | - Jamuna K. Vaishnav
- Department of Chemistry, Indian Institute of Science Education and Research (IISER) Pune, Dr. Homi Bhabha Road, Pashan, Pune 411008, Maharashtra, India
| | - Aloke Das
- Department of Chemistry, Indian Institute of Science Education and Research (IISER) Pune, Dr. Homi Bhabha Road, Pashan, Pune 411008, Maharashtra, India
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14
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Frey JA, Holzer C, Klopper W, Leutwyler S. Experimental and Theoretical Determination of Dissociation Energies of Dispersion-Dominated Aromatic Molecular Complexes. Chem Rev 2016; 116:5614-41. [DOI: 10.1021/acs.chemrev.5b00652] [Citation(s) in RCA: 53] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Jann A. Frey
- Departement
für Chemie und Biochemie, Universität Bern, Freiestrasse 3, CH-3012 Bern, Switzerland
| | - Christof Holzer
- Institute of Physical Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 2, D-76131 Karlsruhe, Germany
| | - Wim Klopper
- Institute of Physical Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 2, D-76131 Karlsruhe, Germany
| | - Samuel Leutwyler
- Departement
für Chemie und Biochemie, Universität Bern, Freiestrasse 3, CH-3012 Bern, Switzerland
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15
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Trouillas P, Sancho-García JC, De Freitas V, Gierschner J, Otyepka M, Dangles O. Stabilizing and Modulating Color by Copigmentation: Insights from Theory and Experiment. Chem Rev 2016; 116:4937-82. [PMID: 26959943 DOI: 10.1021/acs.chemrev.5b00507] [Citation(s) in RCA: 299] [Impact Index Per Article: 37.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
Natural anthocyanin pigments/dyes and phenolic copigments/co-dyes form noncovalent complexes, which stabilize and modulate (in particular blue, violet, and red) colors in flowers, berries, and food products derived from them (including wines, jams, purees, and syrups). This noncovalent association and their electronic and optical implications constitute the copigmentation phenomenon. Over the past decade, experimental and theoretical studies have enabled a molecular understanding of copigmentation. This review revisits this phenomenon to provide a comprehensive description of the nature of binding (the dispersion and electrostatic components of π-π stacking, the hydrophobic effect, and possible hydrogen-bonding between pigment and copigment) and of spectral modifications occurring in copigmentation complexes, in which charge transfer plays an important role. Particular attention is paid to applications of copigmentation in food chemistry.
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Affiliation(s)
- Patrick Trouillas
- INSERM UMR 850, Univ. Limoges , Faculty of Pharmacy, 2 rue du Dr. Marcland, F-87025 Limoges, France.,Regional Centre of Advanced Technologies and Materials, Department of Physical Chemistry, Faculty of Science, Palacký University Olomouc , tr. 17. listopadu 12, 771 46 Olomouc, Czech Republic
| | - Juan C Sancho-García
- Departamento de Química Física, Universidad de Alicante , Apartado de Correos 99, E-03080 Alicante, Spain
| | - Victor De Freitas
- REQUIMTE/LAQV - Research Unit, Faculty of Science, Porto University , Rua do Campo Alegre, 4169-007 Porto, Portugal
| | - Johannes Gierschner
- Madrid Institute for Advanced Studies - IMDEA Nanoscience , C/Faraday 9, Ciudad Universitaria de Cantoblanco, E-28049 Madrid, Spain
| | - Michal Otyepka
- Regional Centre of Advanced Technologies and Materials, Department of Physical Chemistry, Faculty of Science, Palacký University Olomouc , tr. 17. listopadu 12, 771 46 Olomouc, Czech Republic
| | - Olivier Dangles
- University of Avignon, INRA, UMR408 SQPOV , F-84000 Avignon, France
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16
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Singh SK, Mishra KK, Sharma N, Das A. Direct Spectroscopic Evidence for an n→π* Interaction. Angew Chem Int Ed Engl 2016; 55:7801-5. [PMID: 26879929 DOI: 10.1002/anie.201511925] [Citation(s) in RCA: 47] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/24/2015] [Indexed: 11/12/2022]
Abstract
The n→π* interaction is an extremely weak but very important noncovalent interaction. Although this interaction is widely present in biomolecules and materials, its existence is counterintuitive and so has been debated extensively. Herein, we have reported direct spectroscopic evidence for an n→π* interaction for the first time by probing the carbonyl stretching frequency in phenyl formate using isolated gas-phase IR spectroscopy. This result also demonstrates that the conformational preference for the cis conformer of phenyl formate compared to the trans conformer arises due to the presence of the n→π* interaction in the former. The direct proof reported herein for this controversial but important noncovalent interaction should stimulate further experimental and theoretical investigation on this intriguing research topic.
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Affiliation(s)
- Santosh K Singh
- Department of Chemistry, Indian Institute of Science Education and Research, Dr. Homi Bhabha Road, Pune-, 411008, Maharashtra, India
| | - Kamal K Mishra
- Department of Chemistry, Indian Institute of Science Education and Research, Dr. Homi Bhabha Road, Pune-, 411008, Maharashtra, India
| | - Neha Sharma
- Department of Chemistry, Indian Institute of Science Education and Research, Dr. Homi Bhabha Road, Pune-, 411008, Maharashtra, India
| | - Aloke Das
- Department of Chemistry, Indian Institute of Science Education and Research, Dr. Homi Bhabha Road, Pune-, 411008, Maharashtra, India.
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17
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Singh SK, Mishra KK, Sharma N, Das A. Direct Spectroscopic Evidence for an n→π* Interaction. Angew Chem Int Ed Engl 2016. [DOI: 10.1002/ange.201511925] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Santosh K. Singh
- Department of Chemistry; Indian Institute of Science Education and Research; Dr. Homi Bhabha Road Pune- 411008 Maharashtra India
| | - Kamal K. Mishra
- Department of Chemistry; Indian Institute of Science Education and Research; Dr. Homi Bhabha Road Pune- 411008 Maharashtra India
| | - Neha Sharma
- Department of Chemistry; Indian Institute of Science Education and Research; Dr. Homi Bhabha Road Pune- 411008 Maharashtra India
| | - Aloke Das
- Department of Chemistry; Indian Institute of Science Education and Research; Dr. Homi Bhabha Road Pune- 411008 Maharashtra India
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18
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Gottschalk HC, Altnöder J, Heger M, Suhm MA. Ringmethylierung kontrolliert die Wasserstoffbrücken-Andockstelle bei Anisol. Angew Chem Int Ed Engl 2015. [DOI: 10.1002/ange.201508481] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Hannes C. Gottschalk
- Institut für Physikalische Chemie; Georg-August-Universität Göttingen; Tammannstraße 6 37077 Göttingen Deutschland
| | - Jonas Altnöder
- Institut für Physikalische Chemie; Georg-August-Universität Göttingen; Tammannstraße 6 37077 Göttingen Deutschland
| | - Matthias Heger
- Institut für Physikalische Chemie; Georg-August-Universität Göttingen; Tammannstraße 6 37077 Göttingen Deutschland
| | - Martin A. Suhm
- Institut für Physikalische Chemie; Georg-August-Universität Göttingen; Tammannstraße 6 37077 Göttingen Deutschland
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19
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Gottschalk HC, Altnöder J, Heger M, Suhm MA. Control over the Hydrogen-Bond Docking Site in Anisole by Ring Methylation. Angew Chem Int Ed Engl 2015; 55:1921-4. [DOI: 10.1002/anie.201508481] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2015] [Revised: 10/31/2015] [Indexed: 11/06/2022]
Affiliation(s)
- Hannes C. Gottschalk
- Institut für Physikalische Chemie; Georg-August-Universität Göttingen; Tammannstraße 6 37077 Göttingen Deutschland
| | - Jonas Altnöder
- Institut für Physikalische Chemie; Georg-August-Universität Göttingen; Tammannstraße 6 37077 Göttingen Deutschland
| | - Matthias Heger
- Institut für Physikalische Chemie; Georg-August-Universität Göttingen; Tammannstraße 6 37077 Göttingen Deutschland
| | - Martin A. Suhm
- Institut für Physikalische Chemie; Georg-August-Universität Göttingen; Tammannstraße 6 37077 Göttingen Deutschland
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20
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Delarami HS, Ebrahimi A. Theoretical investigation of the backbone···π and π···π stacking interactions in substituted-benzene||3-methyl-2′-deoxyadenosine: a perspective to the DNA repair. Mol Phys 2015. [DOI: 10.1080/00268976.2015.1118569] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Affiliation(s)
- Hojat Samareh Delarami
- Computational Quantum Chemistry Laboratory, Department of Chemistry, University of Sistan and Baluchestan, Zahedan, Iran
| | - Ali Ebrahimi
- Computational Quantum Chemistry Laboratory, Department of Chemistry, University of Sistan and Baluchestan, Zahedan, Iran
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21
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Aggregation of photosensitizers: the role of dispersion and solvation on dimer formation energetics. Theor Chem Acc 2015. [DOI: 10.1007/s00214-015-1732-5] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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22
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Balmer FA, Ottiger P, Leutwyler S. Experimental and Calculated Spectra of π-Stacked Mild Charge-Transfer Complexes: Jet-Cooled Perylene·(Tetrachloroethene)n, n = 1,2. J Phys Chem A 2015; 119:10462-74. [DOI: 10.1021/acs.jpca.5b08225] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Franziska A. Balmer
- Department
of Chemistry and
Biochemistry, University of Bern, Freiestrasse 3, CH-3012 Bern, Switzerland
| | - Philipp Ottiger
- Department
of Chemistry and
Biochemistry, University of Bern, Freiestrasse 3, CH-3012 Bern, Switzerland
| | - Samuel Leutwyler
- Department
of Chemistry and
Biochemistry, University of Bern, Freiestrasse 3, CH-3012 Bern, Switzerland
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23
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Heger M, Mata RA, Suhm MA. Soft hydrogen bonds to alkenes: the methanol-ethene prototype under experimental and theoretical scrutiny. Chem Sci 2015; 6:3738-3745. [PMID: 29218143 PMCID: PMC5707488 DOI: 10.1039/c5sc01002k] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2015] [Accepted: 04/23/2015] [Indexed: 02/05/2023] Open
Abstract
An FTIR spectroscopic study of the elusive hydrogen-bonded methanol-ethene complex, the most elementary example for weak intermolecular alcohol hydrogen bonding to a π cloud, is presented. By isolating the complex in a supersonic jet, the rigorous comparability to high-level quantum chemical calculations is ensured. In stark contrast to classical hydrogen bonds, experimental overtone analysis reveals the harmonic oscillator approximation for the OH red shift to be accurate. Harmonic calculations up to explicitly correlated local coupled-cluster level are thus found to agree very well with experiment. The experimental OH values for the red shift (45 cm-1), the small change in diagonal anharmonicity (-3 cm-1) and the overtone intensity attenuation (2 × 102-fold) together with theoretical predictions for the preferred structural arrangement and the zero-point-corrected dissociation energy (8 kJ mol-1) may thus be regarded as definitive reference values for related systems and for more approximate computational methods. In particular, MP2 calculations are shown to fail for this kind of weak intermolecular interaction.
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Affiliation(s)
- Matthias Heger
- Institut für Physikalische Chemie , Universität Göttingen , Tammannstr. 6 , 37077 Göttingen , Germany .
| | - Ricardo A Mata
- 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 .
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24
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Prakash M, Chambaud G, Al-Mogren MM, Hochlaf M. Role of size and shape selectivity in interaction between gold nanoclusters and imidazole: a theoretical study. J Mol Model 2014; 20:2534. [PMID: 25488624 DOI: 10.1007/s00894-014-2534-8] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2014] [Accepted: 11/17/2014] [Indexed: 11/26/2022]
Abstract
We present a theoretical study on the structure, stability, spectra and electronic properties of imidazole (Im) adsorbed on gold nanoclusters (Aun, n = 2, 4, 6, 8, 10, and 20). These computations were performed using various density functional theories with and without inclusion of Grimme's (D3) dispersion correction. For small clusters, we also carried out wavefunction-based ab initio (MP2 and SCS-MP2) computations for comparison. Vibrational, atoms in molecules (AIM) and natural bond orbital (NBO) analyses clearly reveal the occurrence of charge transfer (CT) through covalent (N1-Au) and noncovalent interactions that play important roles in the stability of the Im@Aun complexes with anchor assisted H-bonds (Cα-H · Au). Therefore, gold clusters can act as H-bond acceptors with biomolecules for development of new materials and applications. Our study establishes also the ability and reliability of PBE0 and M05-2X functionals compared to B3LYP and PBE for an accurate description of covalent and noncovalent interactions between Im and gold clusters since they lead to close agreement with MP2. Finally, we show that the Au8 cluster may be viewed as large enough to mimic the 3D gold surface.
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Affiliation(s)
- Muthuramalingam Prakash
- Laboratoire Modélisation et Simulation Multi Echelle, MSME UMR, Université Paris-Est, 8208 CNRS, 5 bd Descartes, 77454, Marne-la-Vallée, France
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25
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Esrafili MD, Mohammadirad N. Effect of cation–π interaction on lithium and halogen bonds: a comparative study. Mol Phys 2014. [DOI: 10.1080/00268976.2014.970594] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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26
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Ohnishi YY, Ishimura K, Ten-no S. Interaction Energy of Large Molecules from Restrained Denominator MP2-F12. J Chem Theory Comput 2014; 10:4857-61. [DOI: 10.1021/ct500738g] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Yu-ya Ohnishi
- Graduate
School of System Informatics, Kobe University, Nada-ku, Kobe 657-8501, Japan
| | - Kazuya Ishimura
- Institute
for
Molecular Science, Myodaiji, Okazaki 444-8585, Japan
| | - Seiichiro Ten-no
- Graduate
School of System Informatics, Kobe University, Nada-ku, Kobe 657-8501, Japan
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27
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Ahnen S, Hehn AS, Vogiatzis KD, Trachsel MA, Leutwyler S, Klopper W. Accurate computations of the structures and binding energies of the imidazole ⋯benzene and pyrrole ⋯benzene complexes. Chem Phys 2014. [DOI: 10.1016/j.chemphys.2014.05.023] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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28
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Biswas S, Kayaleh R, Pillai GG, Seon C, Roberts I, Popov V, Alamry KA, Katritzky AR. Long-Range Chemical Ligation from N→N Acyl Migrations in Tryptophan Peptides via Cyclic Transition States of 10- to 18-Members. Chemistry 2014; 20:8189-98. [DOI: 10.1002/chem.201400125] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2014] [Indexed: 11/07/2022]
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29
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Ha K, Lebedyeva I, Hamedzadeh S, Li Z, Quiñones R, Pillai GG, Williams B, Nasajpour A, Martin K, Asiri AM, Katritzky AR. Tandem Deprotection-Dimerization-Macrocyclization Route toC2Symmetriccyclo-Tetrapeptides. Chemistry 2014; 20:4874-9. [DOI: 10.1002/chem.201304262] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2013] [Revised: 12/24/2013] [Indexed: 11/08/2022]
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30
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31
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Frey JA, Ottiger P, Leutwyler S. Watson–Crick and Sugar-Edge Base Pairing of Cytosine in the Gas Phase: UV and Infrared Spectra of Cytosine·2-Pyridone. J Phys Chem B 2014; 118:682-91. [DOI: 10.1021/jp409660b] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Jann A. Frey
- Department
of Chemistry and
Biochemistry, University of Bern, Freiestrasse 3, CH-3012 Bern, Switzerland
| | - Philipp Ottiger
- Department
of Chemistry and
Biochemistry, University of Bern, Freiestrasse 3, CH-3012 Bern, Switzerland
| | - Samuel Leutwyler
- Department
of Chemistry and
Biochemistry, University of Bern, Freiestrasse 3, CH-3012 Bern, Switzerland
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32
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Balmer FA, Ottiger P, Pfaffen C, Leutwyler S. Structure and intermolecular vibrations of perylene·trans-1,2-dichloroethene, a weak charge-transfer complex. J Phys Chem A 2013; 117:10702-13. [PMID: 24063531 DOI: 10.1021/jp4069043] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Abstract
The vibronic spectra of strong charge-transfer complexes are often congested or diffuse and therefore difficult to analyze. We present the spectra of the π-stacked complex perylene trans-1,2-dichloroethene, which is in the limit of weak charge transfer, the electronic excitation remaining largely confined to the perylene moiety. The complex is formed in a supersonic jet, and its S0 ↔ S1 spectra are investigated by two-color resonant two-photon ionization (2C-R2PI) and fluorescence spectroscopies. Under optimized conditions, vibrationally cold (T(vib) ≈ 9 K) and well resolved spectra are obtained. These are dominated by vibrational progressions in the “hindered-rotation” Rc intermolecular vibration with very low frequencies of 11 (S0) and 13 cm(–1) (S1). The intermolecular Tz stretch and the Ra and Rb bend vibrations are also observed. The normally symmetry-forbidden intramolecular 1a(u) “twisting” vibration of perylene also appears, showing that the π- stacking interaction deforms the perylene moiety, lowering its local symmetry from D2h to D2. We calculate the structure and vibrations of this complex using six different density functional theory (DFT) methods (CAM-B3LYP, BH&HLYP, B97-D3, ωB97X-D, M06, and M06-2X) and compare the results to those calculated by correlated wave function methods (SCS-MP2 and SCS-CC2). The structures and vibrational frequencies predicted with the CAM-B3LYP and BH&HLYP methods disagree with the other calculations and with experiment. The other four DFT and the ab initio methods all predict a π-stacked “centered” structure with nearly coplanar perylene and dichloroethene moieties and intermolecular binding energies of D(e) = −20.8 to −26.1 kJ/mol. The 000 band of the S0 → S1 transition is red-shifted by δν = −301 cm(–1) relative to that of perylene, implying that the D(e) increases by 3.6 kJ/mol or 15% upon electronic excitation. The intermolecular vibrational frequencies are assigned to the calculated Rc, Tz, Ra, and Rb vibrations by comparing to the observed/calculated frequencies and S0 ↔ S1 Franck–Condon factors. Of the three TD-DFT methods tested, the hybrid-meta-GGA functional M06-2X shows the best agreement with the experimental electronic transition energies, spectral shifts, and vibronic spectra, closely followed by the ωB97X-D functional, while the M06 functional gives inferior results.
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Affiliation(s)
- Franziska A Balmer
- Department of Chemistry and Biochemistry, University of Bern , Freiestrasse 3, CH-3012 Bern, Switzerland
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33
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Kumar S, Das A. Observation of exclusively π-stacked heterodimer of indole and hexafluorobenzene in the gas phase. J Chem Phys 2013; 139:104311. [DOI: 10.1063/1.4820532] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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34
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Ebrahimi A, Karimi P, Akher FB, Behazin R, Mostafavi N. Investigation of the π–π stacking interactions without direct electrostatic effects of substituents: the aromatic∥aromatic and aromatic∥anti-aromatic complexes. Mol Phys 2013. [DOI: 10.1080/00268976.2013.830784] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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35
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Ha K, Lebedyeva I, Li Z, Martin K, Williams B, Faby E, Nasajpour A, Pillai GG, Al-Youbi AO, Katritzky AR. Conformationally Assisted Lactamizations for the Synthesis of Symmetrical and Unsymmetrical Bis-2,5-diketopiperazines. J Org Chem 2013; 78:8510-23. [DOI: 10.1021/jo401235k] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Affiliation(s)
- Khanh Ha
- Center for Heterocyclic
Compounds,
Department of Chemistry, University of Florida, Gainesville, Florida 32611-7200, United States
| | - Iryna Lebedyeva
- Center for Heterocyclic
Compounds,
Department of Chemistry, University of Florida, Gainesville, Florida 32611-7200, United States
| | - Zhiliang Li
- Center for Heterocyclic
Compounds,
Department of Chemistry, University of Florida, Gainesville, Florida 32611-7200, United States
| | - Kristin Martin
- Center for Heterocyclic
Compounds,
Department of Chemistry, University of Florida, Gainesville, Florida 32611-7200, United States
| | - Byron Williams
- Center for Heterocyclic
Compounds,
Department of Chemistry, University of Florida, Gainesville, Florida 32611-7200, United States
| | - Eric Faby
- Center for Heterocyclic
Compounds,
Department of Chemistry, University of Florida, Gainesville, Florida 32611-7200, United States
| | - Amir Nasajpour
- Center for Heterocyclic
Compounds,
Department of Chemistry, University of Florida, Gainesville, Florida 32611-7200, United States
| | - Girinath G. Pillai
- Center for Heterocyclic
Compounds,
Department of Chemistry, University of Florida, Gainesville, Florida 32611-7200, United States
- Institute of Chemistry, University of Tartu, Tartu 50411, Estonia
| | - Abdulrahman O. Al-Youbi
- Chemistry Department, Faculty
of Science, King Abdulaziz University,
Jeddah, 21589 Saudi Arabia
| | - Alan R. Katritzky
- Center for Heterocyclic
Compounds,
Department of Chemistry, University of Florida, Gainesville, Florida 32611-7200, United States
- Chemistry Department, Faculty
of Science, King Abdulaziz University,
Jeddah, 21589 Saudi Arabia
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36
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Bettinger HF, Hauler O. Ring opening of 2-aza-3-borabicyclo[2.2.0]hex-5-ene, the Dewar form of 1,2-dihydro-1,2-azaborine: stepwise versus concerted mechanisms. Beilstein J Org Chem 2013; 9:761-6. [PMID: 23766788 PMCID: PMC3678608 DOI: 10.3762/bjoc.9.86] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2013] [Accepted: 03/21/2013] [Indexed: 11/23/2022] Open
Abstract
The ring opening of the Dewar form of 1,2-dihydro-1,2-azaborine, 2-aza-3-borabicyclo[2.2.0]hex-5-ene (3) is investigated by theoretical methods by using multiconfiguration SCF (CASSCF) and coupled cluster theory [CCSD(T)] with basis sets up to polarised quadruple-zeta quality. The title compound was previously reported to form photochemically in cryogenic noble gas matrices from 1,2-dihydro-1,2-azaborine (4). Four reaction paths for the thermal ring opening of 3 to 4 could be identified. These are the conventional disrotatory and conrotatory electrocyclic ring-opening pathways where the BN unit is only a bystander. Two more favourable paths are stepwise and involve 1,3-boron-carbon interactions. The lowest energy barrier for the isomerisation reaction, 22 kcal mol(-1), should be high enough for an experimental observation in solution. However, in solution the dimerisation of 3 is computed to have a very low barrier (3 kcal mol(-1)), and thus 3 is expected to be a short-lived reactive intermediate.
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Affiliation(s)
- Holger F Bettinger
- Institut für Organische Chemie, Universität Tübingen, Auf der Morgenstelle 18, 72072 Tübingen, Germany
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37
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Goerigk L, Karton A, Martin JML, Radom L. Accurate quantum chemical energies for tetrapeptide conformations: why MP2 data with an insufficient basis set should be handled with caution. Phys Chem Chem Phys 2013; 15:7028-31. [DOI: 10.1039/c3cp00057e] [Citation(s) in RCA: 61] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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38
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Koukaras EN, Papadimitriou SA, Bikiaris DN, Froudakis GE. Insight on the formation of chitosan nanoparticles through ionotropic gelation with tripolyphosphate. Mol Pharm 2012; 9:2856-62. [PMID: 22845012 DOI: 10.1021/mp300162j] [Citation(s) in RCA: 139] [Impact Index Per Article: 11.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Abstract
This work reports details pertaining to the formation of chitosan nanoparticles that we prepare by the ionic gelation method. The molecular interactions of the ionic cross-linking of chitosan with tripolyphosphate have been investigated and elucidated by means of all-electron density functional theory. Solvent effects have been taken into account using implicit models. We have identified primary-interaction ionic cross-linking configurations that we define as H-link, T-link, and M-link, and we have quantified the corresponding interaction energies. H-links, which display high interaction energies and are also spatially broadly accessible, are the most probable cross-linking configurations. At close range, proton transfer has been identified, with maximum interaction energies ranging from 12.3 up to 68.3 kcal/mol depending on the protonation of the tripolyphosphate polyanion and the relative coordination of chitosan with tripolyphosphate. On the basis of our results for the linking types (interaction energies and torsion bias), we propose a simple mechanism for their impact on the chitosan/TPP nanoparticle formation process. We introduce the β ratio, which is derived from the commonly used α ratio but is more fundamental since it additionally takes into account structural details of the oligomers.
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Affiliation(s)
- Emmanuel N Koukaras
- Laboratory of Molecular Engineering, Department of Physics, University of Patras, Patras, Greece
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39
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Marianski M, Oliva A, Dannenberg JJ. A reinvestigation of the dimer of para-benzoquinone and pyrimidine with MP2, CCSD(T), and DFT using functionals including those designed to describe dispersion. J Phys Chem A 2012; 116:8100-5. [PMID: 22765283 PMCID: PMC3586993 DOI: 10.1021/jp3050274] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
We reevaluate the interaction of pyridine and p-benzoquinone using functionals designed to treat dispersion. We compare the relative energies of four different structures: stacked, T-shaped (identified for the first time), and two planar H-bonded geometries using these functionals (B97-D, ωB97x-D, M05, M05-2X, M06, M06L, and M06-2X), other functionals (PBE1PBE, B3LYP, X3LYP), MP2, and CCSD(T) using basis sets as large as cc-pVTZ. The functionals designed to treat dispersion behave erratically as the predictions of the most stable structure vary considerably. MP2 predicts the experimentally observed structure (H-bonded) to be the least stable, while single-point CCSD(T) at the MP2 optimized geometry correctly predicts the observed structure to be the most stable. We have confirmed the assignment of the experimental structure using new calculations of the vibrational frequency shifts previously used to identify the structure. The MP2/cc-pVTZ vibrational calculations are in excellent agreement with the observations. All methods used to calculate the energies provide vibrational shifts that agree with the observed structure even though most do not predict this structure to be most stable. The implications for evaluating possible π-stacking in biologically important systems are discussed.
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40
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Riley KE, Platts JA, Řezáč J, Hobza P, Hill JG. Assessment of the Performance of MP2 and MP2 Variants for the Treatment of Noncovalent Interactions. J Phys Chem A 2012; 116:4159-69. [DOI: 10.1021/jp211997b] [Citation(s) in RCA: 102] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Affiliation(s)
- Kevin E. Riley
- Institute of Organic Chemistry
and Biochemistry, Academy of Sciences of the Czech Republic, Czech Republic
| | - James A. Platts
- School
of Chemistry, Cardiff University, Park
Place, Cardiff CF10 3AT,
United Kingdom
| | - Jan Řezáč
- Institute of Organic Chemistry
and Biochemistry, Academy of Sciences of the Czech Republic, Czech Republic
| | - Pavel Hobza
- Institute of Organic Chemistry
and Biochemistry, Academy of Sciences of the Czech Republic, Czech Republic
- Regional Center
of Advanced Technologies
and Materials, Department of Physical Chemistry, Palacky University, 771 46 Olomouc, Czech Republic
| | - J. Grant Hill
- School of Chemistry, University of Glasgow, Joseph Black Building, University
Avenue, Glasgow G12 8QQ, United Kingdom
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41
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Lan Y, Zou L, Cao Y, Houk KN. Computational Methods To Calculate Accurate Activation and Reaction Energies of 1,3-Dipolar Cycloadditions of 24 1,3-Dipoles. J Phys Chem A 2011; 115:13906-20. [DOI: 10.1021/jp207563h] [Citation(s) in RCA: 108] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Affiliation(s)
- Yu Lan
- Department of Chemistry and Biochemistry, University of California, Los Angeles, California 90095-1569, United States
| | - Lufeng Zou
- Department of Chemistry and Biochemistry, University of California, Los Angeles, California 90095-1569, United States
| | - Yang Cao
- Department of Chemistry and Biochemistry, University of California, Los Angeles, California 90095-1569, United States
| | - K. N. Houk
- Department of Chemistry and Biochemistry, University of California, Los Angeles, California 90095-1569, United States
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42
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Kulkarni C, Reddy SK, George SJ, Balasubramanian S. Cooperativity in the stacking of benzene-1,3,5-tricarboxamide: The role of dispersion. Chem Phys Lett 2011. [DOI: 10.1016/j.cplett.2011.09.028] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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43
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Cirtog M, Alikhani ME, Madebène B, Soulard P, Asselin P, Tremblay B. Bonding Nature and Vibrational Signatures of Oxirane:(Water)n=1–3. Assessment of the Performance of the Dispersion-Corrected DFT Methods Compared to the ab initio Results and Fourier Transform Infrared Experimental Data. J Phys Chem A 2011; 115:6688-701. [DOI: 10.1021/jp202867t] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
Affiliation(s)
- M. Cirtog
- UPMC Université Paris 06, UMR 7075, Laboratoire de Dynamique, Interactions et Réactivité (LADIR), F-75005, Paris, France
- CNRS, UMR 7075, Laboratoire de Dynamique, Interactions et Réactivité (LADIR), F-75005, Paris, France
| | - M. E. Alikhani
- UPMC Université Paris 06, UMR 7075, Laboratoire de Dynamique, Interactions et Réactivité (LADIR), F-75005, Paris, France
- CNRS, UMR 7075, Laboratoire de Dynamique, Interactions et Réactivité (LADIR), F-75005, Paris, France
| | - B. Madebène
- UPMC Université Paris 06, UMR 7075, Laboratoire de Dynamique, Interactions et Réactivité (LADIR), F-75005, Paris, France
- CNRS, UMR 7075, Laboratoire de Dynamique, Interactions et Réactivité (LADIR), F-75005, Paris, France
| | - P. Soulard
- UPMC Université Paris 06, UMR 7075, Laboratoire de Dynamique, Interactions et Réactivité (LADIR), F-75005, Paris, France
- CNRS, UMR 7075, Laboratoire de Dynamique, Interactions et Réactivité (LADIR), F-75005, Paris, France
| | - P. Asselin
- UPMC Université Paris 06, UMR 7075, Laboratoire de Dynamique, Interactions et Réactivité (LADIR), F-75005, Paris, France
- CNRS, UMR 7075, Laboratoire de Dynamique, Interactions et Réactivité (LADIR), F-75005, Paris, France
| | - B. Tremblay
- UPMC Université Paris 06, UMR 7075, Laboratoire de Dynamique, Interactions et Réactivité (LADIR), F-75005, Paris, France
- CNRS, UMR 7075, Laboratoire de Dynamique, Interactions et Réactivité (LADIR), F-75005, Paris, France
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Bachorz RA, Bischoff FA, Glöss A, Hättig C, Höfener S, Klopper W, Tew DP. The MP2-F12 method in the Turbomole program package. J Comput Chem 2011; 32:2492-513. [PMID: 21590779 DOI: 10.1002/jcc.21825] [Citation(s) in RCA: 91] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2010] [Revised: 03/25/2011] [Accepted: 03/27/2011] [Indexed: 01/21/2023]
Abstract
A detailed description of the explicitly correlated second-order Møller-Plesset perturbation theory (MP2-F12) method, as implemented in the TURBOMOLE program package, is presented. The TURBOMOLE implementation makes use of density fitting, which greatly reduces the prefactor for integral evaluation. Methods are available for the treatment of ground states of open- and closed-shell species, using unrestricted as well as restricted (open-shell) Hartree-Fock reference determinants. Various methodological choices and approximations are discussed. The performance of the TURBOMOLE implementation is illustrated by example calculations of the molecules leflunomide, prednisone, methotrexate, ethylenedioxytetrafulvalene, and a cluster model for the adsorption of methanol on the zeolite H-ZSM-5. Various basis sets are used, including the correlation-consistent basis sets specially optimized for explicitly correlated calculations (cc-pVXZ-F12).
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Affiliation(s)
- Rafał A Bachorz
- Center for Functional Nanostructures (CFN, Karlsruhe Institute of Technology, Karlsruhe, Germany
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45
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de Wergifosse M, Champagne B. Electron correlation effects on the first hyperpolarizability of push–pull π-conjugated systems. J Chem Phys 2011; 134:074113. [DOI: 10.1063/1.3549814] [Citation(s) in RCA: 156] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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46
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Riley KE, Pitonák M, Jurecka P, Hobza P. Stabilization and structure calculations for noncovalent interactions in extended molecular systems based on wave function and density functional theories. Chem Rev 2010; 110:5023-63. [PMID: 20486691 DOI: 10.1021/cr1000173] [Citation(s) in RCA: 562] [Impact Index Per Article: 40.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Kevin E Riley
- Department of Chemistry, University of Puerto Rico, Rio Piedras, Puerto Rico 00931
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Abstract
First, different approaches to detect hydrogen bonds and to evaluate their energies are introduced newly or are extended. Supermolecular interaction energies of 256 dimers, each containing one single hydrogen bond, were correlated to various descriptors by a fit function depending both on the donor and acceptor atoms of the hydrogen bond. On the one hand, descriptors were orbital-based parameters as the two-center or three-center shared electron number, products of ionization potentials and shared electron numbers, and the natural bond orbital interaction energy. On the other hand, integral descriptors examined were the acceptor-proton distance, the hydrogen bond angle, and the IR frequency shift of the donor-proton stretching vibration. Whereas an interaction energy dependence on 1/r(3.8) was established, no correlation was found for the angle. Second, the fit functions are applied to hydrogen bonds in polypeptides, amino acid dimers, and water cluster, thus their reliability is demonstrated. Employing the fit functions to assign intramolecular hydrogen bond energies in polypeptides, several side chain CH...O and CH...N hydrogen bonds were detected on the fly. Also, the fit functions describe rather well intermolecular hydrogen bonds in amino acid dimers and the cooperativity of hydrogen bond energies in water clusters.
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Affiliation(s)
- Katharina Wendler
- Lehrstuhl für Theoretische Chemie, Wilhelm-Ostwald-Institut für Physikalische und Theoretische Chemie, Universität Leipzig, Germany
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Fink RF. Spin-component-scaled Møller–Plesset (SCS-MP) perturbation theory: A generalization of the MP approach with improved properties. J Chem Phys 2010; 133:174113. [DOI: 10.1063/1.3503041] [Citation(s) in RCA: 76] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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49
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Mahadevi AS, Rahalkar AP, Gadre SR, Sastry GN. Ab initio investigation of benzene clusters: Molecular tailoring approach. J Chem Phys 2010; 133:164308. [DOI: 10.1063/1.3494536] [Citation(s) in RCA: 68] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023] Open
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50
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Cuypers R, Murali S, Marcelis ATM, Sudhölter EJR, Zuilhof H. Complexation of Phenol and Thiophenol by Amine N-Oxides: Isothermal Titration Calorimetry and ab Initio Calculations. Chemphyschem 2010; 11:3465-73. [DOI: 10.1002/cphc.201000482] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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