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Gorbachev V, Miloglyadova L, Chen P. An automatic variable laser power attenuator for continuous-wave quantum cascade lasers in cryogenic ion vibrational predissociation spectroscopy. THE REVIEW OF SCIENTIFIC INSTRUMENTS 2024; 95:093002. [PMID: 39240148 DOI: 10.1063/5.0189140] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/27/2023] [Accepted: 08/13/2024] [Indexed: 09/07/2024]
Abstract
Cryogenic ion vibrational predissociation (CIVP) spectroscopy is an established and valuable technique for molecular elucidation in the gas phase. CIVP relies on tunable lasers, wherein among typical laser schemes, the application of mid-infrared continuous-wave quantum cascade laser (cw-QCL) is the most robust and elegant solution, as we have recently demonstrated. However, potential challenges arise from an inhomogeneous character across laser power tuning curves. A large laser power output could have undesired consequences, such as multiphoton absorption or saturation effects. Significant variations in laser power tuning curves could potentially alter the shape of the investigated band, particularly for diffuse bands. In this study, we have developed and introduced an automatic variable laser power attenuator designed to keep the laser power output uniform at a user-defined value across the entire available spectral range. We demonstrated the application of this attenuator in obtaining CIVP spectra of a model compound with a diffuse N-H-N band. This approach enhances the reliability of measuring diffuse bands and overall applicability of cw-QCL.
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Affiliation(s)
- Vladimir Gorbachev
- Laboratorium für Organische Chemie, Department of Chemistry and Applied Biosciences, ETH Zürich, 8093 Zürich, Switzerland
| | - Larisa Miloglyadova
- Laboratorium für Organische Chemie, Department of Chemistry and Applied Biosciences, ETH Zürich, 8093 Zürich, Switzerland
| | - Peter Chen
- Laboratorium für Organische Chemie, Department of Chemistry and Applied Biosciences, ETH Zürich, 8093 Zürich, Switzerland
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2
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Paenurk E, Chen P. Robustness of Threshold Collision-Induced Dissociation Simulations for Bond Dissociation Energies. J Phys Chem A 2024; 128:333-342. [PMID: 38155581 DOI: 10.1021/acs.jpca.3c06862] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2023]
Abstract
The threshold collision-induced dissociation (T-CID) method is the workhorse for gas-phase bond dissociation energy (BDE) measurements. However, T-CID does not measure BDEs directly; instead, BDEs are obtained by fitting simulated data to the experimental data. We previously observed several large discrepancies between the computed and experimental BDEs. To analyze the reliability of the experimental values, we previously reported a study of the dissociation rate models in the simulation. Here, we report a study of the collision simulation part, specifically in the L-CID (ligand CID) program. We show that the BDE values are robust even to intentionally introduced mistakes in the simulations, varying in most cases by less than 3 kcal mol-1. The most significant exception is the collisional energy transfer (CET) simulation, which led to deviations larger than 10 kcal mol-1. However, we found that the BDEs obtained with explicitly simulated CET distributions deviated by only 3 kcal mol-1 from those simulated with the original model. Collectively, our results suggest that the T-CID-derived BDE values are robust and are likely to be accurate.
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Affiliation(s)
- Eno Paenurk
- Department of Chemistry and Applied Biosciences, ETH Zürich, Zürich 8093, Switzerland
- Department of Chemistry, Yale University, New Haven, Connecticut 06520, United States
| | - Peter Chen
- Department of Chemistry and Applied Biosciences, ETH Zürich, Zürich 8093, Switzerland
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3
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Tsybizova A, Fritsche L, Miloglyadova L, Kräutler B, Chen P. Cryogenic Ion Vibrational Predissociation (CIVP) Spectroscopy of Aryl Cobinamides in the Gas Phase: How Good Are the Calculations for Vitamin B 12 Derivatives? J Am Chem Soc 2023; 145:19561-19570. [PMID: 37656981 PMCID: PMC10510309 DOI: 10.1021/jacs.3c03001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2023] [Indexed: 09/03/2023]
Abstract
Aryl corrins represent a novel class of designed B12 derivatives with biological properties of "antivitamins B12". In our previous study, we experimentally determined bond strength in a series of aryl-corrins by the threshold collision-induced dissociation experiments (T-CID) and compared the measured bond dissociation energies (BDEs) with those calculated with density functional theory (DFT). We found that the BDEs are modulated by the side chains around the periphery of the corrin unit. Given that aryl cobinamides have many side chains that increase their conformational space and that the question of a specific structure, measured in the gas phase, was important for further evaluation of our T-CID experiment, we proceeded to analyze structural properties of aryl cobinamides using cryogenic ion vibrational predissociation (CIVP) spectroscopy, static DFT, and Born-Oppenheimer molecular dynamic (BOMD) simulations. We found that none of the examined DFT models could reproduce the CIVP spectra convincingly; both "static" DFT calculations and "dynamic" BOMD simulations provide a surprisingly poor representation of the vibrational spectra, specifically of the number, position, and intensity of bands assigned to hydrogen-bonded versus non-hydrogen-bonded NH and OH moieties. We conclude that, for a flexible molecule with ca. 150 atoms, more accurate approaches are needed before definitive conclusions about computed properties, specifically the structure of the ground-state conformer, may be made.
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Affiliation(s)
- Alexandra Tsybizova
- Laboratorium
für Organische Chemie, ETH Zurich, Vladimir-Prelog-Weg 2, CH-8093 Zurich, Switzerland
| | - Lukas Fritsche
- Laboratorium
für Organische Chemie, ETH Zurich, Vladimir-Prelog-Weg 2, CH-8093 Zurich, Switzerland
| | - Larisa Miloglyadova
- Laboratorium
für Organische Chemie, ETH Zurich, Vladimir-Prelog-Weg 2, CH-8093 Zurich, Switzerland
| | - Bernhard Kräutler
- Institute
of Organic Chemistry, University of Innsbruck, Innrain 80/82, 6020 Innsbruck, Austria
| | - Peter Chen
- Laboratorium
für Organische Chemie, ETH Zurich, Vladimir-Prelog-Weg 2, CH-8093 Zurich, Switzerland
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Quesada JV, Chmela J, Greisch JF, Klopper W, Harding ME. A litmus test for the balanced description of dispersion interactions and coordination chemistry of lanthanoids. Phys Chem Chem Phys 2022; 24:25106-25117. [PMID: 35920212 DOI: 10.1039/d2cp01414a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The influence of long-range interactions on the structure of complexes of Eu(III) with four 9-hydroxy-phenalen-1-one ligands (HPLN) and one alkaline earth metal dication [Eu(PLN)4AE]+ (AE: Mg, Ca, Sr, and Ba) is analyzed. Through the [Eu(PLN)4Ca]+ complex, which is a charged complex with two metals-one of them a lanthanoid-and with four relatively fluxional π-ligands, the difficulties of describing such systems are identified. The inclusion of the D3(BJ) or D4 corrections to different density functionals introduces significant changes in the structure, which are shown to stem from the interaction between pairs of PLN ligands. This interaction is studied further with a variety of density functionals, wave-function based methods, and by means of the random phase approximation. By comparing the computed results with those from experimental evidence of gas-phase photoluminescence and ion mobility measurements it is concluded that the inclusion of dispersion corrections does not always yield structures that are in agreement with the experimental findings.
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Affiliation(s)
- Juana Vázquez Quesada
- Institut für Physikalische Chemie, Karlsruher Institut für Technologie (KIT), Campus Süd, Postfach 6980, D-76049 Karlsruhe, Germany.
| | - Jiří Chmela
- Institut für Physikalische Chemie, Karlsruher Institut für Technologie (KIT), Campus Süd, Postfach 6980, D-76049 Karlsruhe, Germany.
| | - Jean-François Greisch
- Institut für Nanotechnologie, Karlsruher Institut für Technologie (KIT), Campus Nord, Postfach 3640, D-76021 Karlsruhe, Germany.
| | - Wim Klopper
- Institut für Physikalische Chemie, Karlsruher Institut für Technologie (KIT), Campus Süd, Postfach 6980, D-76049 Karlsruhe, Germany. .,Institut für Nanotechnologie, Karlsruher Institut für Technologie (KIT), Campus Nord, Postfach 3640, D-76021 Karlsruhe, Germany.
| | - Michael E Harding
- Institut für Nanotechnologie, Karlsruher Institut für Technologie (KIT), Campus Nord, Postfach 3640, D-76021 Karlsruhe, Germany.
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Gubler J, Radić M, Stöferle Y, Chen P. 2‐Aminoalkylgold Complexes: The Putative Intermediate in Au‐Catalyzed Hydroamination of Alkenes Does Not Protodemetalate. Chemistry 2022; 28:e202200332. [PMID: 35319803 PMCID: PMC9401602 DOI: 10.1002/chem.202200332] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2022] [Indexed: 11/30/2022]
Abstract
Au‐catalyzed hydroamination proceeds well for alkynes but not alkenes. We report gas‐phase binding energies of alkenes and alkynes to a cationic Au center, which indicate that differences in binding are not the origin of the disparate chemical behavior. We further report the synthesis and characterization of 2‐aminoalkylgold complexes, which would be the intermediates in a hypothetical Au‐catalyzed hydroamination of styrene. The reactivity of the well‐characterized and isolable complexes reveals that protonation or alkylation of the 2‐aminoalkylgold complexes results in amine elimination in solution, and in the gas phase, indicating that the failure of Au‐catalyzed alkene hydroamination derives from a non‐competitive protodeauration step. We analyze possible transition states for the protodeauration, and identify an insufficiently strong Au‐proton interaction as the reason that the transition states lie too high in energy to compete.
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Affiliation(s)
- Joël Gubler
- Laboratorium für Organische Chemie ETH Zürich Rämistrasse 101 8092 Zürich Switzerland
| | - Mitar Radić
- Laboratorium für Organische Chemie ETH Zürich Rämistrasse 101 8092 Zürich Switzerland
| | - Yannick Stöferle
- Laboratorium für Organische Chemie ETH Zürich Rämistrasse 101 8092 Zürich Switzerland
| | - Peter Chen
- Laboratorium für Organische Chemie ETH Zürich Rämistrasse 101 8092 Zürich Switzerland
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Oeschger RJ, Bissig R, Chen P. Model Compounds for Intermediates and Transition States in Sonogashira and Negishi Coupling: d8- d10 Bonds in Large Heterobimetallic Complexes Are Weaker than Computational Chemistry Predicts. J Am Chem Soc 2022; 144:10330-10343. [PMID: 35639626 DOI: 10.1021/jacs.2c01641] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We report an experimental study, with accompanying DFT calculations, on a series of heterobimetallic complexes with Pd(II) and Cu(I), Ag(I), or Au(I). The isolable pincer complexes are models for the intermediates and transition state for the transmetalation step in Sonogashira and Negishi coupling reactions, among which, according to the DFT calculations, only the transition state has the two metal centers within bonding distance. Furthermore, we report a substituted version of an analogous heterobimetallic complex in which a competing dissociation sets an upper-bound on the strength of the d8-d10 metal-metal bond. Analysis of the structures in the solid state and in solution, and the competitive dissociation experiment in the gas phase, indicate that the dispersion-corrected DFT method used in the study appears to overestimate the strength of the metal-metal interaction, thus distorting the shape of the computed potential energy surface systematically for transmetalation.
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Affiliation(s)
- Raphael J Oeschger
- Laboratorium für Organische Chemie, ETH Zürich, CH-8093 Zürich, Switzerland
| | - Raphael Bissig
- Laboratorium für Organische Chemie, ETH Zürich, CH-8093 Zürich, Switzerland
| | - Peter Chen
- Laboratorium für Organische Chemie, ETH Zürich, CH-8093 Zürich, Switzerland
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Gorbachev VM, Miloglyadova L, Tsybizova A, Chen P. Application of continuous wave quantum cascade laser in combination with CIVP spectroscopy for investigation of large organic and organometallic ions. THE REVIEW OF SCIENTIFIC INSTRUMENTS 2021; 92:083002. [PMID: 34470415 DOI: 10.1063/5.0058625] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/01/2021] [Accepted: 07/24/2021] [Indexed: 06/13/2023]
Abstract
Rapidly developing mid-infrared quantum cascade laser (QCL) technology gives easy access to broadly tunable mid-IR laser radiation at a modest cost. Despite several applications of QCL in the industry, its usage for spectroscopic investigation of synthetically relevant organic compounds has been limited. Here, we report the application of an external cavity, continuous wave, mid-IR QCL to cryogenic ion vibrational predissociation spectroscopy to analyze a set of large organic molecules, organometallic complexes, and isotopically labeled compounds. The obtained spectra of test molecules are characterized by a high signal-to-noise ratio and low full width at half-maximum-values, allowing the assignment of two compounds with just a few wavenumber difference. Data generated by cw-QCL and spectra produced by another standard Nd:YAG difference-frequency generation system are compared and discussed.
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Affiliation(s)
| | | | | | - Peter Chen
- Laboratorium für Organische Chemie, ETH Zürich, CH-8093 Zürich, Switzerland
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Feng JY, Lee YP, Witek HA, Ebata T. Vacuum Ultraviolet Photoionization Induced Proton Migration and Formation of a New C-N Bond in Pyridine Clusters Revealed by Infrared Spectroscopy and Mass Spectrometry. J Phys Chem Lett 2021; 12:4936-4943. [PMID: 34009991 DOI: 10.1021/acs.jpclett.1c00748] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
The structures and reactions of pyridine (Pyd) cluster cations in a supersonic molecular beam generated upon photoionization at 9.2-9.4 eV were investigated by infrared (IR) action spectroscopy. The mass spectrum showed prominent peaks of (Pyd)m+ and H+(Pyd)m, m = 1-5. In the pyridine/pyridine-d5 mixture, the mass pattern indicated that H+ and D+ migrated during the formation and dissociation of the cluster cations. The IR photodissociation spectra of both (Pyd)2+ and H+(Pyd)2 revealed a N-H stretching band near 3400 cm-1, indicating that their structures are 1-(2-pyridyl)pyridin-1-ium and pyridinium-pyridine, respectively. Observation of the former product implies that the reaction proceeds via an α-distonic cation intermediate, while the latter product is formed via proton migration. The IR spectra of (Pyd)m+ and H+(Pyd)m, m ≥ 3, suggested that these clusters consist of a covalently bound (Pyd)2+ or H+(Pyd)2 core, respectively, with additional pyridines attached to them via hydrogen bonds and/or weak dispersive interactions.
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Affiliation(s)
- Jun-Ying Feng
- Department of Applied Chemistry and Institute for Molecular Science, National Yang Ming Chiao Tung University, Hsinchu 30010, Taiwan
| | - Yuan-Pern Lee
- Department of Applied Chemistry and Institute for Molecular Science, National Yang Ming Chiao Tung University, Hsinchu 30010, Taiwan
- Center for Emergent Functional Matter Sciences, National Chiao Tung University, Hsinchu 30010, Taiwan
- Institute of Atomic and Molecular Sciences, Academia Sinica, Taipei 10617, Taiwan
| | - Henryk A Witek
- Department of Applied Chemistry and Institute for Molecular Science, National Yang Ming Chiao Tung University, Hsinchu 30010, Taiwan
- Center for Emergent Functional Matter Sciences, National Chiao Tung University, Hsinchu 30010, Taiwan
| | - Takayuki Ebata
- Department of Applied Chemistry and Institute for Molecular Science, National Yang Ming Chiao Tung University, Hsinchu 30010, Taiwan
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Tsybizova A, Brenig C, Kieninger C, Kräutler B, Chen P. Surprising Homolytic Gas Phase Co-C Bond Dissociation Energies of Organometallic Aryl-Cobinamides Reveal Notable Non-Bonded Intramolecular Interactions. Chemistry 2021; 27:7252-7264. [PMID: 33560580 PMCID: PMC8251903 DOI: 10.1002/chem.202004589] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2020] [Indexed: 01/12/2023]
Abstract
Aryl-cobalamins are a new class of organometallic structural mimics of vitamin B12 designed as potential 'antivitamins B12 '. Here, the first cationic aryl-cobinamides are described, which were synthesized using the newly developed diaryl-iodonium method. The aryl-cobinamides were obtained as pairs of organometallic coordination isomers, the stereo-structure of which was unambiguously assigned based on homo- and heteronuclear NMR spectra. The availability of isomers with axial attachment of the aryl group, either at the 'beta' or at the 'alpha' face of the cobalt-center allowed for an unprecedented comparison of the organometallic reactivity of such pairs. The homolytic gas-phase bond dissociation energies (BDEs) of the coordination-isomeric phenyl- and 4-ethylphenyl-cobinamides were determined by ESI-MS threshold CID experiments, furnishing (Co-Csp 2 )-BDEs of 38.4 and 40.6 kcal mol-1 , respectively, for the two β-isomers, and the larger BDEs of 46.6 and 43.8 kcal mol-1 for the corresponding α-isomers. Surprisingly, the observed (Co-Csp 2 )-BDEs of the Coβ -aryl-cobinamides were smaller than the (Co-Csp 3 )-BDE of Coβ -methyl-cobinamide. DFT studies and the magnitudes of the experimental (Co-Csp 2 )-BDEs revealed relevant contributions of non-bonded interactions in aryl-cobinamides, notably steric strain between the aryl and the cobalt-corrin moieties and non-bonded interactions with and among the peripheral sidechains.
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Affiliation(s)
- Alexandra Tsybizova
- Laboratorium für Organische ChemieDepartment of Chemistry and Applied BiosciencesETH ZürichZürichSwitzerland
| | - Christopher Brenig
- Institute of Organic Chemistry & Center of Molecular BiosciencesUniversity of InnsbruckInnsbruckAustria
| | - Christoph Kieninger
- Institute of Organic Chemistry & Center of Molecular BiosciencesUniversity of InnsbruckInnsbruckAustria
| | - Bernhard Kräutler
- Institute of Organic Chemistry & Center of Molecular BiosciencesUniversity of InnsbruckInnsbruckAustria
| | - Peter Chen
- Laboratorium für Organische ChemieDepartment of Chemistry and Applied BiosciencesETH ZürichZürichSwitzerland
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Paenurk E, Chen P. Modeling Gas-Phase Unimolecular Dissociation for Bond Dissociation Energies: Comparison of Statistical Rate Models within RRKM Theory. J Phys Chem A 2021; 125:1927-1940. [PMID: 33635061 DOI: 10.1021/acs.jpca.1c00183] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The Rice-Ramsperger-Kassel-Marcus (RRKM) theory provides a simple yet powerful rate theory for calculating microcanonical rate constants. In particular, it has found widespread use in combination with gas-phase kinetic experiments of unimolecular dissociations to extract experimental bond dissociation energies (BDEs). We have previously found several discrepancies between the computed BDE values and the respective experimental ones, obtained with our empirical rate model, named L-CID. To investigate the reliability of our rate model, we conducted a theoretical analysis and comparison of the performance of conventional rate models and L-CID within the RRKM framework. Using the previously published microcanonical rate data as well as reaction cross-section data, we show that the BDE values obtained with the L-CID model agree with the ones from the other rate models within the expected uncertainty bounds. Based on this agreement, we discuss the possible rationalization of the good performance of the L-CID model.
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Affiliation(s)
- Eno Paenurk
- Department of Chemistry and Applied Biosciences, ETH Zürich, 8093 Zürich, Switzerland
| | - Peter Chen
- Department of Chemistry and Applied Biosciences, ETH Zürich, 8093 Zürich, Switzerland
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