1
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Xue Y, Li H, Wang X, Xuan X, Li M. Preparation of self-supporting vertically/horizontally grown graphene microelectrodes for neurotransmitter determination. Anal Chim Acta 2023; 1269:341414. [PMID: 37290853 DOI: 10.1016/j.aca.2023.341414] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/14/2023] [Revised: 04/22/2023] [Accepted: 05/22/2023] [Indexed: 06/10/2023]
Abstract
The development of microelectrodes for the rapid in situ detection of neurotransmitters and their metabolic levels in human biofluids has considerable significance in biomedical research. In this study, self-supported graphene microelectrodes with B-doped, N-doped, and B- and N-co-doped vertical graphene (BVG, NVG, and BNVG, respectively) nanosheets grown on horizontal graphene (HG) were fabricated for the first time. The high electrochemical catalytic activity of BVG/HG on monoamine compounds was explored by investigating the influence of B and N atoms and the VG layer thickness on the response current of neurotransmitters. Quantitative analysis using the BVG/HG electrode in a blood-like environment with pH 7.4 indicated that the linear concentration ranges were 1-400 and 1-350 μM for dopamine (DA) and serotonin (5-HT), with limits of detection (LODs) of 0.271 and 0.361 μM, respectively. For tryptophan (Trp), the sensor measured a wide linear concentration range of 3-1500 μM over a wide pH range of 5.0-9.0, with the LOD fluctuating between 0.58 and 1.04 μM. Furthermore, the BVG/HG microelectrodes could be developed as needle- and pen-type sensors for the detection of DA, 5-HT, and Trp in human blood and gastrointestinal secretion samples.
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Affiliation(s)
- Yujie Xue
- Tianjin Key Laboratory of Film Electronic and Communication Devices, School of Integrated Circuit Science and Engineering, Tianjin University of Technology, Tianjin, 300384, PR China
| | - Hongji Li
- Tianjin Key Laboratory of Organic Solar Cells and Photochemical Conversion, School of Chemistry and Chemical Engineering, Tianjin University of Technology, Tianjin, 300384, PR China.
| | - Xiaoyan Wang
- Tianjin Key Laboratory of Organic Solar Cells and Photochemical Conversion, School of Chemistry and Chemical Engineering, Tianjin University of Technology, Tianjin, 300384, PR China
| | - Xiuwei Xuan
- Tianjin Key Laboratory of Film Electronic and Communication Devices, School of Integrated Circuit Science and Engineering, Tianjin University of Technology, Tianjin, 300384, PR China
| | - Mingji Li
- Tianjin Key Laboratory of Film Electronic and Communication Devices, School of Integrated Circuit Science and Engineering, Tianjin University of Technology, Tianjin, 300384, PR China.
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2
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Chavan SG, Yagati AK, Koyappayil A, Go A, Yeon S, Lee T, Lee MH. Conformationally Flexible Dimeric-Serotonin-Based Sensitive and Selective Electrochemical Biosensing Strategy for Serotonin Recognition. Anal Chem 2022; 94:17020-17030. [PMID: 36414244 DOI: 10.1021/acs.analchem.2c02747] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
Abstract
A novel electrochemical sensor was constructed based on an enzyme-mediated physiological reaction between neurotransmitter serotonin per-oxidation to reconstruct dual-molecule 4,4'-dimeric-serotonin self-assembled derivative, and the potential biomedical application of the multi-functional nano-platform was explored. Serotonin accelerated the catalytic activity to form a dual molecule at the C4 position and created phenolic radical-radical coupling intermediates in a peroxidase reaction system. Here, 4,4' dimeric-serotonin possessed the capability to recognize intermolecular interactions between amine groups. The excellent quenching effects on top of the gold surface electrode system archive logically inexpensive and straightforward analytical demands. In biochemical sensing analysis, the serotonin dimerization concept demonstrated a robust, low-cost, and highly sensitive immunosensor, presenting the potential of quantifying serotonin at point-of-care (POC) testing. The high-specificity serotonin electrochemical sensor had a limit of detection (LOD) of 0.9 nM in phosphate buffer and 1.4 nM in human serum samples and a linear range of 10 to 400 with a sensitivity of 2.0 × 10-2 nM. The bivalent 4,4'-dimer-serotonin interaction strategy provides a promising platform for serotonin biosensing with high specificity, sensitivity, selectivity, stability, and reproducibility. The self-assembling gold surface electrochemical system presents a new analytical method for explicitly detecting tiny neurotransmitter-responsive serotonin neuromolecules.
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Affiliation(s)
- Sachin Ganpat Chavan
- School of Integrative Engineering, Chung-Ang University, 84 Heukseok-ro, Dongjak-Gu, Seoul06974, South Korea
| | - Ajay Kumar Yagati
- School of Integrative Engineering, Chung-Ang University, 84 Heukseok-ro, Dongjak-Gu, Seoul06974, South Korea
| | - Aneesh Koyappayil
- School of Integrative Engineering, Chung-Ang University, 84 Heukseok-ro, Dongjak-Gu, Seoul06974, South Korea
| | - Anna Go
- School of Integrative Engineering, Chung-Ang University, 84 Heukseok-ro, Dongjak-Gu, Seoul06974, South Korea
| | - Sangho Yeon
- School of Integrative Engineering, Chung-Ang University, 84 Heukseok-ro, Dongjak-Gu, Seoul06974, South Korea
| | - Taek Lee
- Department of Chemical Engineering, Kwangwoon University, 20 Kwangwoon-Ro, Nowon-Gu, Seoul01897, Republic of Korea
| | - Min-Ho Lee
- School of Integrative Engineering, Chung-Ang University, 84 Heukseok-ro, Dongjak-Gu, Seoul06974, South Korea
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3
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Yamaguchi K, Hirata K, Ishiuchi SI, Fujii M. Ultraviolet and infrared spectra of mono-, di- and tri-hydrated clusters of protonated noradrenaline – Solvation and conformational variations. Chem Phys Lett 2022. [DOI: 10.1016/j.cplett.2022.140014] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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4
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Corinti D, Maccelli A, Chiavarino B, Schütz M, Bouchet A, Dopfer O, Crestoni ME, Fornarini S. Cation-π Interactions between a Noble Metal and a Polyfunctional Aromatic Ligand: Ag + (benzylamine). Chemistry 2022; 28:e202200300. [PMID: 35412692 PMCID: PMC9325466 DOI: 10.1002/chem.202200300] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2022] [Indexed: 12/21/2022]
Abstract
The structure of an isolated Ag+ (benzylamine) complex is investigated by infrared multiple photon dissociation (IRMPD) spectroscopy complemented with quantum chemical calculations of candidate geometries and their vibrational spectra, aiming to ascertain the role of competing cation-N and cation-π interactions potentially offered by the polyfunctional ligand. The IRMPD spectrum has been recorded in the 800-1800 cm-1 fingerprint range using the IR free electron laser beamline coupled with an FT-ICR mass spectrometer at the Centre Laser Infrarouge d'Orsay (CLIO). The resulting IRMPD pattern points toward a chelate coordination (N-Ag+ -π) involving both the amino nitrogen atom and the aromatic π-system of the phenyl ring. The gas-phase reactivity of Ag+ (benzylamine) with a neutral molecular ligand (L) possessing either an amino/aza functionality or an aryl group confirms N- and π-binding affinity and suggests an augmented silver coordination in the product adduct ion Ag + ( benzylamine ) ( L ) .
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Affiliation(s)
- Davide Corinti
- Dipartimento di Chimica e Tecnologie del Farmaco, Università degli studi di Roma La Sapienza, P.le A. Moro 5, I-00185, Roma, Italy
| | - Alessandro Maccelli
- Dipartimento di Chimica e Tecnologie del Farmaco, Università degli studi di Roma La Sapienza, P.le A. Moro 5, I-00185, Roma, Italy
| | - Barbara Chiavarino
- Dipartimento di Chimica e Tecnologie del Farmaco, Università degli studi di Roma La Sapienza, P.le A. Moro 5, I-00185, Roma, Italy
| | - Markus Schütz
- Institut für Optik und Atomare Physik, Technische Universität Berlin, Hardenbergstr. 36, 10623, Berlin, Germany.,present address: Eagleyard Photonics GmbH, Rudower Chaussee 29, 12489, Berlin, Germany
| | - Aude Bouchet
- Institut für Optik und Atomare Physik, Technische Universität Berlin, Hardenbergstr. 36, 10623, Berlin, Germany.,present address: Université Lille LASIRE Lab Adv Spect Interact React & Environm Cite Sci, CNRS, UMR 8516, 59000, Lille, France
| | - Otto Dopfer
- Institut für Optik und Atomare Physik, Technische Universität Berlin, Hardenbergstr. 36, 10623, Berlin, Germany
| | - Maria Elisa Crestoni
- Dipartimento di Chimica e Tecnologie del Farmaco, Università degli studi di Roma La Sapienza, P.le A. Moro 5, I-00185, Roma, Italy
| | - Simonetta Fornarini
- Dipartimento di Chimica e Tecnologie del Farmaco, Università degli studi di Roma La Sapienza, P.le A. Moro 5, I-00185, Roma, Italy
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5
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Brand C, Schmitt M. Vibronic coupling in serotonin studied by rotationally resolved electronic spectroscopy. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2021.131819] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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6
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Chavan SG, Yagati AK, Kim HT, Jin E, Park SR, Patil DV, Lee MH. Dimeric-serotonin bivalent ligands induced gold nanoparticle aggregation for highly sensitive and selective serotonin biosensor. Biosens Bioelectron 2021; 191:113447. [PMID: 34175648 DOI: 10.1016/j.bios.2021.113447] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2021] [Revised: 06/10/2021] [Accepted: 06/14/2021] [Indexed: 11/19/2022]
Abstract
Chemically modulating monoamine neurotransmitter serotonin undergoes a physiological reaction of enzyme intermediated peroxidation to reconstruct dimeric self-assembled complex. A standard bivalent ligand approach dimeric serotonin increases structural and functional scaffolding with recognition-binding sites that are fundamentally more friendly than monovalent binding sites. Dimerization reaction accelerates the catalytic activity of one-electron oxidation at the C(4) position of serotonin to generate dual phenolic radicals in the presence of horseradish (HRP) and hydrogen peroxide (H2O2). Herein, we suggest the dimeric serotonin-based colorimetric assay, which presents a new rapid, sensitive, selective, and quantitative visualization. The dimeric serotonin possesses the capability to recognize intermolecular interaction units that cause aggregation scaffold of gold nanoparticles (GNPs), providing inexpensive and straightforward analytical needs. As a proof of visual and spectral analysis, peroxidative dimeric serotonin demonstrated sensitive and robust results. The calorimetric method enables highly sensitive detection of serotonin in phosphate buffer, and in human serum samples at nanomolar levels with a LOD of 2.6 nM and 2.81 nM, respectively, and the sensor possesses a dynamic range of 100-300 nM in buffer condition. Also, as proof of concept, visible color imaging of immunosensors which is appropriate for fast visible testing at detection limits as low as 2.90 nM concentration.
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Affiliation(s)
- Sachin Ganpat Chavan
- School of Integrative Engineering, Chung-Ang University, 84 Heuseok-Ro, Dongjak-Gu, Seoul, 06974, South Korea
| | - Ajay Kumar Yagati
- Institute of Analytical Chemistry/Chemo-and Biosensors, University of Regensburg, Universitätsstraße 31, 93053, Regensburg, Germany
| | - Hyun Tae Kim
- School of Integrative Engineering, Chung-Ang University, 84 Heuseok-Ro, Dongjak-Gu, Seoul, 06974, South Korea
| | - Eunjian Jin
- School of Integrative Engineering, Chung-Ang University, 84 Heuseok-Ro, Dongjak-Gu, Seoul, 06974, South Korea
| | - Sung Ryul Park
- School of Integrative Engineering, Chung-Ang University, 84 Heuseok-Ro, Dongjak-Gu, Seoul, 06974, South Korea
| | - Dilip V Patil
- School of Integrative Engineering, Chung-Ang University, 84 Heuseok-Ro, Dongjak-Gu, Seoul, 06974, South Korea
| | - Min-Ho Lee
- School of Integrative Engineering, Chung-Ang University, 84 Heuseok-Ro, Dongjak-Gu, Seoul, 06974, South Korea.
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7
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Zhang K, Ma L, Zhou M, Shi Y, Li S, Wang Y, Kong X. Wavelength-Dependent Ultraviolet Photodissociation of Protonated Tryptamine. J Phys Chem A 2020; 124:5280-5287. [PMID: 32536155 DOI: 10.1021/acs.jpca.0c02528] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
Ultraviolet photodissociation (UVPD) experiments of protonated tryptamine ([Tryp+H]+) have been implemented by a Fourier transform ion cyclotron resonance (FTICR) mass spectrometer combined with a wavelength-tunable optical parametric oscillator (OPO) laser. UVPD mass spectra under different laser wavelengths have been obtained, in which the dependence of the yield of fragment ions on the laser wavelength was observed. The UVPD spectrum of [Tryp+H]+ has been obtained in the range of 210-310 nm. Besides the previously reported two competitive channels of H loss and NH3 loss, two important channels of losing CH2NH and CH2NH2 units were observed and further studied by UV-UV tandem mass spectrometry and theoretical calculations. Interestingly, results show that the pair of competitive channels of CH2NH loss and CH2NH2 loss are both from the McLafferty-type rearrangement caused by ππ* electronic excited states. After the excitation, the two different dissociation pathways produce two different ion-neutral complexes, respectively. The wavelength-dependent dissociation and the existing competitive channels shown in this study reflect the diversity of UVPD processes of such organic molecules.
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Affiliation(s)
- Kailin Zhang
- School of Precision Instrument and Opto-Electronics Engineering, Tianjin University, Tianjin 300072, China.,State Key Laboratory and Institute of Elemento-Organic Chemistry, Nankai University, Tianjin 300071, China
| | - Lifu Ma
- School of Precision Instrument and Opto-Electronics Engineering, Tianjin University, Tianjin 300072, China
| | - Min Zhou
- State Key Laboratory and Institute of Elemento-Organic Chemistry, Nankai University, Tianjin 300071, China.,Department of Physics, Anhui Normal University, Wuhu 241000, China
| | - Yingying Shi
- State Key Laboratory and Institute of Elemento-Organic Chemistry, Nankai University, Tianjin 300071, China
| | - Shuqi Li
- State Key Laboratory and Institute of Elemento-Organic Chemistry, Nankai University, Tianjin 300071, China
| | - Yan Wang
- School of Precision Instrument and Opto-Electronics Engineering, Tianjin University, Tianjin 300072, China
| | - Xianglei Kong
- State Key Laboratory and Institute of Elemento-Organic Chemistry, Nankai University, Tianjin 300071, China.,Collaborative Innovation Center of Chemical Science and Engineering, Nankai University, Tianjin 300071, China
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8
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Hepokur C, Öztop HN, Saraydin D. Preparation and Characterization of Molecular Imprinted Polymer for the Selective Recognition of Serotonin. CHEMISTRY & CHEMICAL TECHNOLOGY 2020. [DOI: 10.23939/chcht14.02.195] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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9
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Jain P, Bhagat S, Tunki L, Jangid AK, Singh S, Pooja D, Kulhari H. Serotonin-Stearic Acid Bioconjugate-Coated Completely Biodegradable Mn 3O 4 Nanocuboids for Hepatocellular Carcinoma Targeting. ACS APPLIED MATERIALS & INTERFACES 2020; 12:10170-10182. [PMID: 32045206 DOI: 10.1021/acsami.0c00331] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
In this study, a serotonin-stearic acid (ST-SA)-based bioconjugate was synthesized for the surface modification of manganese oxide-based nanocuboids (MNCs) for delivering of anticancer drug (i.e., doxorubicin hydrochloride (DOX)) to human liver cancer cells. MNCs were synthesized by chemical precipitation method, and their surface was modified with ST-SA bioconjugate for targeting of MNCs to cancer cells. The ST-SA@MNCs along with DOX showed good colloidal stability, high drug encapsulation (98.3%), and drug loading efficiencies (22.9%) as well as pH-responsive biodegradation. Coating with ST-SA conjugate provided a shield to MNCs which sustained their degradation in an acidic environment. The release of DOX was higher (81.4%) in acidic media than under the physiological conditions (20.5%) up to 192 h. The in vitro anti-proliferation assay showed that ST-SA@MNCs exhibit higher cell growth inhibition compared to that of pure DOX after 48 h of treatment. The cellular uptake and apoptosis studies revealed the enhanced uptake of ST-SA@MNCs in contrast to the MNCs due to overexpressed ST receptor on hepatocellular carcinoma cells and triggered the generation of reactive oxygen species in the cells. Therefore, these results indicated that the DOX-loaded, ST-SA stabilized MNCs improved the therapeutic index of DOX and would be a promising therapeutic candidate for tumor therapy.
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Affiliation(s)
- Poonam Jain
- School of Nano Sciences, Central University of Gujarat, Gandhinagar, 382030 Gujarat, India
| | - Stuti Bhagat
- Division of Biological & Life Sciences, School of Arts and Sciences, Ahmedabad University, Ahmedabad, 380009 Gujarat, India
| | - Lakshmi Tunki
- Centre for Advanced Materials and Industrial Chemistry, School of Science, RMIT University, Melbourne, Victoria 3001, Australia
| | - Ashok Kumar Jangid
- School of Nano Sciences, Central University of Gujarat, Gandhinagar, 382030 Gujarat, India
| | - Sanjay Singh
- Division of Biological & Life Sciences, School of Arts and Sciences, Ahmedabad University, Ahmedabad, 380009 Gujarat, India
| | - Deep Pooja
- Centre for Advanced Materials and Industrial Chemistry, School of Science, RMIT University, Melbourne, Victoria 3001, Australia
| | - Hitesh Kulhari
- School of Nano Sciences, Central University of Gujarat, Gandhinagar, 382030 Gujarat, India
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10
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Odai K, Sugimoto T, Ito E. Ab-initio study of pyrrole ring deformation in the indole group of 5-HT interacting with water molecules. Biophys Physicobiol 2019; 16:127-131. [PMID: 31608202 PMCID: PMC6784809 DOI: 10.2142/biophysico.16.0_127] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2019] [Accepted: 07/19/2019] [Indexed: 12/01/2022] Open
Abstract
5-Hydroxytryptamine (5-HT; serotonin) regulates metabolism and various homeostatic mechanisms in the body, and is involved in depression. These complicated functions of 5-HT are supported by several 5-HT receptor and 5-HT transporter subtypes. The development of agonists/antagonists and activators/inhibitors of 5-HT receptors and transporters is a strong target for drug studies. Toward this purpose, we calculated the conformations and electrical states of ionized 5-HT in aqueous solution using ab-initio methods. When we assumed an ionized 5-HT molecule and three surrounding water molecules, the hydrogen bond network for these four molecules formed a ring shape, resulting in deformation of the pyrrole ring in the indole group of 5-HT. To our knowledge, this is the first finding demonstrating deformation of the indole skeleton. The findings suggest that the direct involvement of water in the binding between 5-HT and its receptors and transporters should be taken account when designing candidate 5-HT active compounds.
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Affiliation(s)
- Kei Odai
- School of Science and Engineering, Kokushikan University, Setagaya-ku, Tokyo 154-8515, Japan
| | - Tohru Sugimoto
- College of Science and Engineering, Kanto Gakuin University, Yokohama, Kanagawa 236-0037, Japan
| | - Etsuro Ito
- Department of Biology, Waseda University, Shinjuku-ku, Tokyo 162-8480, Japan
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11
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Yang M, Huang D, Wu H, Zhang H, An P, Yuan C, Su P, Luo Z. Unravelling the Weak Interactions in Binary Clusters of Serotonin and Amino Acid Residues. ChemistrySelect 2019. [DOI: 10.1002/slct.201902100] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Mengzhou Yang
- Beijing National Laboratory for Molecular Sciences (BNLMS)State Key Laboratory for Structural Chemistry of Unstable and Stable SpeciesInstitute of ChemistryChinese Academy of Sciences Beijing 100190 P. R. China
- University of Chinese Academy of Sciences Beijing 100049 P. R. China
| | - Dajiang Huang
- The State Key Laboratory of Physical Chemistry of Solid SurfacesFujian Provincial Key Laboratory of Theoretical and Computational ChemistryCollege of Chemistry and Chemical EngineeringXiamen University, Xiamen Fujian 361005 China
| | - Haiming Wu
- Beijing National Laboratory for Molecular Sciences (BNLMS)State Key Laboratory for Structural Chemistry of Unstable and Stable SpeciesInstitute of ChemistryChinese Academy of Sciences Beijing 100190 P. R. China
| | - Hanyu Zhang
- Beijing National Laboratory for Molecular Sciences (BNLMS)State Key Laboratory for Structural Chemistry of Unstable and Stable SpeciesInstitute of ChemistryChinese Academy of Sciences Beijing 100190 P. R. China
- University of Chinese Academy of Sciences Beijing 100049 P. R. China
| | - Pan An
- Beijing National Laboratory for Molecular Sciences (BNLMS)State Key Laboratory for Structural Chemistry of Unstable and Stable SpeciesInstitute of ChemistryChinese Academy of Sciences Beijing 100190 P. R. China
- University of Chinese Academy of Sciences Beijing 100049 P. R. China
| | - Chengqian Yuan
- Beijing National Laboratory for Molecular Sciences (BNLMS)State Key Laboratory for Structural Chemistry of Unstable and Stable SpeciesInstitute of ChemistryChinese Academy of Sciences Beijing 100190 P. R. China
| | - Peifeng Su
- The State Key Laboratory of Physical Chemistry of Solid SurfacesFujian Provincial Key Laboratory of Theoretical and Computational ChemistryCollege of Chemistry and Chemical EngineeringXiamen University, Xiamen Fujian 361005 China
| | - Zhixun Luo
- Beijing National Laboratory for Molecular Sciences (BNLMS)State Key Laboratory for Structural Chemistry of Unstable and Stable SpeciesInstitute of ChemistryChinese Academy of Sciences Beijing 100190 P. R. China
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12
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Borah MM, Devi TG. Vibrational study and Natural Bond Orbital analysis of serotonin in monomer and dimer states by density functional theory. J Mol Struct 2018. [DOI: 10.1016/j.molstruc.2018.02.055] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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13
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Martens J, Berden G, Bentlage H, Coene KLM, Engelke UF, Wishart D, van Scherpenzeel M, Kluijtmans LAJ, Wevers RA, Oomens J. Unraveling the unknown areas of the human metabolome: the role of infrared ion spectroscopy. J Inherit Metab Dis 2018; 41:367-377. [PMID: 29556837 PMCID: PMC5959965 DOI: 10.1007/s10545-018-0161-8] [Citation(s) in RCA: 33] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 09/01/2017] [Revised: 02/12/2018] [Accepted: 02/15/2018] [Indexed: 11/30/2022]
Abstract
The identification of molecular biomarkers is critical for diagnosing and treating patients and for establishing a fundamental understanding of the pathophysiology and underlying biochemistry of inborn errors of metabolism. Currently, liquid chromatography/high-resolution mass spectrometry and nuclear magnetic resonance spectroscopy are the principle methods used for biomarker research and for structural elucidation of small molecules in patient body fluids. While both are powerful techniques, several limitations exist that often make the identification of unknown compounds challenging. Here, we describe how infrared ion spectroscopy has the potential to be a valuable orthogonal technique that provides highly-specific molecular structure information while maintaining ultra-high sensitivity. Here, we characterize and distinguish two well-known biomarkers of inborn errors of metabolism, glutaric acid for glutaric aciduria and ethylmalonic acid for short-chain acyl-CoA dehydrogenase deficiency, using infrared ion spectroscopy. In contrast to tandem mass spectra, in which ion fragments can hardly be predicted, we show that the prediction of an IR spectrum allows reference-free identification in the case that standard compounds are either commercially or synthetically unavailable. Finally, we illustrate how functional group information can be obtained from an IR spectrum for an unknown and how this is valuable information to, for example, narrow down a list of candidate structures resulting from a database query. Early diagnosis in inborn errors of metabolism is crucial for enabling treatment and depends on the identification of biomarkers specific for the disorder. Infrared ion spectroscopy has the potential to play a pivotal role in the identification of challenging biomarkers.
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Affiliation(s)
- Jonathan Martens
- Radboud University, Institute for Molecules and Materials, FELIX Laboratory, Toernooiveld 7c, 6525ED, Nijmegen, The Netherlands.
| | - Giel Berden
- Radboud University, Institute for Molecules and Materials, FELIX Laboratory, Toernooiveld 7c, 6525ED, Nijmegen, The Netherlands
| | - Herman Bentlage
- Radboud University, Institute for Molecules and Materials, FELIX Laboratory, Toernooiveld 7c, 6525ED, Nijmegen, The Netherlands
| | - Karlien L M Coene
- Department of Laboratory Medicine, Translational Metabolic Laboratory, Radboud University Medical Center, Geert Groote Plein Zuid 10, 6525, GA, Nijmegen, The Netherlands
| | - Udo F Engelke
- Department of Laboratory Medicine, Translational Metabolic Laboratory, Radboud University Medical Center, Geert Groote Plein Zuid 10, 6525, GA, Nijmegen, The Netherlands
| | - David Wishart
- Departments of Computing Science and Biological Sciences, University of Alberta, Edmonton, AB, Canada
| | - Monique van Scherpenzeel
- Department of Laboratory Medicine, Translational Metabolic Laboratory, Radboud University Medical Center, Geert Groote Plein Zuid 10, 6525, GA, Nijmegen, The Netherlands
| | - Leo A J Kluijtmans
- Department of Laboratory Medicine, Translational Metabolic Laboratory, Radboud University Medical Center, Geert Groote Plein Zuid 10, 6525, GA, Nijmegen, The Netherlands
| | - Ron A Wevers
- Department of Laboratory Medicine, Translational Metabolic Laboratory, Radboud University Medical Center, Geert Groote Plein Zuid 10, 6525, GA, Nijmegen, The Netherlands.
| | - Jos Oomens
- Radboud University, Institute for Molecules and Materials, FELIX Laboratory, Toernooiveld 7c, 6525ED, Nijmegen, The Netherlands.
- Van't Hoff Institute for Molecular Sciences, University of Amsterdam, Science Park 904, 1098 XH, Amsterdam, The Netherlands.
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14
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Batoon P, Oomens J, Berden G, Ren J. Conformations of Protonated AlaDap and DapAla Characterized by IRMPD Spectroscopy and Molecular Modeling. J Phys Chem B 2018; 122:2191-2202. [DOI: 10.1021/acs.jpcb.7b10435] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Patrick Batoon
- Department
of Chemistry, University of the Pacific, 3601 Pacific Avenue, Stockton, California 95211, United States
| | - Jos Oomens
- FELIX
Laboratory, Institute for Molecules and Materials, Radboud University, Toernooiveld 7c, 6525ED Nijmegen, The Netherlands
| | - Giel Berden
- FELIX
Laboratory, Institute for Molecules and Materials, Radboud University, Toernooiveld 7c, 6525ED Nijmegen, The Netherlands
| | - Jianhua Ren
- Department
of Chemistry, University of the Pacific, 3601 Pacific Avenue, Stockton, California 95211, United States
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15
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Jašíková L, Roithová J. Infrared Multiphoton Dissociation Spectroscopy with Free-Electron Lasers: On the Road from Small Molecules to Biomolecules. Chemistry 2018; 24:3374-3390. [PMID: 29314303 DOI: 10.1002/chem.201705692] [Citation(s) in RCA: 54] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2017] [Indexed: 01/07/2023]
Abstract
Infrared multiphoton dissociation (IRMPD) spectroscopy is commonly used to determine the structure of isolated, mass-selected ions in the gas phase. This method has been widely used since it became available at free-electron laser (FEL) user facilities. Thus, in this Minireview, we examine the use of IRMPD/FEL spectroscopy for investigating ions derived from small molecules, metal complexes, organometallic compounds and biorelevant ions. Furthermore, we outline new applications of IRMPD spectroscopy to study biomolecules.
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Affiliation(s)
- Lucie Jašíková
- Department of Organic Chemistry, Faculty of Science, Charles University, Hlavova 2030, Prague 2, 128 43, Czech Republic
| | - Jana Roithová
- Department of Organic Chemistry, Faculty of Science, Charles University, Hlavova 2030, Prague 2, 128 43, Czech Republic
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16
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17
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Manciu FS, Ciubuc JD, Sundin EM, Qiu C, Bennet KE. Analysis of Serotonin Molecules on Silver Nanocolloids-A Raman Computational and Experimental Study. SENSORS 2017. [PMID: 28640186 PMCID: PMC5539499 DOI: 10.3390/s17071471] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Abstract
Combined theoretical and experimental analysis of serotonin by quantum chemical density functional calculations and surface-enhanced Raman spectroscopy, respectively, is presented in this work to better understand phenomena related to this neurotransmitter’s detection and monitoring at very low concentrations specific to physiological levels. In addition to the successful ultrasensitive analyte detection on silver nanoparticles for concentrations as low as 10−11 molar, the relatively good agreement between the simulated and experimentally determined results indicates the presence of all serotonin molecular forms, such as neutral, ionic, and those oxidized through redox reactions. Obvious structural molecular deformations such as bending of lateral amino chains are observed for both ionic and oxidized forms. Not only does this combined approach reveal more probable adsorption of serotonin into the silver surface through hydroxyl/oxygen sites than through NH/nitrogen sites, but also that it does so predominantly in its neutral (reduced) form, somewhat less so in its ionic forms, and much less in its oxidized forms. If the development of opto-voltammetric biosensors and their effective implementation is envisioned for the future, this study provides some needed scientific background for comprehending changes in the vibrational signatures of this important neurotransmitter.
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Affiliation(s)
- Felicia S Manciu
- Department of Physics, University of Texas at El Paso, El Paso, TX 79968, USA.
- Department of Biomedical Engineering, University of Texas at El Paso, El Paso, TX 79968, USA.
- Border Biomedical Research Center, University of Texas at El Paso, El Paso, TX 79968, USA.
| | - John D Ciubuc
- Department of Physics, University of Texas at El Paso, El Paso, TX 79968, USA.
- Department of Biomedical Engineering, University of Texas at El Paso, El Paso, TX 79968, USA.
| | - Emma M Sundin
- Department of Physics, University of Texas at El Paso, El Paso, TX 79968, USA.
| | - Chao Qiu
- Department of Physics, University of Texas at El Paso, El Paso, TX 79968, USA.
| | - Kevin E Bennet
- Division of Engineering, Department of Neurologic Surgery, Mayo Clinic, Rochester, MN 55905, USA.
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18
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Bliem C, Fruhmann P, Stoica AI, Kleber C. Development and Optimization of an Ion-selective Electrode for Serotonin Detection. ELECTROANAL 2017. [DOI: 10.1002/elan.201600782] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Christina Bliem
- Centre of Electrochemical Surface Technology; Viktor-Kaplan-Straße 2 2700 Wiener Neustadt Austria
| | - Philipp Fruhmann
- Centre of Electrochemical Surface Technology; Viktor-Kaplan-Straße 2 2700 Wiener Neustadt Austria
| | - Anca-Iulia Stoica
- Centre of Electrochemical Surface Technology; Viktor-Kaplan-Straße 2 2700 Wiener Neustadt Austria
| | - Christoph Kleber
- Centre of Electrochemical Surface Technology; Viktor-Kaplan-Straße 2 2700 Wiener Neustadt Austria
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19
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Bouchet A, Klyne J, Ishiuchi SI, Fujii M, Dopfer O. Conformation of protonated glutamic acid at room and cryogenic temperatures. Phys Chem Chem Phys 2017; 19:10767-10776. [DOI: 10.1039/c6cp08553a] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Linear infrared spectroscopy of protonated glutamic acid in a cryogenic ion trap allows for the clear-cut and quantitative identification of the two conformers of this fundamental biomolecule.
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Affiliation(s)
- Aude Bouchet
- Institut für Optik und Atomare Physik
- Technische Universität Berlin
- Berlin
- Germany
- Laboratory for Chemistry and Life Science
| | - Johanna Klyne
- Institut für Optik und Atomare Physik
- Technische Universität Berlin
- Berlin
- Germany
| | - Shun-ichi Ishiuchi
- Laboratory for Chemistry and Life Science
- Institute of Innovation Research
- Tokyo Institute of Technology
- Yokohama
- Japan
| | - Masaaki Fujii
- Laboratory for Chemistry and Life Science
- Institute of Innovation Research
- Tokyo Institute of Technology
- Yokohama
- Japan
| | - Otto Dopfer
- Institut für Optik und Atomare Physik
- Technische Universität Berlin
- Berlin
- Germany
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20
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Wako H, Ishiuchi SI, Kato D, Féraud G, Dedonder-Lardeux C, Jouvet C, Fujii M. A conformational study of protonated noradrenaline by UV–UV and IR dip double resonance laser spectroscopy combined with an electrospray and a cold ion trap method. Phys Chem Chem Phys 2017; 19:10777-10785. [DOI: 10.1039/c6cp08426e] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
In protonated noradrenaline, 3 folded and 2 extended conformers were identified under the ultra-cold condition.
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Affiliation(s)
- Hiromichi Wako
- Laboratory for Chemistry and Life Science
- Institute of innovative research
- Tokyo Institute of Technology
- Midori-ku
- Japan
| | - Shun-ichi Ishiuchi
- Laboratory for Chemistry and Life Science
- Institute of innovative research
- Tokyo Institute of Technology
- Midori-ku
- Japan
| | - Daichi Kato
- Laboratory for Chemistry and Life Science
- Institute of innovative research
- Tokyo Institute of Technology
- Midori-ku
- Japan
| | - Géraldine Féraud
- CNRS
- Aix-Marseille Université
- PIIM UMR 7365
- Avenue Escadrille Normandie-Niémen
- 13397 Marseille Cedex 20
| | - Claude Dedonder-Lardeux
- CNRS
- Aix-Marseille Université
- PIIM UMR 7365
- Avenue Escadrille Normandie-Niémen
- 13397 Marseille Cedex 20
| | - Christophe Jouvet
- CNRS
- Aix-Marseille Université
- PIIM UMR 7365
- Avenue Escadrille Normandie-Niémen
- 13397 Marseille Cedex 20
| | - Masaaki Fujii
- Laboratory for Chemistry and Life Science
- Institute of innovative research
- Tokyo Institute of Technology
- Midori-ku
- Japan
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21
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Jha O, Yadav R. Structural and vibrational investigations of a neurotransmitter molecule: Serotonin (5-hydroxy tryptamine). J Mol Struct 2016. [DOI: 10.1016/j.molstruc.2016.06.003] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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22
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Nieto P, Günther A, Berden G, Oomens J, Dopfer O. IRMPD Spectroscopy of Metalated Flavins: Structure and Bonding of Lumiflavin Complexes with Alkali and Coinage Metal Ions. J Phys Chem A 2016; 120:8297-8308. [PMID: 27690438 DOI: 10.1021/acs.jpca.6b08281] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Flavins are a fundamental class of biomolecules, whose photochemical properties strongly depend on their environment and their redox and metalation state. Infrared multiphoton dissociation (IRMPD) spectra of mass-selected isolated metal-lumiflavin ionic complexes (M+LF) are analyzed in the fingerprint range (800-1830 cm-1) to determine the bonding of lumiflavin with alkali (M = Li, Na, K, Cs) and coinage (M = Cu, Ag) metal ions. The complexes are generated in an electrospray ionization source coupled to an ion cyclotron resonance mass spectrometer and the IR free electron laser FELIX. Vibrational and isomer assignments of the IRMPD spectra are accomplished by comparison to quantum chemical calculations at the B3LYP/cc-pVDZ level, yielding structure, binding energy, bonding mechanism, and spectral properties of the complexes. The most stable binding sites identified in the experiments involve metal bonding to the oxygen atoms of the two available CO groups of LF. Hence, CO stretching frequencies are a sensitive indicator of both the metal binding site and the metal bond strength. More than one isomer is observed for M = Li, Na, and K, and the preferred CO binding site changes with the size of the alkali ion. For Cs+LF, only one isomer is identified, although the energies of the two most stable structures differ by less than 7 kJ/mol. While the M+-LF bonds for alkali ions are mainly based on electrostatic forces, substantial covalent contributions lead to stronger bonds for the coinage metal ions. Comparison between lumiflavin and lumichrome reveals substantial differences in the metal binding motifs and interactions due to the different flavin structures.
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Affiliation(s)
- Pablo Nieto
- Institut für Optik und Atomare Physik, Technische Universität Berlin , Hardenbergstrasse 36, D-10623 Berlin, Germany
| | - Alan Günther
- Institut für Optik und Atomare Physik, Technische Universität Berlin , Hardenbergstrasse 36, D-10623 Berlin, Germany
| | - Giel Berden
- Radboud University, Institute for Molecules and Materials, FELIX Laboratory , Toernooiveld 7c, 6525 ED Nijmegen, The Netherlands
| | - Jos Oomens
- Radboud University, Institute for Molecules and Materials, FELIX Laboratory , Toernooiveld 7c, 6525 ED Nijmegen, The Netherlands.,van't Hoff Institute for Molecular Sciences, University of Amsterdam , Science Park 904, 1098XH Amsterdam, The Netherlands
| | - Otto Dopfer
- Institut für Optik und Atomare Physik, Technische Universität Berlin , Hardenbergstrasse 36, D-10623 Berlin, Germany
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23
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Bouchet A, Schütz M, Chiavarino B, Crestoni ME, Fornarini S, Dopfer O. IR spectrum of the protonated neurotransmitter 2-phenylethylamine: dispersion and anharmonicity of the NH3(+)-π interaction. Phys Chem Chem Phys 2016; 17:25742-54. [PMID: 25757357 DOI: 10.1039/c5cp00221d] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
The structure and dynamics of the highly flexible side chain of (protonated) phenylethylamino neurotransmitters are essential for their function. The geometric, vibrational, and energetic properties of the protonated neutrotransmitter 2-phenylethylamine (H(+)PEA) are characterized in the N-H stretch range by infrared photodissociation (IRPD) spectroscopy of cold ions using rare gas tagging (Rg = Ne and Ar) and anharmonic calculations at the B3LYP-D3/(aug-)cc-pVTZ level including dispersion corrections. A single folded gauche conformer (G) protonated at the basic amino group and stabilized by an intramolecular NH(+)-π interaction is observed. The dispersion-corrected density functional theory calculations reveal the important effects of dispersion on the cation-π interaction and the large vibrational anharmonicity of the NH3(+) group involved in the NH(+)-π hydrogen bond. They allow for assigning overtone and combination bands and explain anomalous intensities observed in previous IR multiple-photon dissociation spectra. Comparison with neutral PEA reveals the large effects of protonation on the geometric and electronic structure.
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Affiliation(s)
- Aude Bouchet
- Institut für Optik und Atomare Physik, Technische Universität Berlin, Hardenbergstrasse 36, D-10623 Berlin, Germany.
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24
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Schütz M, Bouchet A, Chiavarino B, Crestoni ME, Fornarini S, Dopfer O. Effects of Aromatic Fluorine Substitution on Protonated Neurotransmitters: The Case of 2-Phenylethylamine. Chemistry 2016; 22:8124-36. [DOI: 10.1002/chem.201600798] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2016] [Indexed: 11/09/2022]
Affiliation(s)
- Markus Schütz
- Institut für Optik und Atomare Physik; Technische Universität Berlin; Hardenbergstr. 36 10623 Berlin Germany
| | - Aude Bouchet
- Institut für Optik und Atomare Physik; Technische Universität Berlin; Hardenbergstr. 36 10623 Berlin Germany
| | - Barbara Chiavarino
- Dipartimento di Chimica e Tecnologie del Farmaco; Sapienza Università di Roma “La Sapienza”; P. le A. Moro 5 00185 Roma Italy
| | - Maria Elisa Crestoni
- Dipartimento di Chimica e Tecnologie del Farmaco; Sapienza Università di Roma “La Sapienza”; P. le A. Moro 5 00185 Roma Italy
| | - Simonetta Fornarini
- Dipartimento di Chimica e Tecnologie del Farmaco; Sapienza Università di Roma “La Sapienza”; P. le A. Moro 5 00185 Roma Italy
| | - Otto Dopfer
- Institut für Optik und Atomare Physik; Technische Universität Berlin; Hardenbergstr. 36 10623 Berlin Germany
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25
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Reinscheid F, Schmidt M, Abromeit H, Liening S, Scriba G, Reinscheid U. Structural and chiroptical analysis of naturally occurring (–)-strychnine. J Mol Struct 2016. [DOI: 10.1016/j.molstruc.2015.10.062] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
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26
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Schütz M, Bouchet A, Dopfer O. Infrared spectrum of the cold ortho-fluorinated protonated neurotransmitter 2-phenylethylamine: competition between NH+⋯π and NH+⋯F interactions. Phys Chem Chem Phys 2016; 18:26980-26989. [DOI: 10.1039/c6cp05915e] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
IR spectra of cold rare-gas tagged ions reveal the switch of the preferred conformation of the highly flexible side chain of a prototypical protonated neurotransmitter induced by site-specific aromatic fluorination.
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Affiliation(s)
- Markus Schütz
- Institut für Optik und Atomare Physik
- Technische Universität Berlin
- D-10623 Berlin
- Germany
| | - Aude Bouchet
- Institut für Optik und Atomare Physik
- Technische Universität Berlin
- D-10623 Berlin
- Germany
| | - Otto Dopfer
- Institut für Optik und Atomare Physik
- Technische Universität Berlin
- D-10623 Berlin
- Germany
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27
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Mayorkas N, Sachs H, Schütz M, Ishiuchi SI, Fujii M, Dopfer O, Bar I. Structural motifs of 2-(2-fluoro-phenyl)-ethylamine conformers. Phys Chem Chem Phys 2016; 18:1191-201. [DOI: 10.1039/c5cp06131h] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Vibronic and vibrational spectra of 2-(2-fluoro-phenyl)-ethylamine (2-FPEA) conformers were measured in a molecular beam by resonant two-photon ionization (R2PI), ultraviolet–ultraviolet hole burning (UV–UV HB) spectroscopy, and ionization-loss stimulated Raman spectroscopy (ILSRS).
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Affiliation(s)
- Nitzan Mayorkas
- Department of Physics
- Ben-Gurion University of the Negev
- Beer-Sheva 84105
- Israel
| | - Hanan Sachs
- Department of Physics
- Ben-Gurion University of the Negev
- Beer-Sheva 84105
- Israel
| | - Markus Schütz
- Institut für Optik und Atomare Physik
- Technische Universität Berlin
- 10623 Berlin
- Germany
| | - Shun-ichi Ishiuchi
- Chemical Resources Laboratory
- Tokyo Institute of Technology
- Yokohama 226-8503
- Japan
| | - Masaaki Fujii
- Chemical Resources Laboratory
- Tokyo Institute of Technology
- Yokohama 226-8503
- Japan
| | - Otto Dopfer
- Institut für Optik und Atomare Physik
- Technische Universität Berlin
- 10623 Berlin
- Germany
| | - Ilana Bar
- Department of Physics
- Ben-Gurion University of the Negev
- Beer-Sheva 84105
- Israel
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28
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Measurement, Interpretation and Use of Free Ligand Solution Conformations in Drug Discovery. PROGRESS IN MEDICINAL CHEMISTRY 2016; 55:45-147. [DOI: 10.1016/bs.pmch.2015.10.003] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
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29
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Wilke M, Brand C, Wilke J, Schmitt M. The conformational space of the neurotransmitter serotonin: how the rotation of a hydroxyl group changes all. Phys Chem Chem Phys 2016; 18:13538-45. [DOI: 10.1039/c6cp02130a] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Serotonin shows a conformer-dependent competition of two polar groups to establish a hydrogen bond with the same H-atom.
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Affiliation(s)
- Martin Wilke
- Heinrich-Heine-Universität
- Institut für Physikalische Chemie I
- D-40225 Düsseldorf
- Germany
| | - Christian Brand
- Heinrich-Heine-Universität
- Institut für Physikalische Chemie I
- D-40225 Düsseldorf
- Germany
- Faculty of Physics
| | - Josefin Wilke
- Heinrich-Heine-Universität
- Institut für Physikalische Chemie I
- D-40225 Düsseldorf
- Germany
| | - Michael Schmitt
- Heinrich-Heine-Universität
- Institut für Physikalische Chemie I
- D-40225 Düsseldorf
- Germany
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30
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Bouchet A, Schütz M, Dopfer O. Competing Insertion and External Binding Motifs in Hydrated Neurotransmitters: Infrared Spectra of Protonated Phenylethylamine Monohydrate. Chemphyschem 2015; 17:232-43. [PMID: 26584245 DOI: 10.1002/cphc.201500939] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2015] [Indexed: 01/29/2023]
Abstract
Hydration has a drastic impact on the structure and function of flexible biomolecules, such as aromatic ethylamino neurotransmitters. The structure of monohydrated protonated phenylethylamine (H(+) PEA-H2 O) is investigated by infrared photodissociation (IRPD) spectroscopy of cold cluster ions by using rare-gas (Rg=Ne and Ar) tagging and dispersion-corrected density functional theory calculations at the B3LYP-D3/aug-cc-pVTZ level. Monohydration of this prototypical neurotransmitter gives an insight into the first step of the formation of its solvation shell, especially regarding the competition between intra- and intermolecular interactions. The spectra of Rg-tagged H(+) PEA-H2 O reveal the presence of a stable insertion structure in which the water molecule is located between the positively charged ammonium group and the phenyl ring of H(+) PEA, acting both as a hydrogen bond acceptor (NH(+) ⋅⋅⋅O) and donor (OH⋅⋅⋅π). Two other nearly equivalent isomers, in which water is externally H bonded to one of the free NH groups, are also identified. The balance between insertion and external hydration strongly depends on temperature.
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Affiliation(s)
- Aude Bouchet
- Institut für Optik und Atomare Physik, Technische Universität Berlin, Hardenbergstrasse 36, 10623, Berlin, Germany
| | - Markus Schütz
- Institut für Optik und Atomare Physik, Technische Universität Berlin, Hardenbergstrasse 36, 10623, Berlin, Germany
| | - Otto Dopfer
- Institut für Optik und Atomare Physik, Technische Universität Berlin, Hardenbergstrasse 36, 10623, Berlin, Germany.
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31
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Ke H, Lisy JM. Influence of hydration on ion-biomolecule interactions: M(+)(indole)(H2O)(n) (M = Na, K; n = 3-6). Phys Chem Chem Phys 2015; 17:25354-64. [PMID: 26397000 DOI: 10.1039/c5cp01565k] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The indole functional group can be found in many biologically relevant molecules, such as neurotransmitters, pineal hormones and medicines. Indole has been used as a tractable model to study the hydration structures of biomolecules as well as the interplay of non-covalent interactions within ion-biomolecule-water complexes, which largely determine their structure and dynamics. With three potential binding sites: above the six- or five-member ring, and the N-H group, the competition between π and hydrogen bond interactions involves multiple locations. Electrostatic interactions from monovalent cations are in direct competition with hydrogen bonding interactions, as structural configurations involving both direct cation-indole interactions and cation-water-indole bridging interactions were observed. The different charge densities of Na(+) and K(+) give rise to different structural conformers at the same level of hydration. Infrared spectra with parallel hybrid functional-based calculations and Gibbs free energy calculations revealed rich structural insights into the Na(+)/K(+)(indole)(H2O)3-6 cluster ion complexes. Isotopic (H/D) analyses were applied to decouple the spectral features originating from the OH and NH stretches. Results showed no evidence of direct interaction between water and the NH group of indole (via a σ-hydrogen bond) at current levels of hydration with the incorporation of cations. Hydrogen bonding to a π-system, however, was ubiquitous at hydration levels between two and five.
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Affiliation(s)
- Haochen Ke
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, USA.
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32
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Srivastava SK, Singh VB. Spectroscopic signatures and structural motifs in isolated and hydrated serotonin: a computational study. RSC Adv 2015. [DOI: 10.1039/c5ra00827a] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
The conformational landscapes of neutral serotonin characterized by MP2, CC2 and DFT methods. The Gph-out/anti conformation is found most stable.
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33
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Nagy PI. Competing intramolecular vs. intermolecular hydrogen bonds in solution. Int J Mol Sci 2014; 15:19562-633. [PMID: 25353178 PMCID: PMC4264129 DOI: 10.3390/ijms151119562] [Citation(s) in RCA: 93] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2014] [Revised: 09/17/2014] [Accepted: 10/13/2014] [Indexed: 11/17/2022] Open
Abstract
A hydrogen bond for a local-minimum-energy structure can be identified according to the definition of the International Union of Pure and Applied Chemistry (IUPAC recommendation 2011) or by finding a special bond critical point on the density map of the structure in the framework of the atoms-in-molecules theory. Nonetheless, a given structural conformation may be simply favored by electrostatic interactions. The present review surveys the in-solution competition of the conformations with intramolecular vs. intermolecular hydrogen bonds for different types of small organic molecules. In their most stable gas-phase structure, an intramolecular hydrogen bond is possible. In a protic solution, the intramolecular hydrogen bond may disrupt in favor of two solute-solvent intermolecular hydrogen bonds. The balance of the increased internal energy and the stabilizing effect of the solute-solvent interactions regulates the new conformer composition in the liquid phase. The review additionally considers the solvent effects on the stability of simple dimeric systems as revealed from molecular dynamics simulations or on the basis of the calculated potential of mean force curves. Finally, studies of the solvent effects on the type of the intermolecular hydrogen bond (neutral or ionic) in acid-base complexes have been surveyed.
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Affiliation(s)
- Peter I Nagy
- Center for Drug Design and Development, the University of Toledo, Toledo, OH 43606-3390, USA.
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34
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Chiavarino B, Crestoni ME, Schütz M, Bouchet A, Piccirillo S, Steinmetz V, Dopfer O, Fornarini S. Cation-π interactions in protonated phenylalkylamines. J Phys Chem A 2014; 118:7130-8. [PMID: 25061749 DOI: 10.1021/jp505037n] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
Phenylalkylamines of the general formula C6H5(CH2)nNH2 (n = 1-4) have been delivered to the gas phase as protonated species using electrospray ionization. The ions thus formed have been assayed by IRMPD spectroscopy in two different spectroscopic domains, namely, the 600-1800 and the 3000-3500 cm(-1) regions using either an IR free electron laser or a tabletop OPO/OPA laser source. The interpretation of the experimental spectra is aided by density functional theory calculations of candidate species and vibrational frequency analyses. Protonated benzylamine presents a relatively straightforward instance of a single stable conformer, providing a trial case for the adopted approach. Turning to the higher homologues, C6H5(CH2)nNH3(+) (n = 2-4), more conformations become accessible. For each C6H5(CH2)nNH3(+) ion (n = 2-4), the most stable geometry is characterized by cation-π interactions between the positively charged ammonium group and the aromatic π-electronic system, permitted by the folding of the polymethylene chain. The IRMPD spectra of the sampled ions confirm the presence of the folded structures by comparison with the calculated IR spectra of the various possible conformers. An inspection of the NH stretching region is helpful in this regard.
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Affiliation(s)
- Barbara Chiavarino
- Dipartimento di Chimica e Tecnologie del Farmaco, Università degli Studi di Roma La Sapienza , P. le A. Moro 5, I-00185 Roma, Italy
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35
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Langer J, Günther A, Seidenbecher S, Berden G, Oomens J, Dopfer O. Probing protonation sites of isolated flavins using IR spectroscopy: from lumichrome to the cofactor flavin mononucleotide. Chemphyschem 2014; 15:2550-62. [PMID: 24895155 DOI: 10.1002/cphc.201402146] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2014] [Indexed: 11/06/2022]
Abstract
Infrared spectra of the isolated protonated flavin molecules lumichrome, lumiflavin, riboflavin (vitamin B2), and the biologically important cofactor flavin mononucleotide are measured in the fingerprint region (600-1850 cm(-1)) by means of IR multiple-photon dissociation (IRMPD) spectroscopy. Using density functional theory calculations, the geometries, relative energies, and linear IR absorption spectra of several low-energy isomers are calculated. Comparison of the calculated IR spectra with the measured IRMPD spectra reveals that the N10 substituent on the isoalloxazine ring influences the protonation site of the flavin. Lumichrome, with a hydrogen substituent, is only stable as the N1-protonated tautomer and protonates at N5 of the pyrazine ring. The presence of the ribityl unit in riboflavin leads to protonation at N1 of the pyrimidinedione moiety, and methyl substitution in lumiflavin stabilizes the tautomer that is protonated at O2. In contrast, flavin mononucleotide exists as both the O2- and N1-protonated tautomers. The frequencies and relative intensities of the two C=O stretch vibrations in protonated flavins serve as reliable indicators for their protonation site.
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Affiliation(s)
- Judith Langer
- Technische Universität Berlin, Institut für Optik und Atomare Physik, Hardenbergstraße 36, D-10623 Berlin (Germany); Current address: Parque Tecnologico de San Sebastian, Paseo Miramon 182, Edif C, 20009 San Sebastian (Spain)
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Sakota K, Schütz M, Schmies M, Moritz R, Bouchet A, Ikeda T, Kouno Y, Sekiya H, Dopfer O. Weak hydrogen bonding motifs of ethylamino neurotransmitter radical cations in a hydrophobic environment: infrared spectra of tryptamine+–(N2)n clusters (n ≤ 6). Phys Chem Chem Phys 2014; 16:3798-806. [DOI: 10.1039/c3cp54127d] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Guo L, Huang Z, Shen T, Ma L, Niu X. Theoretical Study on the Hydrogen Bonding Interactions in Complexes of 5-Hydroxytryptamine with Water. CHINESE J CHEM 2013. [DOI: 10.1002/cjoc.201300192] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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Lanucara F, Crestoni ME, Chiavarino B, Fornarini S, Hernandez O, Scuderi D, Maitre P. Infrared spectroscopy of nucleotides in the gas phase 2. The protonated cyclic 3′,5′-adenosine monophosphate. RSC Adv 2013. [DOI: 10.1039/c3ra41117f] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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40
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Mahadevi AS, Sastry GN. Cation-π interaction: its role and relevance in chemistry, biology, and material science. Chem Rev 2012; 113:2100-38. [PMID: 23145968 DOI: 10.1021/cr300222d] [Citation(s) in RCA: 728] [Impact Index Per Article: 60.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Affiliation(s)
- A Subha Mahadevi
- Molecular Modeling Group, CSIR-Indian Institute of Chemical Technology Tarnaka, Hyderabad 500 607, Andhra Pradesh, India
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Bouchoux G. Gas phase basicities of polyfunctional molecules. Part 3: Amino acids. MASS SPECTROMETRY REVIEWS 2012; 31:391-435. [PMID: 22611554 DOI: 10.1002/mas.20349] [Citation(s) in RCA: 40] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
The present article is the third part of a general overview of the gas-phase protonation thermochemistry of polyfunctional molecules (first part: Mass Spectrom. Rev., 2007, 26:775-835, second part: Mass Spectrom. Rev., 2011, in press). This review is devoted to the 20 proteinogenic amino acids and is divided in two parts. In the first one, the experimental data obtained during the last 30 years using the equilibrium, thermokinetic and kinetic methods are presented. A general re-assignment of the values originating from these various experiments has been done on the basis of the commonly accepted Hunter & Lias 1998 gas-phase basicity scale in order to provide an homogeneous set of data. In the second part, theoretical investigations on gaseous neutral and protonated amino acids are reviewed. Conformational landscapes of both types of species were examined in order to provide theoretical protonation thermochemistry based on the truly identified most stable conformers. Proton affinities computed at the presently highest levels of theory (i.e. composite methods such as Gn procedures) are presented. Estimates of thermochemical parameters calculated using a Boltzmann distribution of conformers at 298K are also included. Finally, comparison between experiment and theory is discussed and a set of evaluated proton affinities, gas-phase basicities and protonation entropies is proposed.
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Affiliation(s)
- Guy Bouchoux
- Département de Chimie, Laboratoire des Mécanismes Réactionnels, Ecole Polytechnique, 91120 Palaiseau, France.
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Barylyuk K, Fritsche L, Balabin RM, Nieckarz R, Zenobi R. Gas-phase basicity of several common MALDI matrices measured by a simple experimental approach. RSC Adv 2012. [DOI: 10.1039/c1ra01117k] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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43
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Bieler NS, Haag MP, Jacob CR, Reiher M. Analysis of the Cartesian Tensor Transfer Method for Calculating Vibrational Spectra of Polypeptides. J Chem Theory Comput 2011; 7:1867-81. [DOI: 10.1021/ct2001478] [Citation(s) in RCA: 42] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Noah S. Bieler
- ETH Zurich, Laboratorium für Physikalische Chemie, Wolfgang-Pauli-Strasse 10, 8093 Zurich, Switzerland
| | - Moritz P. Haag
- ETH Zurich, Laboratorium für Physikalische Chemie, Wolfgang-Pauli-Strasse 10, 8093 Zurich, Switzerland
| | - Christoph R. Jacob
- Karlsruhe Institute of Technology (KIT), Center for Functional Nanostructures, Wolfgang-Gaede-Str. 1a, 76131 Karlsruhe, Germany
| | - Markus Reiher
- ETH Zurich, Laboratorium für Physikalische Chemie, Wolfgang-Pauli-Strasse 10, 8093 Zurich, Switzerland
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Chakraborty S, Dopfer O. Infrared spectrum of the Ag(+)-(pyridine)2 ionic complex: probing interactions in artificial metal-mediated base pairing. Chemphyschem 2011; 12:1999-2008. [PMID: 21442717 DOI: 10.1002/cphc.201001052] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2010] [Indexed: 11/11/2022]
Abstract
The isolated pyridine-Ag(+)-pyridine unit (Py-Ag(+)-Py) is employed as a model system to characterize the recently observed Ag(+)-mediated base pairing in DNA oligonucleotides at the molecular level. The structure and infrared (IR) spectrum of the Ag(+)-Py(2) cationic complex are investigated in the gas phase by IR multiple-photon dissociation (IRMPD) spectroscopy and quantum chemical calculations to determine the preferred metal-ion binding site and other salient properties of the potential-energy surface. The IRMPD spectrum has been obtained in the 840-1720 cm(-1) fingerprint region by coupling the IR free electron laser at the Centre Laser Infrarouge d'Orsay (CLIO) with a Fourier-transform ion cyclotron resonance (FT-ICR) mass spectrometer equipped with an electrospray ionization source. The spectroscopic results are interpreted with quantum chemical calculations conducted at the B3LYP/aug-cc-pVDZ level. The analysis of the IRMPD spectrum is consistent with a σ complex, in which the Ag(+) ion binds to the nitrogen lone pairs of the two Py ligands in a linear configuration. The binding motif of Py-Ag(+)-Py in the gas phase is the same as that observed in Ag(+)-mediated base pairing in solution. Ag(+) bonding to the π-electron system of the aromatic ring is predicted to be a substantially less-favorable binding motif.
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Affiliation(s)
- Shamik Chakraborty
- Institut für Optik und Atomare Physik, Technische Universität Berlin, Hardenbergstr. 36, 10623 Berlin, Germany
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Lagutschenkov A, Langer J, Berden G, Oomens J, Dopfer O. Infrared spectra of protonated neurotransmitters: dopamine. Phys Chem Chem Phys 2011; 13:2815-23. [DOI: 10.1039/c0cp02133d] [Citation(s) in RCA: 76] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Lagutschenkov A, Langer J, Berden G, Oomens J, Dopfer O. Infrared spectra of the protonated neurotransmitter histamine: competition between imidazolium and ammonium isomers in the gas phase. Phys Chem Chem Phys 2011; 13:15644-56. [DOI: 10.1039/c1cp21681c] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
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