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Jeanne Dit Fouque K, Wellmann M, Leyva Bombuse D, Santos-Fernandez M, Cintron-Diaz YL, Gomez-Hernandez ME, Kaplan D, Voinov VG, Fernandez-Lima F. Effective discrimination of gas-phase peptide conformers using TIMS-ECD-ToF MS/MS. ANALYTICAL METHODS : ADVANCING METHODS AND APPLICATIONS 2021; 13:5216-5223. [PMID: 34698320 PMCID: PMC8596503 DOI: 10.1039/d1ay01461g] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/24/2023]
Abstract
In the present work, four, well-studied, model peptides (e.g., substance P, bradykinin, angiotensin I and AT-Hook 3) were used to correlate structural information provided by ion mobility and ECD/CID fragmentation in a TIMS-q-EMS-ToF MS/MS platform, incorporporating an electromagnetostatic cell (EMS). The structural heterogeneity of the model peptides was observed by (i) multi-component ion mobility profiles (high ion mobility resolving power, R ∼115-145), and (ii) fast online characteristic ECD fragmentation patterns per ion mobility band (∼0.2 min). Particularly, it was demonstrated that all investigated species were probably conformers, involving cis/trans-isomerizations at X-Pro peptide bond, following the same protonation schemes, in good agreement with previous ion mobility and single point mutation experiments. The comparison between ion mobility selected ECD spectra and traditional FT-ICR ECD MS/MS spectra showed comparable ECD fragmentation efficiencies but differences in the ratio of radical (˙)/prime (') fragment species (H˙ transfer), which were associated with the differences in detection time after the electron capture event. The analysis of model peptides using online TIMS-q-EMSToF MS/MS provided complementary structural information on the intramolecular interactions that stabilize the different gas-phase conformations to those obtained by ion mobility or ECD alone.
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Affiliation(s)
- K Jeanne Dit Fouque
- Department of Chemistry and Biochemistry, Florida International University, Miami, FL 33199, USA.
- Biomolecular Science Institute, Florida International University, Miami, FL 33199, USA
| | - M Wellmann
- Institute of Physical Chemistry, Christian-Albrechts-University Kiel, Kiel 24098, Germany
| | - D Leyva Bombuse
- Department of Chemistry and Biochemistry, Florida International University, Miami, FL 33199, USA.
| | - M Santos-Fernandez
- Department of Chemistry and Biochemistry, Florida International University, Miami, FL 33199, USA.
| | - Y L Cintron-Diaz
- Department of Chemistry and Biochemistry, Florida International University, Miami, FL 33199, USA.
| | - M E Gomez-Hernandez
- Department of Chemistry and Biochemistry, Florida International University, Miami, FL 33199, USA.
| | - D Kaplan
- KapScience LLC, Tewksbury, MA 01876, USA
| | - V G Voinov
- e-MSion Inc., Corvallis, OR 97330, USA
- Linus Pauling Institute and Department of Biochemistry and Biophysics, Oregon State University, Corvallis, OR 97331, USA
| | - F Fernandez-Lima
- Department of Chemistry and Biochemistry, Florida International University, Miami, FL 33199, USA.
- Biomolecular Science Institute, Florida International University, Miami, FL 33199, USA
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2
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Derr JB, Tamayo J, Clark JA, Morales M, Mayther MF, Espinoza EM, Rybicka-Jasińska K, Vullev VI. Multifaceted aspects of charge transfer. Phys Chem Chem Phys 2020; 22:21583-21629. [PMID: 32785306 PMCID: PMC7544685 DOI: 10.1039/d0cp01556c] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Charge transfer and charge transport are by far among the most important processes for sustaining life on Earth and for making our modern ways of living possible. Involving multiple electron-transfer steps, photosynthesis and cellular respiration have been principally responsible for managing the energy flow in the biosphere of our planet since the Great Oxygen Event. It is impossible to imagine living organisms without charge transport mediated by ion channels, or electron and proton transfer mediated by redox enzymes. Concurrently, transfer and transport of electrons and holes drive the functionalities of electronic and photonic devices that are intricate for our lives. While fueling advances in engineering, charge-transfer science has established itself as an important independent field, originating from physical chemistry and chemical physics, focusing on paradigms from biology, and gaining momentum from solar-energy research. Here, we review the fundamental concepts of charge transfer, and outline its core role in a broad range of unrelated fields, such as medicine, environmental science, catalysis, electronics and photonics. The ubiquitous nature of dipoles, for example, sets demands on deepening the understanding of how localized electric fields affect charge transfer. Charge-transfer electrets, thus, prove important for advancing the field and for interfacing fundamental science with engineering. Synergy between the vastly different aspects of charge-transfer science sets the stage for the broad global impacts that the advances in this field have.
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Affiliation(s)
- James B Derr
- Department of Biochemistry, University of California, Riverside, CA 92521, USA.
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3
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Marek A, Nguyen HTH, Brož B, Tureček F. Stereospecific control of peptide gas-phase ion chemistry with cis and trans cyclo ornithine residues. JOURNAL OF MASS SPECTROMETRY : JMS 2018; 53:124-137. [PMID: 29150896 DOI: 10.1002/jms.4047] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/13/2017] [Revised: 11/02/2017] [Accepted: 11/06/2017] [Indexed: 06/07/2023]
Abstract
We report non-chiral amino acid residues cis- and trans-1,4-diaminocyclohexane-1-carboxylic acid (cyclo-ornithine, cO) that exhibit unprecedented stereospecific control of backbone dissociations of singly charged peptide cations and hydrogen-rich cation radicals produced by electron-transfer dissociation. Upon collision-induced dissociation (CID) in the slow heating regime, peptide cations containing trans-cO residues undergo facile backbone cleavages of amide bonds C-terminal to trans-cO. By contrast, peptides with cis-cO residues undergo dissociations at several amide bonds along the peptide ion backbone. Diastereoisomeric cO-containing peptides thus provide remarkably distinct tandem mass spectra. The stereospecific effect in CID of the trans-cO residue is explained by syn-facially directed proton transfer from the 4-ammonium group at cO to the C-terminal amide followed by neighboring group participation in the cleavage of the CO-NH bond, analogous to the aspartic acid and ornithine effects. Backbone dissociations of diastereoisomeric cO-containing peptide ions generate distinct [bn ]+ -type fragment ions that were characterized by CID-MS3 spectra. Stereospecific control is also reported for electron-transfer dissociation of cis- and trans-cO containing doubly charged peptide ions. The stereospecific effect upon electron transfer is related to the different conformations of doubly charged peptide ions that affect the electron attachment sites and ensuing N-Cα bond dissociations.
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Affiliation(s)
- Aleš Marek
- Department of Chemistry, University of Washington, Bagley Hall, Box 351700, Seattle, WA, 98195-1700, USA
- Czech Academy of Sciences, Institute of Organic Chemistry and Biochemistry, Prague, Czech Republic
| | - Huong T H Nguyen
- Department of Chemistry, University of Washington, Bagley Hall, Box 351700, Seattle, WA, 98195-1700, USA
| | - Břetislav Brož
- Czech Academy of Sciences, Institute of Organic Chemistry and Biochemistry, Prague, Czech Republic
| | - František Tureček
- Department of Chemistry, University of Washington, Bagley Hall, Box 351700, Seattle, WA, 98195-1700, USA
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4
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Espinoza EM, Larsen-Clinton JM, Krzeszewski M, Darabedian N, Gryko DT, Vullev VI. Bioinspired approach toward molecular electrets: synthetic proteome for materials. PURE APPL CHEM 2017. [DOI: 10.1515/pac-2017-0309] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
AbstractMolecular-level control of charge transfer (CT) is essential for both, organic electronics and solar-energy conversion, as well as for a wide range of biological processes. This article provides an overview of the utility of local electric fields originating from molecular dipoles for directing CT processes. Systems with ordered dipoles, i.e. molecular electrets, are the centerpiece of the discussion. The conceptual evolution from biomimicry to biomimesis, and then to biological inspiration, paves the roads leading from testing the understanding of how natural living systems function to implementing these lessons into optimal paradigms for specific applications. This progression of the evolving structure-function relationships allows for the development of bioinspired electrets composed of non-native aromatic amino acids. A set of such non-native residues that are electron-rich can be viewed as a synthetic proteome for hole-transfer electrets. Detailed considerations of the electronic structure of an individual residue prove of key importance for designating the points for optimal injection of holes (i.e. extraction of electrons) in electret oligomers. This multifaceted bioinspired approach for the design of CT molecular systems provides unexplored paradigms for electronic and energy science and engineering.
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Affiliation(s)
- Eli M. Espinoza
- Department of Chemistry, University of California, Riverside, CA 92521, USA
| | | | - Maciej Krzeszewski
- Department of Bioengineering, University of California, Riverside, CA 92521, USA
- Institute of Organic Chemistry, Polish Academy of Sciences, Kasprzaka 44-52, 01-224 Warsaw, Poland
| | - Narek Darabedian
- Department of Bioengineering, University of California, Riverside, CA 92521, USA
| | - Daniel T. Gryko
- Institute of Organic Chemistry, Polish Academy of Sciences, Kasprzaka 44-52, 01-224 Warsaw, Poland
| | - Valentine I. Vullev
- Department of Chemistry, University of California, Riverside, CA 92521, USA
- Department of Bioengineering, University of California, Riverside, CA 92521, USA
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5
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Callis PR. Binding phenomena and fluorescence quenching. II: Photophysics of aromatic residues and dependence of fluorescence spectra on protein conformation. J Mol Struct 2014. [DOI: 10.1016/j.molstruc.2014.04.051] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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Anusiewicz I, Skurski P, Simons J. Refinements to the Utah–Washington Mechanism of Electron Capture Dissociation. J Phys Chem B 2014; 118:7892-901. [DOI: 10.1021/jp5004819] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Iwona Anusiewicz
- Department
of Chemistry, University of Gdańsk, Wita Stwosza 63, 80-308 Gdańsk, Poland
| | - Piotr Skurski
- Department
of Chemistry, University of Gdańsk, Wita Stwosza 63, 80-308 Gdańsk, Poland
| | - Jack Simons
- Chemistry
Department and Henry Eyring Center for Theoretical Chemistry, University of Utah, Salt Lake City, Utah 84112, United States
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Kalapothakis JMD, Berezovskaya Y, Zampronio CG, Faull PA, Barran PE, Cooper HJ. Unusual ECD fragmentation attributed to gas-phase helix formation in a conformationally dynamic peptide. Chem Commun (Camb) 2014; 50:198-200. [DOI: 10.1039/c3cc46356g] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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8
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Pepin R, Laszlo KJ, Peng B, Marek A, Bush MF, Tureček F. Comprehensive Analysis of Gly-Leu-Gly-Gly-Lys Peptide Dication Structures and Cation-Radical Dissociations Following Electron Transfer: From Electron Attachment to Backbone Cleavage, Ion–Molecule Complexes, and Fragment Separation. J Phys Chem A 2013; 118:308-24. [DOI: 10.1021/jp411100c] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Affiliation(s)
- Robert Pepin
- Department of Chemistry, Bagley Hall, Box 351700, University of Washington, Seattle, Washington 98195-1700, United States
| | - Kenneth J. Laszlo
- Department of Chemistry, Bagley Hall, Box 351700, University of Washington, Seattle, Washington 98195-1700, United States
| | - Bo Peng
- Department of Chemistry, Bagley Hall, Box 351700, University of Washington, Seattle, Washington 98195-1700, United States
| | - Aleš Marek
- Department of Chemistry, Bagley Hall, Box 351700, University of Washington, Seattle, Washington 98195-1700, United States
| | - Matthew F. Bush
- Department of Chemistry, Bagley Hall, Box 351700, University of Washington, Seattle, Washington 98195-1700, United States
| | - František Tureček
- Department of Chemistry, Bagley Hall, Box 351700, University of Washington, Seattle, Washington 98195-1700, United States
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Affiliation(s)
- František Tureček
- Department of Chemistry, Bagley Hall, University of Washington , Seattle, Washington 98195-1700, United States
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10
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Tureček F. Renaissance of cation-radicals in mass spectrometry. Mass Spectrom (Tokyo) 2013; 2:S0003. [PMID: 24349922 PMCID: PMC3810458 DOI: 10.5702/massspectrometry.s0003] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2012] [Accepted: 11/08/2012] [Indexed: 11/23/2022] Open
Abstract
This brief overview addresses the topic that was presented in the Thomson Medal Award session at the 19th International Mass Spectrometry Conference in Kyoto, Japan. Mass spectrometry of cation-radicals has enjoyed a remarkable renaissance thanks to the development of new methods for electron attachment to multiply charged peptide ions. The charge-reduced ions that are odd-electron species exhibit interesting reactivity that is useful for peptide and protein sequencing. The paper briefly reviews the fundamental aspects of the formation, energetics, and backbone dissociations of peptide cation-radicals.
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Roos G, De Proft F, Geerlings P. Electron capture by the thiyl radical and disulfide bond: ligand effects on the reduction potential. Chemistry 2013; 19:5050-60. [PMID: 23426785 DOI: 10.1002/chem.201203188] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2012] [Revised: 12/18/2012] [Indexed: 11/08/2022]
Abstract
The effect of non-polar and polar ligands and of monovalent cations on the one-electron reduction potential of the thiyl radical and the disulfide bond was evaluated. The reduction potentials E° for the CH3S(.)-nL/CH3S(-)-nL and CH3SSCH3-L/CH3SSCH3(.-)-L redox couples were calculated at the B3LYP, M06-2X and MP2 levels of theory, with n=1, 2 and L=CH4, C2H4, H2O, CH3OH, NH3, CH3COOH, CH3CONH2, NH4(+), Na(+), K(+) and Li(+). Non-polar ligands decrease the E° value of the thiyl radical and disulfide bond, while neutral polar ligands favour electron uptake. Charged polar ligands and cations favour electron capture by the thiyl radical while disfavouring electron uptake by the disulfide bond. Thus, the same type of ligand can have a different effect on E° depending on the redox couple. Therefore, properties of an isolated ligand cannot uniquely determine E°. The ligand effects on E° are discussed in terms of the vertical electron affinity and reorganization energy, as well as molecular orbital theory. For a given redox couple, the ligand type influences the nature of the anion formed upon electron capture and the corresponding reorganization process towards the reduced geometry.
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Affiliation(s)
- Goedele Roos
- General Chemistry, Vrije Universiteit Brussel, Pleinlaan 2, 1050 Brussels, Belgium.
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12
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Zhurov KO, Fornelli L, Wodrich MD, Laskay ÜA, Tsybin YO. Principles of electron capture and transfer dissociation mass spectrometry applied to peptide and protein structure analysis. Chem Soc Rev 2013; 42:5014-30. [DOI: 10.1039/c3cs35477f] [Citation(s) in RCA: 156] [Impact Index Per Article: 14.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
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13
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Wodrich MD, Zhurov KO, Vorobyev A, Ben Hamidane H, Corminboeuf C, Tsybin YO. Heterolytic N–Cα Bond Cleavage in Electron Capture and Transfer Dissociation of Peptide Cations. J Phys Chem B 2012; 116:10807-15. [DOI: 10.1021/jp306703f] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Matthew D. Wodrich
- Biomolecular
Mass Spectrometry
Laboratory, Ecole Polytechnique Fédérale de Lausanne, 1015 Lausanne, Switzerland
- Laboratory for Computational
Molecular Design, Ecole Polytechnique Fédérale de Lausanne, 1015 Lausanne, Switzerland
| | - Konstantin O. Zhurov
- Biomolecular
Mass Spectrometry
Laboratory, Ecole Polytechnique Fédérale de Lausanne, 1015 Lausanne, Switzerland
| | - Aleksey Vorobyev
- Biomolecular
Mass Spectrometry
Laboratory, Ecole Polytechnique Fédérale de Lausanne, 1015 Lausanne, Switzerland
| | - Hisham Ben Hamidane
- Biomolecular
Mass Spectrometry
Laboratory, Ecole Polytechnique Fédérale de Lausanne, 1015 Lausanne, Switzerland
| | - Clémence Corminboeuf
- Laboratory for Computational
Molecular Design, Ecole Polytechnique Fédérale de Lausanne, 1015 Lausanne, Switzerland
| | - Yury O. Tsybin
- Biomolecular
Mass Spectrometry
Laboratory, Ecole Polytechnique Fédérale de Lausanne, 1015 Lausanne, Switzerland
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Zimnicka M, Chung TW, Moss CL, Tureček F. Perturbing Peptide Cation-Radical Electronic States by Thioxoamide Groups: Formation, Dissociations, and Energetics of Thioxopeptide Cation-Radicals. J Phys Chem A 2012; 117:1265-75. [DOI: 10.1021/jp305865q] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Magdalena Zimnicka
- Department of Chemistry, Bagley Hall, Box
351700, University of Washington, Seattle,
Washington 98195-1700,
United States
| | - Thomas W. Chung
- Department of Chemistry, Bagley Hall, Box
351700, University of Washington, Seattle,
Washington 98195-1700,
United States
| | - Christopher L. Moss
- Department of Chemistry, Bagley Hall, Box
351700, University of Washington, Seattle,
Washington 98195-1700,
United States
| | - František Tureček
- Department of Chemistry, Bagley Hall, Box
351700, University of Washington, Seattle,
Washington 98195-1700,
United States
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