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Martínez-Fernández L, Ranković ML, Canon F, Nahon L, Giuliani A, Milosavljević AR, Martin-Somer A. Photodissociation of leucine-enkephalin protonated peptide: an experimental and theoretical perspective. RSC Adv 2024; 14:16809-16820. [PMID: 38784408 PMCID: PMC11112675 DOI: 10.1039/d4ra01690d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2024] [Accepted: 05/14/2024] [Indexed: 05/25/2024] Open
Abstract
Understanding the competing processes that govern far ultraviolet photodissociation (FUV-PD) of biopolymers such as proteins is a challenge. Here, we report a combined experimental and theoretical investigation of FUV-PD of protonated leucine-enkephalin pentapeptide ([YGGFL + H]+) in the gas-phase. Time-dependent density functional theory (TD-DFT) calculations in combination with experiments and previous results for amino acids and shorter peptides help in rationalizing the evolution of the excited states. The results confirm that fragmentation of [YGGFL + H]+ results mainly from vibrationally excited species in the ground electronic state, populated after internal conversion. We also propose fragmentation mechanisms for specific photo-fragments such as tyrosine side chain loss (with an extra hydrogen) or hydrogen loss. In general, we observe the same mechanisms as for smaller peptides or protonated Tyr and Phe, that are not quenched by the presence of other amino acids. Nevertheless, we also found some differences, as for H loss, in part due to the fact that the charge is solvated by the peptide chain and not only by the COOH terminal group.
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Affiliation(s)
- Lara Martínez-Fernández
- Departamento de Química Física de Materiales, Instituto de Química Física de Materiales, Instituto de Química Física Blas Cabrera, CSIC 28006 Madrid Spain
| | - Miloš Lj Ranković
- Institute of Physics Belgrade, University of Belgrade Pregrevica 118 11080 Belgrade Serbia
| | - Francis Canon
- SOLEIL l'Orme des Merisiers, St Aubin, BP48, F-91192 Gif sur Yvette Cedex France
| | - Laurent Nahon
- SOLEIL l'Orme des Merisiers, St Aubin, BP48, F-91192 Gif sur Yvette Cedex France
| | - Alexandre Giuliani
- SOLEIL l'Orme des Merisiers, St Aubin, BP48, F-91192 Gif sur Yvette Cedex France
- INRAE, Dpet. Transform UAR1008, Rue de la Géraudière, BP 71627 F-44316 Nantes France
| | | | - Ana Martin-Somer
- Departamento de Química Física Aplicada, Universidad Autónoma de Madrid Módulo 14 28049 Spain
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2
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Gies AP, Zhou Z, Mukhopadhyay S, Kosanovich AJ, Keaton RJ, Auyeung E, Kobylianskii I, Beezer DB, Dau H, Harth E. Analytical Insights into the Microstructures and Reaction Mechanisms of Cationic Pd(II) α-Diimine-Catalyzed Polyolefins. Macromolecules 2021. [DOI: 10.1021/acs.macromol.1c01478] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Anthony P. Gies
- Core R&D, The Dow Chemical Company, 220 Abner Jackson Pkwy., Edgar C. Britton Building, Lake Jackson, Texas 77566, United States
| | - Zhe Zhou
- Core R&D, The Dow Chemical Company, 220 Abner Jackson Pkwy., Edgar C. Britton Building, Lake Jackson, Texas 77566, United States
| | | | - Alex J. Kosanovich
- Core R&D, The Dow Chemical Company, 220 Abner Jackson Pkwy., Edgar C. Britton Building, Lake Jackson, Texas 77566, United States
| | - Richard J. Keaton
- Core R&D, The Dow Chemical Company, 220 Abner Jackson Pkwy., Edgar C. Britton Building, Lake Jackson, Texas 77566, United States
| | - Evelyn Auyeung
- Packaging and Specialty Plastics R&D, The Dow Chemical Company, 240 Abner Jackson Pkwy., Herbert H. Dow Building, Lake Jackson, Texas 77566, United States
| | - Ilia Kobylianskii
- Core R&D, The Dow Chemical Company, 220 Abner Jackson Pkwy., Edgar C. Britton Building, Lake Jackson, Texas 77566, United States
| | - Dain B. Beezer
- Department of Chemistry, University of Houston, Houston, Texas 77204, United States
| | - Huong Dau
- Department of Chemistry, University of Houston, Houston, Texas 77204, United States
| | - Eva Harth
- Department of Chemistry, University of Houston, Houston, Texas 77204, United States
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3
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Aloui I, Legros V, Giuliani A, Buchmann W. Ultraviolet Photoactivation Using Synchrotron Radiation for Tandem Mass Spectrometry of Polysiloxanes. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2021; 32:901-912. [PMID: 33673733 DOI: 10.1021/jasms.0c00392] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Gas-phase decompositions of polymer ions play an important role in mass spectrometry to obtain accurate structural information. In this work, UV photoactivation experiments were performed from two poly(dimethylsiloxane)s bearing different end groups (two trimethylsilyl, or α-sec-butyl and ω- trimethylsilyl). Precursor ions, such as [Polysiloxane+Cation]+ produced by an electrospray source, were stored in a linear ion trap and then submitted to synchrotron UV irradiation during different activation times and over a range of wavelengths (52 to 248 nm) from extreme UV (XUV) to deep UV. Upon photoactivation of a precursor ion from poly(dimethylsiloxane) (PDMS; with two trimethylsilyl end groups, [PDMS25+Na]+), important fragmentations were observed, including the loss of a methyl radical followed by various heterolytic cleavages along the polymer backbone, for photon energies typically >9.5-10 eV (ionization threshold of the neutral oligomer). This report focuses on different aspects: (i) the identification of the UV photodissociation (UV-PD) products of PDMS, (ii) the influence of the irradiation time for two photon energies (10 or 20 eV), (iii) the influence of the energy of the photon for two activation times (100 or 5000 ms), (iv) the influence of the nature of the cation, and (v) the influence of the end groups of PDMS. Synchrotron UV irradiation with a tunable wavelength was a great opportunity to study the effect of the photon energy and to probe the original mechanisms of ion decomposition from poly(dimethylsiloxane).
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Affiliation(s)
- Inès Aloui
- Université Paris-Saclay, Univ Evry, CNRS, LAMBE, 91025 Evry-Courcouronnes, France
| | - Véronique Legros
- Proteomic Platform, Institut Jacques Monod, 75205 CEDEX 13 Paris, France
| | - Alexandre Giuliani
- Disco Beamline, Université Paris-Saclay, Synchrotron Soleil, 91190, Saint-Aubin, France
- UAR1008, Transform, INRAe, Rue de la Géraudière, F-44316 Nantes, France
| | - William Buchmann
- Université Paris-Saclay, Univ Evry, CNRS, LAMBE, 91025 Evry-Courcouronnes, France
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4
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Brodbelt JS, Morrison LJ, Santos I. Ultraviolet Photodissociation Mass Spectrometry for Analysis of Biological Molecules. Chem Rev 2020; 120:3328-3380. [PMID: 31851501 PMCID: PMC7145764 DOI: 10.1021/acs.chemrev.9b00440] [Citation(s) in RCA: 139] [Impact Index Per Article: 34.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
The development of new ion-activation/dissociation methods continues to be one of the most active areas of mass spectrometry owing to the broad applications of tandem mass spectrometry in the identification and structural characterization of molecules. This Review will showcase the impact of ultraviolet photodissociation (UVPD) as a frontier strategy for generating informative fragmentation patterns of ions, especially for biological molecules whose complicated structures, subtle modifications, and large sizes often impede molecular characterization. UVPD energizes ions via absorption of high-energy photons, which allows access to new dissociation pathways relative to more conventional ion-activation methods. Applications of UVPD for the analysis of peptides, proteins, lipids, and other classes of biologically relevant molecules are emphasized in this Review.
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Affiliation(s)
- Jennifer S. Brodbelt
- Department of Chemistry, University of Texas at Austin, Austin, Texas 78712, United States
| | - Lindsay J. Morrison
- Department of Chemistry, University of Texas at Austin, Austin, Texas 78712, United States
| | - Inês Santos
- Department of Chemistry, University of Texas at Austin, Austin, Texas 78712, United States
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5
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Yang G, Wu H, Pembere AMS, Luo Z. Deep Ultraviolet Laser Radiation Causes Brittle Fracture of C
α
‐C
β
Bonds in Neurotransmitters. ChemistrySelect 2019. [DOI: 10.1002/slct.201900936] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Guanhua Yang
- University of Chinese Academy of Sciences Beijing 100049 P. R. 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
- University of Chinese Academy of Sciences Beijing 100049 P. R. China
| | - Anthony M. S. Pembere
- 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
| | - 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
- University of Chinese Academy of Sciences Beijing 100049 P. R. China
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6
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Song WT, Hu YJ, Jin S, Li YJ. Dissociative photoionization of heterocyclic molecule-morpholine under VUV synchrotron radiation. CHINESE J CHEM PHYS 2019. [DOI: 10.1063/1674-0068/cjcp1904068] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Affiliation(s)
- Wen-tao Song
- MOE Key Laboratory of Laser Life Science & Institute of Laser Life Science, and Guangzhou Key Laboratory of spectral analysis and functional probes, College of Biophotonics, South China Normal University, Guangzhou 510631, China
| | - Yong-jun Hu
- MOE Key Laboratory of Laser Life Science & Institute of Laser Life Science, and Guangzhou Key Laboratory of spectral analysis and functional probes, College of Biophotonics, South China Normal University, Guangzhou 510631, China
| | - Shan Jin
- MOE Key Laboratory of Laser Life Science & Institute of Laser Life Science, and Guangzhou Key Laboratory of spectral analysis and functional probes, College of Biophotonics, South China Normal University, Guangzhou 510631, China
| | - Yu-jian Li
- MOE Key Laboratory of Laser Life Science & Institute of Laser Life Science, and Guangzhou Key Laboratory of spectral analysis and functional probes, College of Biophotonics, South China Normal University, Guangzhou 510631, China
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7
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Ryan DJ, Spraggins JM, Caprioli RM. Protein identification strategies in MALDI imaging mass spectrometry: a brief review. Curr Opin Chem Biol 2019; 48:64-72. [PMID: 30476689 PMCID: PMC6382520 DOI: 10.1016/j.cbpa.2018.10.023] [Citation(s) in RCA: 105] [Impact Index Per Article: 21.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2018] [Revised: 09/26/2018] [Accepted: 10/26/2018] [Indexed: 01/21/2023]
Abstract
Matrix assisted laser desorption/ionization (MALDI) imaging mass spectrometry (IMS) is a powerful technology used to investigate the spatial distributions of thousands of molecules throughout a tissue section from a single experiment. As proteins represent an important group of functional molecules in tissue and cells, the imaging of proteins has been an important point of focus in the development of IMS technologies and methods. Protein identification is crucial for the biological contextualization of molecular imaging data. However, gas-phase fragmentation efficiency of MALDI generated proteins presents significant challenges, making protein identification directly from tissue difficult. This review highlights methods and technologies specifically related to protein identification that have been developed to overcome these challenges in MALDI IMS experiments.
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Affiliation(s)
- Daniel J. Ryan
- Department of Chemistry, Vanderbilt University, 7330 Stevenson Center, Station B 351822, Nashville, TN 37235, USA
- Mass Spectrometry Research Center, Vanderbilt University, 465 21 Ave S #9160, Nashville, TN 37235, USA
| | - Jeffrey M. Spraggins
- Department of Chemistry, Vanderbilt University, 7330 Stevenson Center, Station B 351822, Nashville, TN 37235, USA
- Mass Spectrometry Research Center, Vanderbilt University, 465 21 Ave S #9160, Nashville, TN 37235, USA
- Department of Biochemistry, Vanderbilt University, 607 Light Hall, Nashville, TN 37205, USA
| | - Richard M. Caprioli
- Department of Chemistry, Vanderbilt University, 7330 Stevenson Center, Station B 351822, Nashville, TN 37235, USA
- Mass Spectrometry Research Center, Vanderbilt University, 465 21 Ave S #9160, Nashville, TN 37235, USA
- Department of Biochemistry, Vanderbilt University, 607 Light Hall, Nashville, TN 37205, USA
- Department of Pharmacology, Vanderbilt University, 442 Robinson Research Building, 2220 Pierce Avenue, Nashville, TN 37232, USA
- Department of Medicine, Vanderbilt University, 465 21 Ave #9160, Nashville, TN 37235, USA
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8
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Ranka K, Zhao N, Yu L, Stanton JF, Polfer NC. Radical Rearrangement Chemistry in Ultraviolet Photodissociation of Iodotyrosine Systems: Insights from Metastable Dissociation, Infrared Ion Spectroscopy, and Reaction Pathway Calculations. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2018; 29:1791-1801. [PMID: 29845561 DOI: 10.1007/s13361-018-1959-1] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/26/2018] [Revised: 03/21/2018] [Accepted: 04/01/2018] [Indexed: 06/08/2023]
Abstract
We report on the ultraviolet photodissociation (UVPD) chemistry of protonated tyrosine, iodotyrosine, and diiodotyrosine. Distonic loss of the iodine creates a high-energy radical at the aromatic ring that engages in hydrogen/proton rearrangement chemistry. Based on UVPD kinetics measurements, the appearance of this radical is coincident with the UV irradiation pulse (8 ns). Conversely, sequential UVPD product ions exhibit metastable decay on ca. 100 ns timescales. Infrared ion spectroscopy is capable of confirming putative structures of the rearrangement products as proton transfers from the imine and β-carbon hydrogens. Potential energy surfaces for the various reaction pathways indicate that the rearrangement chemistry is highly complex, compatible with a cascade of rearrangements, and that there is no preferred rearrangement pathway even in small molecular systems like these. Graphical Abstract.
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Affiliation(s)
- Karnamohit Ranka
- Quantum Theory Project, Department of Chemistry, University of Florida, P.O. Box 117200, Gainesville, FL, 32611-7200, USA
- Quantum Theory Project, Department of Physics, University of Florida, P.O. Box 118435, Gainesville, FL, 32611-8435, USA
| | - Ning Zhao
- Department of Chemistry and Center for Chemical Physics, University of Florida, P.O. Box 117200, Gainesville, FL, 32611-7200, USA
| | - Long Yu
- Department of Chemistry and Center for Chemical Physics, University of Florida, P.O. Box 117200, Gainesville, FL, 32611-7200, USA
| | - John F Stanton
- Quantum Theory Project, Department of Chemistry, University of Florida, P.O. Box 117200, Gainesville, FL, 32611-7200, USA
- Quantum Theory Project, Department of Physics, University of Florida, P.O. Box 118435, Gainesville, FL, 32611-8435, USA
| | - Nicolas C Polfer
- Department of Chemistry and Center for Chemical Physics, University of Florida, P.O. Box 117200, Gainesville, FL, 32611-7200, USA.
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9
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Chen J, Luo Z, Fu H, Yao J. Photoreactions of Porphyrins Initiated by Deep Ultraviolet Single Photons. J Phys Chem A 2017; 121:4626-4632. [DOI: 10.1021/acs.jpca.7b03635] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Jing Chen
- State Key Laboratory
for
Structural Chemistry of Unstable and Stable species, and Key Laboratory
of Photochemistry, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, China
| | - Zhixun Luo
- State Key Laboratory
for
Structural Chemistry of Unstable and Stable species, and Key Laboratory
of Photochemistry, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, China
| | - Hongbing Fu
- State Key Laboratory
for
Structural Chemistry of Unstable and Stable species, and Key Laboratory
of Photochemistry, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, China
| | - Jiannian Yao
- State Key Laboratory
for
Structural Chemistry of Unstable and Stable species, and Key Laboratory
of Photochemistry, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, China
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10
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Li H, Sheng Y, McGee W, Cammarata M, Holden D, Loo JA. Structural Characterization of Native Proteins and Protein Complexes by Electron Ionization Dissociation-Mass Spectrometry. Anal Chem 2017; 89:2731-2738. [PMID: 28192979 DOI: 10.1021/acs.analchem.6b02377] [Citation(s) in RCA: 51] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Mass spectrometry (MS) has played an increasingly important role in the identification and structural and functional characterization of proteins. In particular, the use of tandem mass spectrometry has afforded one of the most versatile methods to acquire structural information for proteins and protein complexes. The unique nature of electron capture dissociation (ECD) for cleaving protein backbone bonds while preserving noncovalent interactions has made it especially suitable for the study of native protein structures. However, the intra- and intermolecular interactions stabilized by hydrogen bonds and salt bridges can hinder the separation of fragments even with preactivation, which has become particularly problematic for the study of large macromolecular proteins and protein complexes. Here, we describe the capabilities of another activation method, 30 eV electron ionization dissociation (EID), for the top-down MS characterization of native protein-ligand and protein-protein complexes. Rich structural information that cannot be delivered by ECD can be generated by EID. EID allowed for the comparison of the gas-phase and the solution-phase structural stability and unfolding process of human carbonic anhydrase I (HCA-I). In addition, the EID fragmentation patterns reflect the structural similarities and differences among apo-, Zn-, and Cu,Zn-superoxide dismutase (SOD1) dimers. In particular, the structural changes due to Cu-binding and a point mutation (G41D) were revealed by EID-MS. The performance of EID was also compared to that of 193 nm ultraviolet photodissociation (UVPD), which allowed us to explore their qualitative similarities and differences as potential valuable tools for the MS study of native proteins and protein complexes.
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Affiliation(s)
- Huilin Li
- Department of Biological Chemistry, David Geffen School of Medicine, University of California , Los Angeles, California 90095, United States
| | - Yuewei Sheng
- Department of Chemistry and Biochemistry, UCLA/DOE Institute of Genomics and Proteomics, and UCLA Molecular Biology Institute, University of California , Los Angeles, California 90095, United States
| | - William McGee
- Department of Chemistry, The University of Texas at Austin , Austin, Texas 78712, United States
| | - Michael Cammarata
- Department of Chemistry, The University of Texas at Austin , Austin, Texas 78712, United States
| | - Dustin Holden
- Department of Chemistry, The University of Texas at Austin , Austin, Texas 78712, United States
| | - Joseph A Loo
- Department of Biological Chemistry, David Geffen School of Medicine, University of California , Los Angeles, California 90095, United States.,Department of Chemistry and Biochemistry, UCLA/DOE Institute of Genomics and Proteomics, and UCLA Molecular Biology Institute, University of California , Los Angeles, California 90095, United States
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11
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Egorov D, Hoekstra R, Schlathölter T. A comparative VUV absorption mass-spectroscopy study on protonated peptides of different size. Phys Chem Chem Phys 2017; 19:20608-20618. [DOI: 10.1039/c7cp03203j] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
The response of gas-phase peptides upon vacuum ultraviolet absorption depends strongly on the peptide size.
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Affiliation(s)
- D. Egorov
- Zernike Institute for Advanced Materials
- University of Groningen
- 9747AG Groningen
- The Netherlands
| | - R. Hoekstra
- Zernike Institute for Advanced Materials
- University of Groningen
- 9747AG Groningen
- The Netherlands
| | - T. Schlathölter
- Zernike Institute for Advanced Materials
- University of Groningen
- 9747AG Groningen
- The Netherlands
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12
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Morrison LJ, Rosenberg JA, Singleton JP, Brodbelt JS. Statistical Examination of the a and a + 1 Fragment Ions from 193 nm Ultraviolet Photodissociation Reveals Local Hydrogen Bonding Interactions. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2016; 27:1443-53. [PMID: 27206509 PMCID: PMC4974117 DOI: 10.1007/s13361-016-1418-9] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/24/2016] [Revised: 05/01/2016] [Accepted: 05/06/2016] [Indexed: 05/11/2023]
Abstract
Dissociation of proteins and peptides by 193 nm ultraviolet photodissociation (UVPD) has gained momentum in proteomic studies because of the diversity of backbone fragments that are produced and subsequent unrivaled sequence coverage obtained by the approach. The pathways that form the basis for the production of particular ion types are not completely understood. In this study, a statistical approach is used to probe hydrogen atom elimination from a + 1 radical ions, and different extents of elimination are found to vary as a function of the identity of the C-terminal residue of the a product ions and the presence or absence of hydrogen bonds to the cleaved residue. Graphical Abstract ᅟ.
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Affiliation(s)
| | - Jake A Rosenberg
- Department of Chemistry, University of Texas, Austin, TX, 78712, USA
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13
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Morrison LJ, Brodbelt JS. 193 nm Ultraviolet Photodissociation Mass Spectrometry of Tetrameric Protein Complexes Provides Insight into Quaternary and Secondary Protein Topology. J Am Chem Soc 2016; 138:10849-59. [PMID: 27480400 DOI: 10.1021/jacs.6b03905] [Citation(s) in RCA: 55] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Protein-protein interfaces and architecture are critical to the function of multiprotein complexes. Mass spectrometry-based techniques have emerged as powerful strategies for characterization of protein complexes, particularly for heterogeneous mixtures of structures. In the present study, activation and dissociation of three tetrameric protein complexes (streptavidin, transthyretin, and hemoglobin) in the gas phase was undertaken by 193 nm ultraviolet photodissociation (UVPD) for the characterization of higher order structure. High pulse energy UVPD resulted in the production of dimers and low charged monomers exhibiting symmetrical charge partitioning among the subunits (the so-called symmetrical dissociation pathways), consistent with the subunit organization of the complexes. In addition, UVPD promoted backbone cleavages of the monomeric subunits, the abundances of which corresponded to the more flexible loop regions of the proteins.
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Affiliation(s)
- Lindsay J Morrison
- Department of Chemistry, University of Texas , Austin, Texas 78712, United States
| | - Jennifer S Brodbelt
- Department of Chemistry, University of Texas , Austin, Texas 78712, United States
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14
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Shaw JB, Robinson EW, Paša-Tolić L. Vacuum Ultraviolet Photodissociation and Fourier Transform–Ion Cyclotron Resonance (FT-ICR) Mass Spectrometry: Revisited. Anal Chem 2016; 88:3019-23. [DOI: 10.1021/acs.analchem.6b00148] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Affiliation(s)
- Jared B. Shaw
- Environmental Molecular Sciences
Laboratory, Pacific Northwest National Laboratory, Richland, Washington 99354, United States
| | - Errol W. Robinson
- Environmental Molecular Sciences
Laboratory, Pacific Northwest National Laboratory, Richland, Washington 99354, United States
| | - Ljiljana Paša-Tolić
- Environmental Molecular Sciences
Laboratory, Pacific Northwest National Laboratory, Richland, Washington 99354, United States
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15
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Morrison LJ, Brodbelt JS. Charge site assignment in native proteins by ultraviolet photodissociation (UVPD) mass spectrometry. Analyst 2016; 141:166-76. [PMID: 26596460 PMCID: PMC4679510 DOI: 10.1039/c5an01819f] [Citation(s) in RCA: 46] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Characterization of all gas-phase charge sites of natively sprayed proteins and peptides is demonstrated using 193 nm UVPD. The high sequence coverage offered by UVPD is exploited for the accurate determination of charge sites in protein systems up to 18 kDa, allowing charge site to be studied as a function of protein conformation and the presence of disulfide bonds. Charging protons are found on both basic sidechains and on the amide backbone of less basic amino acids such as serine, glutamine, and proline. UVPD analysis was performed on the 3+ charge state of melittin, the 5+ to 8+ charge states of ubiquitin, and the 8+ charge state of reduced and oxidized β-lactoglobulin. The location of charges in gas-phase proteins is known to impact structure; molecular modeling of different charge site motifs of 3+ melittin demonstrates how placement of protons in simulations can dramatically impact the predicted structure of the molecule. The location of positive charge sites in ubiquitin and β-lactoglobulin are additionally found to depend on the presence or absence of salt-bridges, columbic repulsion across the length of the peptide, and protein conformation. Charge site isomers are demonstrated for ubiquitin and β-lactoglobulin but found to be much less numerous than previously predicted.
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16
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Affiliation(s)
- Jennifer S Brodbelt
- Department of Chemistry, University of Texas at Austin , Austin, Texas 78712, United States
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17
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Tao Y, Hu Y, Xiao W, Guan J, Liu F, Shan X, Sheng L. Dissociative ionization of the 1-propanol dimer in a supersonic expansion under tunable synchrotron VUV radiation. Phys Chem Chem Phys 2016; 18:13554-63. [DOI: 10.1039/c5cp08026f] [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
Different C–C bond cleavage of the 1-propanol dimer induced by site-selective photoionization under tunable synchrotron VUV radiation.
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Affiliation(s)
- Yanmin Tao
- MOE Key Laboratory of Laser Life Science & Institute of Laser Life Science
- College of Biophotonics
- South China Normal University
- Guangzhou 510631
- P. R. China
| | - Yongjun Hu
- MOE Key Laboratory of Laser Life Science & Institute of Laser Life Science
- College of Biophotonics
- South China Normal University
- Guangzhou 510631
- P. R. China
| | - Weizhan Xiao
- MOE Key Laboratory of Laser Life Science & Institute of Laser Life Science
- College of Biophotonics
- South China Normal University
- Guangzhou 510631
- P. R. China
| | - Jiwen Guan
- MOE Key Laboratory of Laser Life Science & Institute of Laser Life Science
- College of Biophotonics
- South China Normal University
- Guangzhou 510631
- P. R. China
| | - Fuyi Liu
- National Synchrotron Radiation Laboratory
- University of Science and Technology of China
- Hefei
- P. R. China
| | - Xiaobin Shan
- National Synchrotron Radiation Laboratory
- University of Science and Technology of China
- Hefei
- P. R. China
| | - Liusi Sheng
- National Synchrotron Radiation Laboratory
- University of Science and Technology of China
- Hefei
- P. R. China
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Holden DD, McGee WM, Brodbelt JS. Integration of Ultraviolet Photodissociation with Proton Transfer Reactions and Ion Parking for Analysis of Intact Proteins. Anal Chem 2015; 88:1008-16. [DOI: 10.1021/acs.analchem.5b03911] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Affiliation(s)
- Dustin D. Holden
- Department of Chemistry, The University of Texas at Austin, Austin, Texas 78712, United States
| | - William M. McGee
- Department of Chemistry, The University of Texas at Austin, Austin, Texas 78712, United States
| | - Jennifer S. Brodbelt
- Department of Chemistry, The University of Texas at Austin, Austin, Texas 78712, United States
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20
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Robotham SA, Brodbelt JS. Comparison of Ultraviolet Photodissociation and Collision Induced Dissociation of Adrenocorticotropic Hormone Peptides. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2015; 26:1570-9. [PMID: 26122515 DOI: 10.1007/s13361-015-1186-y] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/09/2015] [Revised: 04/19/2015] [Accepted: 05/10/2015] [Indexed: 05/16/2023]
Abstract
In an effort to better characterize the fragmentation pathways promoted by ultraviolet photoexcitation in comparison to collision induced dissociation (CID), six adrenocorticotropic hormone (ACTH) peptides in a range of charge states were subjected to 266 nm ultraviolet photodissociation (UVPD), 193 nm UVPD, and CID. Similar fragment ions and distributions were observed for 266 nm UVPD and 193 nm UVPD for all peptides investigated. While both UVPD and CID led to preferential cleavage of the Y-S bond for all ACTH peptides [except ACTH (1-39)], UVPD was far less dependent on charge state and location of basic sites for the production of C-terminal and N-terminal ions. For ACTH (1-16), ACTH (1-17), ACTH (1-24), and ACTH (1-39), changes in the distributions of fragment ion types (a, b, c, x, y, z, and collectively N-terminal ions versus C-terminal ions) showed only minor changes upon UVPD for all charge states. In contrast, CID displayed significant changes in the fragment ion type distributions as a function of charge state, an outcome consistent with the dependence on the number and location of mobile protons that is not prominent for UVPD. Sequence coverages obtained by UVPD showed less dependence on charge state than those determined by CID, with the latter showing a consistent decrease in coverage as charge state increased.
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Affiliation(s)
- Scott A Robotham
- Department of Chemistry, University of Texas, Austin, TX, 78712, USA
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Xiao W, Hu Y, Li W, Guan J, Liu F, Shan X, Sheng L. Unexpected methyl migrations of ethanol dimer under synchrotron VUV radiation. J Chem Phys 2015; 142:024306. [DOI: 10.1063/1.4905501] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Weizhan Xiao
- MOE Key Laboratory of Laser Life Science and Institute of Laser Life Science, College of Biophotonics, South China Normal University, Guangzhou 510631, People’s Republic of China
| | - Yongjun Hu
- MOE Key Laboratory of Laser Life Science and Institute of Laser Life Science, College of Biophotonics, South China Normal University, Guangzhou 510631, People’s Republic of China
| | - Weixing Li
- MOE Key Laboratory of Laser Life Science and Institute of Laser Life Science, College of Biophotonics, South China Normal University, Guangzhou 510631, People’s Republic of China
| | - Jiwen Guan
- MOE Key Laboratory of Laser Life Science and Institute of Laser Life Science, College of Biophotonics, South China Normal University, Guangzhou 510631, People’s Republic of China
| | - Fuyi Liu
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, Hefei, Anhui 230029, People’s Republic of China
| | - Xiaobin Shan
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, Hefei, Anhui 230029, People’s Republic of China
| | - Liusi Sheng
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, Hefei, Anhui 230029, People’s Republic of China
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Canon F, Milosavljević AR, Nahon L, Giuliani A. Action spectroscopy of a protonated peptide in the ultraviolet range. Phys Chem Chem Phys 2015; 17:25725-33. [DOI: 10.1039/c4cp04762a] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Action spectroscopy of substance P, a model undecapeptide, has been probed from 5.2 eV to 20 eV.
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Affiliation(s)
- Francis Canon
- Synchrotron Soleil
- l'Orme des Merisiers
- 91192 Gif sur Yvette Cedex
- France
- UMR1324 Centre des Sciences du Goût et de l'Alimentation
| | | | - Laurent Nahon
- Synchrotron Soleil
- l'Orme des Merisiers
- 91192 Gif sur Yvette Cedex
- France
| | - Alexandre Giuliani
- Synchrotron Soleil
- l'Orme des Merisiers
- 91192 Gif sur Yvette Cedex
- France
- Uar1008
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24
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Cai Y, Zheng Q, Liu Y, Helmy R, Loo JA, Chen H. Integration of electrochemistry with ultra-performance liquid chromatography/mass spectrometry. EUROPEAN JOURNAL OF MASS SPECTROMETRY (CHICHESTER, ENGLAND) 2015; 21:341-51. [PMID: 26307715 PMCID: PMC4552337 DOI: 10.1255/ejms.1318] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/21/2023]
Abstract
This study presents the development of ultra-performance liquid chromatography (UPLC) mass spectrometry (MS) combined with electrochemistry (EC) for the first time and its application for the structural analysis of proteins/peptides that contain disulfide bonds. In our approach, a protein/peptide mixture sample undergoes a fast UPLC separation and subsequent electrochemical reduction in an electrochemical flow cell followed by online MS and tandem mass spectrometry (MS/MS) analyses. The electrochemical cell is coupled to the mass spectrometer using our recently developed desorption electrospray ionization (DESI) interface. Using this UPLC/EC/DESI-MS method, peptides that contain disulfide bonds can be differentiated from those without disulfide bonds, as the former are electroactive and reducible. MS/MS analysis of the disulfide-reduced peptide ions provides increased information on the sequence and disulfide-linkage pattern. In a reactive DESI- MS detection experiment in which a supercharging reagent was used to dope the DESI spray solvent, increased charging was obtained for the UPLC-separated proteins. Strikingly, upon online electrolytic reduction, supercharged proteins (e.g., α-lactalbumin) showed even higher charging, which will be useful in top- down protein structure MS analysis as increased charges are known to promote protein ion dissociation. Also, the separation speed and sensitivity are enhanced by approximately 1(~)2 orders of magnitude by using UPLC for the liquid chromatography (LC)/EC/MS platform, in comparison to the previously used high- performance liquid chromatography (HPLC). This UPLC/EC/DESI-MS method combines the power of fast UPLC separation, fast electrochemical conversion, and online MS structural analysis for a potentially valuable tool for proteomics research and bioanalysis.
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Affiliation(s)
- Yi Cai
- Center for Intelligent Chemical Instrumentation, Department of Chemistry and Biochemistry, Edison Biotechnology Institute, Ohio University, Athens, OH, 45701 USA.
| | - Qiuling Zheng
- Center for Intelligent Chemical Instrumentation, Department of Chemistry and Biochemistry, Edison Biotechnology Institute, Ohio University, Athens, OH, 45701 USA.
| | - Yong Liu
- Department of Analytical Chemistry, Merck Research Laboratories, Merck & Co., Inc., Rahway, NJ 07065, USA.
| | - Roy Helmy
- Department of Analytical Chemistry, Merck Research Laboratories, Merck & Co., Inc., Rahway, NJ 07065, USA.
| | - Joseph A Loo
- Dep artment of Chemistry and Biochemistry, Department of Biological Chemistry, David Geffen School of Medicine at UCLA, and UCLA/DOE Institute for Genomics and Proteomics, University of California-Los Angeles, Los Angeles, CA 90095, USA.
| | - Hao Chen
- Center for Intelligent Chemical Instrumentation, Department of Chemistry and Biochemistry, Edison Biotechnology Institute, Ohio University, Athens, OH, 45701 USA.
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25
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Giuliani A, Milosavljević AR, Canon F, Nahon L. Contribution of synchrotron radiation to photoactivation studies of biomolecular ions in the gas phase. MASS SPECTROMETRY REVIEWS 2014; 33:424-441. [PMID: 24375654 DOI: 10.1002/mas.21398] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
Photon activation of ions in the visible and ultraviolet range attracts a growing interest, partly for its promising applications in tandem mass spectrometry. However, this task is not trivial, as it requires notably high brilliance photon sources. Hence, most of the work in that field has been performed using lasers. Synchrotron radiation is a source continuously tunable over a wide photon energy range and which possesses the necessary characteristics for ion activation. This review focuses on the array of applications of synchrotron radiation in photon activation of ions ranging from near UV to soft X-rays.
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Affiliation(s)
- Alexandre Giuliani
- Synchrotron SOLEIL, L'Orme des Merisiers, Saint Aubin, 91192, Gif-sur-Yvette, France; UAR1008 CEPIA, INRA, 44316, Nantes, France
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26
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Li W, Hu Y, Liu F, Shan X, Sheng L. Site-selective dissociation processes of cationic ethanol conformers: the role of hyperconjugation. J Phys Chem A 2014; 118:7096-103. [PMID: 25080068 DOI: 10.1021/jp5035568] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
In present report, we explored hyperconjugation effects on the site- and bond-selective dissociation processes of cationic ethanol conformers by the use of theoretical methods (including configuration optimizations, natural bond orbital (NBO) analysis, and density of states (DOS) calculations, etc.) and the tunable synchrotron vacuum ultraviolet (SVUV) photoionization mass spectrometry. The dissociative mechanism of ethanol cations, in which hyperconjugative interactions and charge-transfer processes were involved, was proposed. The results reveal Cα-H and C-C bonds are selectively weakened, which arise as a result of the hyperconjugative interactions σCα-H → p in the trans-conformer and σC-C → p in gauche-conformer after being ionized. As a result, the selective bond cleavages would occur and different fragments were observed.
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Affiliation(s)
- Weixing Li
- MOE Key Laboratory of Laser Life Science & Institute of Laser Life Science, College of Biophotonics, South China Normal University , Guangzhou 510631, P. R. China
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27
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Cannon JR, Kluwe C, Ellington A, Brodbelt JS. Characterization of green fluorescent proteins by 193 nm ultraviolet photodissociation mass spectrometry. Proteomics 2014; 14:1165-73. [PMID: 24596159 PMCID: PMC4071602 DOI: 10.1002/pmic.201300364] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2013] [Revised: 12/07/2013] [Accepted: 01/13/2014] [Indexed: 11/05/2022]
Abstract
We investigate the utility of 193 nm ultraviolet photodissociation (UVPD) in comparison to CID, higher energy CID (HCD), and electron transfer dissociation (ETD) for top down fragmentation of highly homologous green fluorescent proteins (GFP) in the gas phase. Several GFP variants were constructed via mutation of surface residues to charged moieties, demonstrating different pIs and presenting a challenge for identification by mass spectrometry. Presented is a comparison of fragmentation techniques utilized for top down characterization of four variants with varying levels of surface charge. UVPD consistently resulted in identification of more fragment ions relative to other MS/MS methods, allowing higher confidence identification. In addition to the high number of fragment ions, the sites of fragmentation were more evenly spread throughout the protein backbone, which proved key for localizing the point mutations.
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Affiliation(s)
- Joe R. Cannon
- Department of Chemistry, University of Texas at Austin, Austin, Texas
| | - Christien Kluwe
- Center for Systems and Synthetic Biology, University of Texas at Austin, Austin, Texas
| | - Andrew Ellington
- Center for Systems and Synthetic Biology, University of Texas at Austin, Austin, Texas
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28
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Brodbelt JS. Photodissociation mass spectrometry: new tools for characterization of biological molecules. Chem Soc Rev 2014; 43:2757-83. [PMID: 24481009 PMCID: PMC3966968 DOI: 10.1039/c3cs60444f] [Citation(s) in RCA: 232] [Impact Index Per Article: 23.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Photodissociation mass spectrometry combines the ability to activate and fragment ions using photons with the sensitive detection of the resulting product ions by mass spectrometry. This combination affords a versatile tool for characterization of biological molecules. The scope and breadth of photodissociation mass spectrometry have increased substantially over the past decade as new research groups have entered the field and developed a number of innovative applications that illustrate the ability of photodissociation to produce rich fragmentation patterns, to cleave bonds selectively, and to target specific molecules based on incorporation of chromophores. This review focuses on many of the key developments in photodissociation mass spectrometry over the past decade with a particular emphasis on its applications to biological molecules.
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29
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Zheng Q, Zhang H, Chen H. Integration of online digestion and electrolytic reduction with mass spectrometry for rapid disulfide-containing protein structural analysis. INTERNATIONAL JOURNAL OF MASS SPECTROMETRY 2013; 353:84-92. [PMID: 25419170 PMCID: PMC4240030 DOI: 10.1016/j.ijms.2013.04.009] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/04/2023]
Abstract
Bottom-up structural analysis of disulfide-bond containing proteins usually involves time-consuming offline enzymatic digestion, chemical reduction and thiol protection prior to mass spectrometric detection, which takes many hours. This paper presents an expedited bottom-up approach, employing desorption electrospray ionization-mass spectrometry (DESI-MS) coupled with online pepsin digestion and online electrochemical reduction of disulfide bonds. Peptides are generated in high digestion yield as its precursor protein in acidic aqueous solution flows through a pepsin column, which can undergo direct electrolysis. The electrolytic behaviors of peptides, as online monitored by DESI-MS, suggest the presence or absence of disulfide bonds in the peptides, and also provide information to relate disulfide bond-containing peptide precursors to their corresponding reduced products. Furthermore, selective electrolysis simply using different reduction potentials can be adopted to generate either partially or fully reduced peptides to assist disulfide bond mapping. In addition, it turns out that DESI is suitable for ionizing peptides in water without organic solvent additives (organic solvent additives would not be compatible with the use of pepsin column). The feasibility of this method was demonstrated using insulin, a protein carrying three pairs of disulfide-bonds as an example, in which all disulfide bond linkages and most of the protein sequence were successfully determined. Strikingly, this method shortens the sample digestion, reduction and MS detection from hours to less than 7 min, which could be of high value in high-throughput proteomics research.
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Affiliation(s)
- Qiuling Zheng
- Center for Intelligent Chemical Instrumentation, Department of Chemistry and Biochemistry, Ohio University, Athens, OH 45701, USA
| | - Hao Zhang
- Department of Chemistry, Washington University, St. Louis, MO 63130, USA
- Corresponding author. Tel.: +1 314 935 7486
| | - Hao Chen
- Center for Intelligent Chemical Instrumentation, Department of Chemistry and Biochemistry, Ohio University, Athens, OH 45701, USA
- Corresponding author. Tel.: +1 740 593 0719; fax: +1 740 597 3157
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Robotham SA, Kluwe C, Cannon JR, Ellington A, Brodbelt JS. De novo sequencing of peptides using selective 351 nm ultraviolet photodissociation mass spectrometry. Anal Chem 2013; 85:9832-8. [PMID: 24050806 DOI: 10.1021/ac402309h] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Abstract
Although in silico database search methods remain more popular for shotgun proteomics methods, de novo sequencing offers the ability to identify peptides derived from proteins lacking sequenced genomes and ones with subtle splice variants or truncations. Ultraviolet photodissociation (UVPD) of peptides derivatized by selective attachment of a chromophore at the N-terminus generates a characteristic series of y ions. The UVPD spectra of the chromophore-labeled peptides are simplified and thus amenable to de novo sequencing. This method resulted in an observed sequence coverage of 79% for cytochrome C (eight peptides), 47% for β-lactoglobulin (five peptides), 25% for carbonic anhydrase (six peptides), and 51% for bovine serum albumin (33 peptides). This strategy also allowed differentiation of proteins with high sequence homology as evidenced by de novo sequencing of two variants of green fluorescent protein.
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Affiliation(s)
- Scott A Robotham
- Department of Chemistry, University of Texas , Austin, Texas 78712, United States
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31
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Canon F, Milosavljević AR, van der Rest G, Réfrégiers M, Nahon L, Sarni-Manchado P, Cheynier V, Giuliani A. Photodissociation and Dissociative Photoionization Mass Spectrometry of Proteins and Noncovalent Protein-Ligand Complexes. Angew Chem Int Ed Engl 2013. [DOI: 10.1002/ange.201304046] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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32
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Canon F, Milosavljević AR, van der Rest G, Réfrégiers M, Nahon L, Sarni-Manchado P, Cheynier V, Giuliani A. Photodissociation and Dissociative Photoionization Mass Spectrometry of Proteins and Noncovalent Protein-Ligand Complexes. Angew Chem Int Ed Engl 2013; 52:8377-81. [DOI: 10.1002/anie.201304046] [Citation(s) in RCA: 44] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2013] [Indexed: 11/06/2022]
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33
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Lai CK, Ng DCM, Pang HF, Le Blanc JCY, Hager JW, Fang DC, Cheung ASC, Chu IK. Laser-induced dissociation of singly protonated peptides at 193 and 266 nm within a hybrid linear ion trap mass spectrometer. RAPID COMMUNICATIONS IN MASS SPECTROMETRY : RCM 2013; 27:1119-27. [PMID: 23592116 DOI: 10.1002/rcm.6545] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/18/2012] [Revised: 02/08/2013] [Accepted: 02/13/2013] [Indexed: 05/16/2023]
Abstract
RATIONALE We implemented, for the first time, laser-induced dissociation (LID) within a modified hybrid linear ion trap mass spectrometer, QTrap, while preserving the original scanning capabilities and routine performance of the instrument. METHODS Precursor ions of interest were mass-selected in the first quadrupole (Q1), trapped in the radiofrequency-only quadrupole (q2), photodissociated under irradiation with a 193- or 266-nm laser beam in the third quadrupole (q3), and mass-analyzed using the linear ion trap. RESULTS LID of singly charged protonated peptides revealed, in addition to conventional amide-bond cleavages, preferential fragmentation at Cα -C/N-Cα bonds of the backbone as well as at the Cα -Cβ /Cβ -Cγ bonds of the side-chains. The LID spectra of [M+H](+) featured product ions that were very similar to the observed radical-induced fragmentations in the CID spectra of analogous odd-electron radical cations generated through dissociative electron-transfer in metal-ligand-peptide complexes or through laser photolysis of iodopeptides. CONCLUSIONS LID of [M+H](+) ions results in fragmentation channels that are comparable with those observed upon the CID of M(•+) ions, with a range of fascinating radical-induced fragmentations.
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Affiliation(s)
- Cheuk-Kuen Lai
- Department of Chemistry, The University of Hong Kong, Hong Kong, China
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34
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Love CB, Tan L, Francisco JS, Xia Y. Competition of Charge- versus Radical-Directed Fragmentation of Gas-Phase Protonated Cysteine Sulfinyl Radicals. J Am Chem Soc 2013; 135:6226-33. [PMID: 23527556 DOI: 10.1021/ja4008744] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Chasity B. Love
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907-2084,
United States
| | - Lei Tan
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907-2084,
United States
| | - Joseph S. Francisco
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907-2084,
United States
| | - Yu Xia
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907-2084,
United States
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35
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Guan J, Hu Y, Zou H, Cao L, Liu F, Shan X, Sheng L. Competitive fragmentation pathways of acetic acid dimer explored by synchrotron VUV photoionization mass spectrometry and electronic structure calculations. J Chem Phys 2012; 137:124308. [DOI: 10.1063/1.4754273] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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36
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Brunet C, Antoine R, Dugourd P, Canon F, Giuliani A, Nahon L. Formation and fragmentation of radical peptide anions: insights from vacuum ultra violet spectroscopy. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2012; 23:274-281. [PMID: 22083590 DOI: 10.1007/s13361-011-0285-7] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/14/2011] [Revised: 10/17/2011] [Accepted: 10/19/2011] [Indexed: 05/31/2023]
Abstract
We have studied the photodissociation of gas-phase deprotonated caerulein anions by vacuum ultraviolet (VUV) photons in the 4.5 to 20 eV range, as provided by the DESIRS beamline at the synchrotron radiation facility SOLEIL (France). Caerulein is a sulphated peptide with three aromatic residues and nine amide bonds. Electron loss is found to be the major relaxation channel at every photon energy. However, an increase in the fragmentation efficiency (neutral losses and peptide backbone cleavages) as a function of the energy is also observed. The oxidized ions, generated by electron photodetachment were further isolated and activated by collision (CID) in a MS(3) scheme. The branching ratios of the different fragments observed by CID as a function of the initial VUV photon energy are found to be independent of the initial photon energy. Thus, there is no memory effect of the initial excitation energy on the fragmentation channels of the oxidized species on the time scale of our tandem MS experiment. We also report photofragment yields as a function of photon energy for doubly deprotonated caerulein ions, for both closed-shell ([M-2H](2-)) non-radical ions and open-shell ([M-3H](2-•)) radical ions. These latter ions are generated by electron photodetachment from [M-3H](3-) precursor ions. The detachment yield increases monotonically with the energy with the appearance of several absorption bands. Spectra for radical and non-radical ions are quite similar in terms of observed bands; however, the VUV fragmentation yield is enhanced by the presence of a radical in caerulein peptides.
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Kalcic CL, Reid GE, Lozovoy VV, Dantus M. Mechanism elucidation for nonstochastic femtosecond laser-induced ionization/dissociation: from amino acids to peptides. J Phys Chem A 2012; 116:2764-74. [PMID: 22141398 DOI: 10.1021/jp208421d] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Femtosecond laser-induced ionization/dissociation (fs-LID) has been demonstrated as a novel ion activation method for use in tandem mass spectrometry. The technique opens the door to unique structural information about biomolecular samples that is not easily accessed by traditional means. fs-LID is able to cleave strong bonds while keeping weaker bonds intact. This feature has been found to be particularly useful for the mapping of post-translational modifications such as phosphorylation, which is difficult to achieve by conventional proteomic studies. Here we investigate the laser-ion interaction on a fundamental level through the characterization of fs-LID spectra for the protonated amino acids and two series of derivatized samples. The findings are used to better understand the fs-LID spectra of synthetic peptides. This is accomplished by exploring the effects of several single-residue substitutions.
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Affiliation(s)
- Christine L Kalcic
- Departments of Chemistry, Michigan State University East Lansing, Michigan 48824, USA
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38
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Brunet C, Antoine R, Allouche AR, Dugourd P, Canon F, Giuliani A, Nahon L. Gas phase photo-formation and vacuum UV photofragmentation spectroscopy of tryptophan and tyrosine radical-containing peptides. J Phys Chem A 2011; 115:8933-9. [PMID: 21744817 DOI: 10.1021/jp205617x] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Abstract
Tryptophan (Trp(•)) and tyrosyl (Tyr(•)) radical containing peptides were produced by UV laser-induced electron detachment from a suitable precursor. Vacuum ultraviolet (VUV) action spectra of these radical peptides were recorded with synchrotron radiation in the 4.5-16 eV range, from which fragmentation pathways and yields are measured as a function of the VUV photon energy. An enhancement in photofragmentation yields of radical species by 1 order of magnitude with respect to nonradical peptides is demonstrated here for the first time. Photofragmentation spectra are compared with absorption spectra for model chromophores calculated in the frame of the time-dependent density functional theory (TDDFT). A qualitative agreement in the position of bands in the 6-8 eV region is observed between experimental photofragmentation and calculated absorption spectra. Photofragmentation spectra of peptide radicals can be useful to better assess the complex deactivation pathways that occur following the absorption of a VUV photon in biomolecular radical anions.
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Affiliation(s)
- Claire Brunet
- Université de Lyon , F-69622, Lyon, France, Université Lyon 1, 69622 Villeurbanne Cedex, France
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39
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Brodbelt JS. Shedding light on the frontier of photodissociation. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2011; 22:197-206. [PMID: 21472579 DOI: 10.1007/s13361-010-0023-6] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/17/2010] [Revised: 10/11/2010] [Accepted: 10/13/2010] [Indexed: 05/30/2023]
Abstract
The development of new ion activation/dissociation methods is motivated by the need for more versatile ways to characterize structures of ions, especially in the growing arena of biological mass spectrometry in which better tools for determining sequences, modifications, interactions, and conformations of biopolymers are essential. Although most agree that collision-induced dissociation (CID) remains the gold standard for ion activation/dissociation, recent inroads in electron- and photon-based activation methods have cemented their role as outstanding alternatives. This article will focus on the impact of photodissociation, including its strengths and drawbacks as an analytical tool, and its potential for further development in the next decade. Moreover, the discussion will emphasize photodissociation in quadrupole ion traps, because that platform has been used for one of the greatest arrays of new applications over the past decade.
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Affiliation(s)
- Jennifer S Brodbelt
- Department of Chemistry and Biochemistry, University of Texas, Austin, TX 78712, USA.
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40
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Li X, Chung LW, Mizuno H, Miyawaki A, Morokuma K. Competitive Mechanistic Pathways for Green-to-Red Photoconversion in the Fluorescent Protein Kaede: A Computational Study. J Phys Chem B 2010; 114:16666-75. [DOI: 10.1021/jp1101779] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Affiliation(s)
- Xin Li
- Fukui Institute for Fundamental Chemistry, Kyoto University, Kyoto 606-8103, Japan, and Laboratory for Cell Function and Dynamics, Advanced Technology Development Group, Brain Science Institute, RIKEN, 2-1 Hirosawa, Wako-city, Saitama, 351-0198, Japan
| | - Lung Wa Chung
- Fukui Institute for Fundamental Chemistry, Kyoto University, Kyoto 606-8103, Japan, and Laboratory for Cell Function and Dynamics, Advanced Technology Development Group, Brain Science Institute, RIKEN, 2-1 Hirosawa, Wako-city, Saitama, 351-0198, Japan
| | - Hideaki Mizuno
- Fukui Institute for Fundamental Chemistry, Kyoto University, Kyoto 606-8103, Japan, and Laboratory for Cell Function and Dynamics, Advanced Technology Development Group, Brain Science Institute, RIKEN, 2-1 Hirosawa, Wako-city, Saitama, 351-0198, Japan
| | - Atsushi Miyawaki
- Fukui Institute for Fundamental Chemistry, Kyoto University, Kyoto 606-8103, Japan, and Laboratory for Cell Function and Dynamics, Advanced Technology Development Group, Brain Science Institute, RIKEN, 2-1 Hirosawa, Wako-city, Saitama, 351-0198, Japan
| | - Keiji Morokuma
- Fukui Institute for Fundamental Chemistry, Kyoto University, Kyoto 606-8103, Japan, and Laboratory for Cell Function and Dynamics, Advanced Technology Development Group, Brain Science Institute, RIKEN, 2-1 Hirosawa, Wako-city, Saitama, 351-0198, Japan
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