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Schwob L, Dörner S, Atak K, Schubert K, Timm M, Bülow C, Zamudio-Bayer V, von Issendorff B, Lau JT, Techert S, Bari S. Site-Selective Dissociation upon Sulfur L-Edge X-ray Absorption in a Gas-Phase Protonated Peptide. J Phys Chem Lett 2020; 11:1215-1221. [PMID: 31978303 DOI: 10.1021/acs.jpclett.0c00041] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Site-selective dissociation induced by core photoexcitation of biomolecules is of key importance for the understanding of radiation damage processes and dynamics and for its promising use as "chemical scissors" in various applications. However, identifying products of site-selective dissociation in large molecules is challenging at the carbon, nitrogen, and oxygen edges because of the high recurrence of these atoms and related chemical groups. In this paper, we present the observation of site-selective dissociation at the sulfur L-edge in the gas-phase peptide methionine enkephalin, which contains only a single sulfur atom. Near-edge X-ray absorption mass spectrometry has revealed that the resonant S 2p → σ*C-S excitation of the sulfur contained in the methionine side chain leads to site-selective dissociation, which is not the case after core ionization above the sulfur L-edge. The prospects of such results for the study of charge dynamics in biomolecular systems are discussed.
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Affiliation(s)
- Lucas Schwob
- Deutsches Elektronen-Synchrotron DESY , Notkestrasse 85 , 22607 Hamburg , Germany
| | - Simon Dörner
- Deutsches Elektronen-Synchrotron DESY , Notkestrasse 85 , 22607 Hamburg , Germany
| | - Kaan Atak
- Deutsches Elektronen-Synchrotron DESY , Notkestrasse 85 , 22607 Hamburg , Germany
| | - Kaja Schubert
- Deutsches Elektronen-Synchrotron DESY , Notkestrasse 85 , 22607 Hamburg , Germany
| | - Martin Timm
- Abteilung für Hochempfindliche Röntgenspektroskopie , Helmholtz Zentrum Berlin für Materialien und Energie , Albert-Einstein-Strasse 15 , 12489 Berlin , Germany
| | - Christine Bülow
- Abteilung für Hochempfindliche Röntgenspektroskopie , Helmholtz Zentrum Berlin für Materialien und Energie , Albert-Einstein-Strasse 15 , 12489 Berlin , Germany
| | - Vicente Zamudio-Bayer
- Abteilung für Hochempfindliche Röntgenspektroskopie , Helmholtz Zentrum Berlin für Materialien und Energie , Albert-Einstein-Strasse 15 , 12489 Berlin , Germany
| | - Bernd von Issendorff
- Physikalisches Institut , Universität Freiburg , Hermann-Herder-Straße 3 , 79104 Freiburg , Germany
| | - J Tobias Lau
- Abteilung für Hochempfindliche Röntgenspektroskopie , Helmholtz Zentrum Berlin für Materialien und Energie , Albert-Einstein-Strasse 15 , 12489 Berlin , Germany
- Physikalisches Institut , Universität Freiburg , Hermann-Herder-Straße 3 , 79104 Freiburg , Germany
| | - Simone Techert
- Deutsches Elektronen-Synchrotron DESY , Notkestrasse 85 , 22607 Hamburg , Germany
- Institute of X-ray Physics , University of Göttingen , Friedrich-Hund-Platz 1 , 37077 Göttingen , Germany
| | - Sadia Bari
- Deutsches Elektronen-Synchrotron DESY , Notkestrasse 85 , 22607 Hamburg , Germany
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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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Greer SM, Parker WR, Brodbelt JS. Impact of Protease on Ultraviolet Photodissociation Mass Spectrometry for Bottom-up Proteomics. J Proteome Res 2015; 14:2626-32. [DOI: 10.1021/acs.jproteome.5b00165] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Sylvester M. Greer
- Department of Chemistry, University of Texas at Austin, 105
East 24th Street, Austin, Texas 78712, United States
| | - W. Ryan Parker
- Department of Chemistry, University of Texas at Austin, 105
East 24th Street, Austin, Texas 78712, United States
| | - Jennifer S. Brodbelt
- Department of Chemistry, University of Texas at Austin, 105
East 24th Street, Austin, Texas 78712, United States
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Moon JH, Yoon S, Bae YJ, Kim MS. Formation of gas-phase peptide ions and their dissociation in MALDI: insights from kinetic and ion yield studies. MASS SPECTROMETRY REVIEWS 2015; 34:94-115. [PMID: 24863621 DOI: 10.1002/mas.21427] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/27/2013] [Accepted: 03/17/2014] [Indexed: 06/03/2023]
Abstract
Insights on mechanisms for the generation of gas-phase peptide ions and their dissociation in matrix-assisted laser desorption ionization (MALDI) gained from the kinetic and ion yield studies are presented. Even though the time-resolved photodissociation technique was initially used to determine the dissociation kinetics of peptide ions and their effective temperature, it was replaced by a simpler method utilizing dissociation yields from in-source decay (ISD) and post-source decay (PSD). The ion yields for a matrix and a peptide were measured by repeatedly irradiating a region on a sample and collecting ion signals until the sample in the region was completely depleted. Matrix- and peptide-derived gas-phase cations were found to be generated by pre-formed ion emission or by ion-pair emission followed by anion loss, but not by laser-induced ionization. The total number of ions, that is, matrix plus peptide, was found to be equal to the number of ions emitted from a pure matrix. A matrix plume was found to cool as it expanded, from around 800-1,000 K to 400-500 K. Dissociation of peptide ions along b/y channels was found to occur statistically, that is, following RRKM behavior. Small critical energy (E0 = 0.6-0.7 eV) and highly negative critical entropy (ΔS(‡) = -30 to -25 eu) suggested that the transition structure was stabilized by multiple intramolecular interactions.
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Affiliation(s)
- Jeong Hee Moon
- Medical Proteomics Research Center, KRIBB, Daejeon, 305-806, Korea
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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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Bae YJ, Park KM, Kim MS. Reproducibility of Temperature-Selected Mass Spectra in Matrix-Assisted Laser Desorption Ionization of Peptides. Anal Chem 2012; 84:7107-11. [DOI: 10.1021/ac3014077] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Yong Jin Bae
- Department
of Chemistry, Seoul National University, Seoul 151-742, Korea
| | - Kyung Man Park
- Department
of Chemistry, Seoul National University, Seoul 151-742, Korea
| | - Myung Soo Kim
- Department
of Chemistry, Seoul National University, Seoul 151-742, Korea
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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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Yoon SH, Moon JH, Kim MS. A comparative study of in- and post-source decays of peptide and preformed ions in matrix-assisted laser desorption ionization time-of-flight mass spectrometry: effective temperature and matrix effect. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2010; 21:1876-1883. [PMID: 20696595 DOI: 10.1016/j.jasms.2010.07.001] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/14/2010] [Revised: 07/01/2010] [Accepted: 07/05/2010] [Indexed: 05/29/2023]
Abstract
In-source decay (ISD) and post-source decay (PSD) of a peptide ion ([Y(6) + H](+)) and a preformed ion (benzyltriphenylphosphonium, BTPP) generated by matrix-assisted laser desorption ionization (MALDI) were investigated with time-of-flight mass spectrometry. α-Cyano-4-hydroxycinammic acid (CHCA) and 2,5-dihydroxybenzoic acid (DHB) were used as matrices. For both ions, ISD yield was unaffected by delay time, indicating rapid termination of ISD. This was taken as evidence for rapid expansion cooling of hot "early" plume formed in MALDI. CHCA was hotter than DHB for [Y(6) + H](+) while the matrix effect was insignificant for BTPP. The "early" plume temperature estimated utilizing previous kinetic results was 800-900 K, versus 400-500 K for "late" plume. The results support our previous finding that the temperature of peptide ions interrogated by tandem mass spectrometry was lower than most rough estimates of MALDI temperature.
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Affiliation(s)
- So Hee Yoon
- Department of Chemistry, Seoul National University, Seoul, Korea
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Yoon SH, Moon JH, Kim MS. Dissociation mechanisms and implication for the presence of multiple conformations for peptide ions with arginine at the C-terminus: time-resolved photodissociation study. JOURNAL OF MASS SPECTROMETRY : JMS 2010; 45:806-814. [PMID: 20564416 DOI: 10.1002/jms.1773] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/29/2023]
Abstract
Time-resolved photodissociation (PD) patterns of singly protonated peptides with arginine at the C-terminus (C-arg peptide ions) have been used to classify the dissociation channels into two categories, i.e. high-energy channels generating v, w and x and low-energy ones generating b, y and z. x + 1 formed by C(alpha)-CO cleavage seems to be the intermediate ion in high-energy channels just as a + 1 is for N-arg peptide ions. Difference in time-resolved pattern indicates that the two sets of channels, high- and low-energy ones, are not in direct competition. Noncompetitive dissociation is also indicated by the observation of anomalous effect of matrix used in matrix-assisted laser desorption ionization, a cooler matrix generating more high-energy product ions both in spontaneous dissociation and in PD. Results from detailed investigation suggest that the two sets of channels start from two (or more) different conformations.
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Affiliation(s)
- So Hee Yoon
- Department of Chemistry, Seoul National University, Seoul 151-742, Korea
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