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Peters-Clarke TM, Coon JJ, Riley NM. Instrumentation at the Leading Edge of Proteomics. Anal Chem 2024; 96:7976-8010. [PMID: 38738990 DOI: 10.1021/acs.analchem.3c04497] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/14/2024]
Affiliation(s)
- Trenton M Peters-Clarke
- Department of Chemistry, University of Wisconsin─Madison, Madison, Wisconsin 53706, United States
- Department of Biomolecular Chemistry, University of Wisconsin─Madison, Madison, Wisconsin 53706, United States
| | - Joshua J Coon
- Department of Chemistry, University of Wisconsin─Madison, Madison, Wisconsin 53706, United States
- Department of Biomolecular Chemistry, University of Wisconsin─Madison, Madison, Wisconsin 53706, United States
- Morgridge Institute for Research, Madison, Wisconsin 53715, United States
| | - Nicholas M Riley
- Department of Chemistry, University of Washington, Seattle, Washington 98195, United States
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2
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Hua Y, Strauss M, Fisher S, Mauser MFX, Manchet P, Smacchia M, Geyer P, Shayeghi A, Pfeffer M, Eggenweiler TH, Daly S, Commandeur J, Mayor M, Arndt M, Šolomek T, Köhler V. Giving the Green Light to Photochemical Uncaging of Large Biomolecules in High Vacuum. JACS AU 2023; 3:2790-2799. [PMID: 37885583 PMCID: PMC10598566 DOI: 10.1021/jacsau.3c00351] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/04/2023] [Revised: 10/02/2023] [Accepted: 10/02/2023] [Indexed: 10/28/2023]
Abstract
The isolation of biomolecules in a high vacuum enables experiments on fragile species in the absence of a perturbing environment. Since many molecular properties are influenced by local electric fields, here we seek to gain control over the number of charges on a biopolymer by photochemical uncaging. We present the design, modeling, and synthesis of photoactive molecular tags, their labeling to peptides and proteins as well as their photochemical validation in solution and in the gas phase. The tailored tags can be selectively cleaved off at a well-defined time and without the need for any external charge-transferring agents. The energy of a single or two green photons can already trigger the process, and it is soft enough to ensure the integrity of the released biomolecular cargo. We exploit differences in the cleavage pathways in solution and in vacuum and observe a surprising robustness in upscaling the approach from a model system to genuine proteins. The interaction wavelength of 532 nm is compatible with various biomolecular entities, such as oligonucleotides or oligosaccharides.
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Affiliation(s)
- Yong Hua
- Department
of Chemistry, University of Basel, St. Johannsring 19, CH-4056 Basel, Switzerland
| | - Marcel Strauss
- Vienna
Faculty of Physics, University of Vienna,
VDSP & VCQ, Boltzmanngasse 5, A-1090 Vienna, Austria
| | - Sergey Fisher
- Van’t
Hoff Institute for Molecular Sciences (HIMS), University of Amsterdam, PO Box 94157, 1090 GD Amsterdam, The Netherlands
| | - Martin F. X. Mauser
- Vienna
Faculty of Physics, University of Vienna,
VDSP & VCQ, Boltzmanngasse 5, A-1090 Vienna, Austria
| | - Pierre Manchet
- Vienna
Faculty of Physics, University of Vienna,
VDSP & VCQ, Boltzmanngasse 5, A-1090 Vienna, Austria
| | - Martina Smacchia
- Vienna
Faculty of Physics, University of Vienna,
VDSP & VCQ, Boltzmanngasse 5, A-1090 Vienna, Austria
| | - Philipp Geyer
- Vienna
Faculty of Physics, University of Vienna,
VDSP & VCQ, Boltzmanngasse 5, A-1090 Vienna, Austria
| | - Armin Shayeghi
- Vienna
Faculty of Physics, University of Vienna,
VDSP & VCQ, Boltzmanngasse 5, A-1090 Vienna, Austria
| | - Michael Pfeffer
- Department
of Chemistry, University of Basel, St. Johannsring 19, CH-4056 Basel, Switzerland
| | - Tim Henri Eggenweiler
- Department
of Chemistry, University of Basel, St. Johannsring 19, CH-4056 Basel, Switzerland
| | - Steven Daly
- MS
Vision, Televisieweg
40, 1322 AM Almere, The Netherlands
| | - Jan Commandeur
- MS
Vision, Televisieweg
40, 1322 AM Almere, The Netherlands
| | - Marcel Mayor
- Department
of Chemistry, University of Basel, St. Johannsring 19, CH-4056 Basel, Switzerland
- Institute
for Nanotechnology (INT), Karlsruhe Institute
of Technology (KIT), P.O. Box 3640, DE-76021 Karlsruhe Eggenstein-Leopoldshafen, Germany
- Lehn Institute
of Functional Materials, School of Chemistry, Sun Yat-Sen University, Guangzhou 510274, P. R. China
| | - Markus Arndt
- Vienna
Faculty of Physics, University of Vienna,
VDSP & VCQ, Boltzmanngasse 5, A-1090 Vienna, Austria
| | - Tomáš Šolomek
- Van’t
Hoff Institute for Molecular Sciences (HIMS), University of Amsterdam, PO Box 94157, 1090 GD Amsterdam, The Netherlands
| | - Valentin Köhler
- Department
of Chemistry, University of Basel, St. Johannsring 19, CH-4056 Basel, Switzerland
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3
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Schmitt MJP, Kruppa SV, Walg SP, Thiel WR, Klopper W, Riehn C. Electronic spectroscopy of homo- and heterometallic binuclear coinage metal phosphine complexes in isolation. Phys Chem Chem Phys 2023; 25:20880-20891. [PMID: 37525899 DOI: 10.1039/d3cp03058j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/02/2023]
Abstract
Binuclear coinage metal phosphine complexes are examined under ion trap isolation in order to elucidate their noncovalent binding, structural properties and intrinsic electronic spectra. Our survey shows an intriguing order of electronic transitions obtained by in situ synthesis and mass-spectrometrically supported UV photodissociation spectroscopy on a series of six isolated homo- and heterobinuclear complexes of type [MM'(dcpm)2]2+ (M, M' = CuI, AgI, AuI; dcpm = bis(dicyclohexyl-phosphino)methane). This approach provides the unique opportunity to study all possible coinage metal interactions within a fixed ligand framework. A successive blue-shift (33 700-38 500 cm-1; 297-260 nm) of the lowest-energy bright electronic transition energy in gas phase was observed in the order of Cu2 < CuAu < CuAg < Au2 < AgAu < Ag2. This order was reproduced by quantum chemical calculations using a scalar-relativistic GW-Bethe-Salpeter-equation (GW-BSE) approach. Theory ascribes the electronic bands of all complexes to metal-centered 1MC(dσ*-pσ) transitions revealing a strengthening of metal-metal' (M-M') binding upon excitation, in agreement to mass spetrometric results. A test of the correlation of transition energies with M-M' distance by quantum chemical calculations of single point energies as a function of intermetallic distance indicates qualitative agreement with experimental results. However, the experimentally observed high sensitivity of spectroscopic shifts towards metal composition cannot be accounted for solely by M-M' distance variation. The differences in electronic transitions are qualitatively rationalized by the varying (n + 1)s (n = 3, 4, 5) orbital contributions (increase from Cu2via CuAu/CuAg to Au2/AgAu/Ag2) within the nd(n + 1)s/p-hybridization for the ground electronic state of the different complexes, whereas the excited state (of (n + 1)p orbital character) shows significantly less variation in energy. In particular, the observed spectroscopic and mass spectrometric sequence for the Ag/Au complexes is traced back to the interplay of Pauli repulsion and variation in metal-ligand bond strength within the orbital hybridization model.
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Affiliation(s)
- Marcel J P Schmitt
- Department of Chemistry, Rheinland-Pfälzische Technische Universität (RPTU) Kaiserslautern-Landau, Erwin-Schrödinger Str. 53, 67663 Kaiserslautern, Germany.
| | - Sebastian V Kruppa
- Department of Chemistry, Rheinland-Pfälzische Technische Universität (RPTU) Kaiserslautern-Landau, Erwin-Schrödinger Str. 53, 67663 Kaiserslautern, Germany.
| | - Simon P Walg
- Department of Chemistry, Rheinland-Pfälzische Technische Universität (RPTU) Kaiserslautern-Landau, Erwin-Schrödinger Str. 53, 67663 Kaiserslautern, Germany.
| | - Werner R Thiel
- Department of Chemistry, Rheinland-Pfälzische Technische Universität (RPTU) Kaiserslautern-Landau, Erwin-Schrödinger Str. 53, 67663 Kaiserslautern, Germany.
| | - Wim Klopper
- Institute of Physical Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 2, 76131 Karlsruhe, Germany.
| | - Christoph Riehn
- Department of Chemistry, Rheinland-Pfälzische Technische Universität (RPTU) Kaiserslautern-Landau, Erwin-Schrödinger Str. 53, 67663 Kaiserslautern, Germany.
- Research Center OPTIMAS, Erwin-Schrödinger Str. 46, 67663 Kaiserslautern, Germany
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4
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Marlton SJP, Trevitt A. Laser Photodissocation, Action Spectroscopy and Mass Spectrometry Unite to Detect and Separate Isomers. Chem Commun (Camb) 2022; 58:9451-9467. [DOI: 10.1039/d2cc02101c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The separation and detection of isomers remains a challenge for many areas of mass spectrometry. This article highlights laser photodissociation and ion mobility strategies that have been deployed to tackle...
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MacAleese L, Chan B, Bouakil M, Dugourd P, O'Hair RAJ. Photo-control of bimolecular reactions: reactivity of the long-lived Rhodamine 6G triplet excited state with ˙NO. Phys Chem Chem Phys 2021; 23:25038-25047. [PMID: 34605499 DOI: 10.1039/d1cp02626g] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
Photo-chemistry provides a non-intuitive but very powerful way to probe kinetically limited, sometimes thermodynamically non-favored reactions and, thus, access highly specific products. However, reactivity in the excited state is difficult to characterize directly, due to short lifetimes and challenges in controlling the reaction medium. Among photo-activatable reagents, rhodamine dyes find widespread uses due to a number of favorable properties including their high absorption coefficient. Their readily adaptable synthesis allows development of tailor-made dyes for specific applications. Remarkably, few studies have directly probed the chemical reactivity of their triplet excited state. Here we present a new conceptual approach to examine the specific chemistry of the triplet excited state. We have developed a pump (488 nm) - probe (600 nm) strategy to examine the gas-phase lifetime and reactivity of the triplet cation of Rhodamine 6G (3Rh6G+) in an ion trap mass spectrometer. The confounding effects of solvent, aggregation and formation of other reactive intermediates is thus avoided allowing fundamental reactivity to be explored. In the presence, in the ion trap, of helium seeded with 1% of nitric oxide (˙NO) (∼ 60 ion/˙NO collisions per second), the triplet lifetime is shortened from 1.9 s to 0.7 s. Simultaneously, the reaction products [Rh6G-H]˙+ and [Rh6G-H + NO]+ are observed. Reaction of 3Rh6G+ with ˙NO2 yields [Rh6G-H]˙+, [Rh6G-H + NO2]+ and [Rh6G-2H]+. None of these products are observed for the singlet, 1Rh6G+. DFT calculations suggest a stepwise mechanism only allowed from 3Rh6G+, in which H atom abstraction by ˙NOx (x = 1 or 2) yields [Rh6G-H]˙+ which, then, reacts with another ˙NOx molecule. This illustrates the power of light to initiate specific chemical reactions, and the relevance of gas-phase ion-molecule reaction approaches to understand stepwise reaction mechanism from specific excited states.
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Affiliation(s)
- Luke MacAleese
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS - Institut Lumière Matière (iLM), F-69622, LYON, France.
| | - Bun Chan
- Division of Chemistry and Materials Science, Nagasaki University - 1-14 Bunkyo, Nagasaki, 852-8521, Japan
| | - Mathilde Bouakil
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS - Institut Lumière Matière (iLM), F-69622, LYON, France.
| | - Philippe Dugourd
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS - Institut Lumière Matière (iLM), F-69622, LYON, France.
| | - Richard A J O'Hair
- School of Chemistry, University of Melbourne - Parkville, Victoria 3010, Australia.
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6
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Bouakil M, Chirot F, Girod M, Dugourd P, MacAleese L. Secondary structure effects on internal proton transfer in poly-peptides. STRUCTURAL DYNAMICS (MELVILLE, N.Y.) 2020; 7:024302. [PMID: 32232075 PMCID: PMC7100371 DOI: 10.1063/4.0000003] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/23/2020] [Accepted: 02/21/2020] [Indexed: 12/21/2022]
Abstract
A pump-probe approach was designed to determine the internal proton transfer (PT) rate in a series of poly-peptide radical cations containing both histidine and tryptophan. The proton transfer is driven by the gas-phase basicity difference between residues. The fragmentation scheme indicates that the gas-phase basicity of histidine is lower than that of radical tryptophan so that histidine is always pulling the proton away from tryptophan. However, the proton transfer requires the two basic sites to be in close proximity, which is rate limited by the peptide conformational dynamics. PT rate measurements were used to probe and explore the peptide conformational dynamics in several poly-glycines/prolines/alanines. For small and unstructured peptides, the PT rate decreases with the size, as expected from a statistical point of view in a flat conformational space. Conversely, if structured conformations are accessible, the structural flexibility of the peptide is decreased. This slows down the occurrence of conformations favorable to proton transfer. A dramatic decrease in the PT rates was observed for peptides HAnW, when n changes from 5 to 6. This is attributed to the onset of a stable helix for n = 6. No such discontinuity is observed for poly-glycines or poly-prolines. In HAnW, the gas-phase basicity and helix propensity compete for the position of the charge. Interestingly, in this competition between PT and helix formation in HA6W, the energy gain associated with helix formation is large enough to slow down the PT beyond experimental time but does not ultimately prevail over the proton preference for histidine.
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Affiliation(s)
- M Bouakil
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, Institut Lumière Matière, F-69622 Lyon, France
| | - F Chirot
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, Institut des Sciences Analytiques, F-69622 Lyon, France
| | - M Girod
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, Institut des Sciences Analytiques, F-69622 Lyon, France
| | - P Dugourd
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, Institut Lumière Matière, F-69622 Lyon, France
| | - L MacAleese
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, Institut Lumière Matière, F-69622 Lyon, France
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7
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Soorkia S, Jouvet C, Grégoire G. UV Photoinduced Dynamics of Conformer-Resolved Aromatic Peptides. Chem Rev 2019; 120:3296-3327. [DOI: 10.1021/acs.chemrev.9b00316] [Citation(s) in RCA: 32] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Satchin Soorkia
- Institut des Sciences Moléculaires d’Orsay (ISMO), CNRS, Univ. Paris-Sud, Université Paris-Saclay, F-91405 Orsay, France
| | - Christophe Jouvet
- CNRS, Aix Marseille Université, PIIM UMR 7345, 13397, Marseille, France
| | - Gilles Grégoire
- Institut des Sciences Moléculaires d’Orsay (ISMO), CNRS, Univ. Paris-Sud, Université Paris-Saclay, F-91405 Orsay, France
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8
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Liedy F, Bäppler F, Waldt E, Nosenko Y, Imanbaew D, Bhunia A, Yadav M, Diller R, Kappes MM, Roesky PW, Schooss D, Riehn C. Photodynamics and Luminescence of Mono- and Tri-Nuclear Lanthanide Complexes in the Gas Phase and in Solution. Chemphyschem 2018; 19:3050-3060. [DOI: 10.1002/cphc.201800599] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2018] [Indexed: 01/15/2023]
Affiliation(s)
- Florian Liedy
- Department of Physics; Technische Universität Kaiserslautern; Erwin-Schrödinger Str. 46, D- 67663 Kaiserslautern Germany
| | - Florian Bäppler
- Department of Physics; Technische Universität Kaiserslautern; Erwin-Schrödinger Str. 46, D- 67663 Kaiserslautern Germany
| | - Eugen Waldt
- Institute of Nanotechnology; Karlsruhe Institute of Technology (KIT); Hermann-von-Helmholtz-Platz 1 76344 Eggenstein-Leopoldshafen Germany
| | - Yevgeniy Nosenko
- Department of Chemistry; Technische Universität Kaiserslautern; Erwin-Schrödinger Str. 52, D- 67663 Kaiserslautern Germany
| | - Dimitri Imanbaew
- Department of Chemistry; Technische Universität Kaiserslautern; Erwin-Schrödinger Str. 52, D- 67663 Kaiserslautern Germany
| | - Asamanjoy Bhunia
- Institute of Inorganic Chemistry; Karlsruhe Institute of Technology (KIT) Engesserstr. 15, D- 76131 Karlsruhe Germany
| | - Munendra Yadav
- Institute of Inorganic Chemistry; Karlsruhe Institute of Technology (KIT) Engesserstr. 15, D- 76131 Karlsruhe Germany
| | - Rolf Diller
- Department of Physics; Technische Universität Kaiserslautern; Erwin-Schrödinger Str. 46, D- 67663 Kaiserslautern Germany
| | - Manfred M. Kappes
- Institute of Nanotechnology; Karlsruhe Institute of Technology (KIT); Hermann-von-Helmholtz-Platz 1 76344 Eggenstein-Leopoldshafen Germany
- Institute of Physical Chemistry; Karlsruhe Institute of Technology (KIT); Fritz-Haber-Weg 2, D- 76131 Karlsruhe Germany
| | - Peter W. Roesky
- Institute of Inorganic Chemistry; Karlsruhe Institute of Technology (KIT) Engesserstr. 15, D- 76131 Karlsruhe Germany
| | - Detlef Schooss
- Institute of Nanotechnology; Karlsruhe Institute of Technology (KIT); Hermann-von-Helmholtz-Platz 1 76344 Eggenstein-Leopoldshafen Germany
- Institute of Physical Chemistry; Karlsruhe Institute of Technology (KIT); Fritz-Haber-Weg 2, D- 76131 Karlsruhe Germany
| | - Christoph Riehn
- Department of Chemistry; Technische Universität Kaiserslautern; Erwin-Schrödinger Str. 52, D- 67663 Kaiserslautern Germany
- Research Center OPTIMAS; Erwin-Schrödinger Str. 46, D- 67663 Kaiserslautern Germany
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9
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Debiossac M, Schätti J, Kriegleder M, Geyer P, Shayeghi A, Mayor M, Arndt M, Köhler V. Tailored photocleavable peptides: fragmentation and neutralization pathways in high vacuum. Phys Chem Chem Phys 2018; 20:11412-11417. [PMID: 29645042 PMCID: PMC5932999 DOI: 10.1039/c8cp01058g] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2018] [Accepted: 03/23/2018] [Indexed: 01/31/2023]
Abstract
Photocleavable tags (PCTs) have the potential for excellent spatio-temporal control over the release of subunits of complex molecules. Here, we show that electrosprayed oligopeptides, functionalized by a tailored ortho-nitroarylether can undergo site-specific photo-activated cleavage under UV irradiation (266 nm) in high vacuum. The comparison of UV photodissociation (UVPD) and collision-induced dissociation (CID) points to the thermal nature of the cleavage mechanism, a picture corroborated by the temperature dependence of the process. Two competing photodissociation pathways can be identified. In one case a phenolate anion is separated from a neutral zwitterion. In the other case a neutral phenol derivative leaves a negatively charged peptide behind. To understand the factors favoring one channel over the other, we investigate the influence of the peptide length, the nature of the phenolic group and the position of the nitro-group (ortho vs. para). The observed gas phase cleavage of a para-nitro benzylic ether markedly differs from the established behavior in solution.
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Affiliation(s)
- M. Debiossac
- Faculty of Physics, University of Vienna , VCQ, Boltzmanngasse 5 , A-1090 Vienna , Austria .
| | - J. Schätti
- Department of Chemistry, University of Basel , Mattenstrasse 24a, BPR 1096 , CH-4058 Basel , Switzerland .
| | - M. Kriegleder
- Faculty of Physics, University of Vienna , VCQ, Boltzmanngasse 5 , A-1090 Vienna , Austria .
| | - P. Geyer
- Faculty of Physics, University of Vienna , VCQ, Boltzmanngasse 5 , A-1090 Vienna , Austria .
| | - A. Shayeghi
- Faculty of Physics, University of Vienna , VCQ, Boltzmanngasse 5 , A-1090 Vienna , Austria .
| | - M. Mayor
- Department of Chemistry, University of Basel , Mattenstrasse 24a, BPR 1096 , CH-4058 Basel , Switzerland .
- Institute of Nanotechnology (INT), Karlsruhe Institute of Technology (KIT) , Hermann-von-Helmholtz-Platz 1 , D-76344 Eggenstein-Leopoldshafen , Germany
- Lehn Institute of Functional Materials (LIFM), Sun Yat-Sen University (SYSU) , Xingang Rd. W. , Guangzhou , China
| | - M. Arndt
- Faculty of Physics, University of Vienna , VCQ, Boltzmanngasse 5 , A-1090 Vienna , Austria .
| | - V. Köhler
- Department of Chemistry, University of Basel , Mattenstrasse 24a, BPR 1096 , CH-4058 Basel , Switzerland .
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Daly S, MacAleese L, Dugourd P, Chirot F. Combining Structural Probes in the Gas Phase - Ion Mobility-Resolved Action-FRET. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2018; 29:133-139. [PMID: 29038996 DOI: 10.1007/s13361-017-1824-7] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/17/2017] [Revised: 09/15/2017] [Accepted: 09/27/2017] [Indexed: 06/07/2023]
Abstract
In the context of native mass spectrometry, the development of gas-phase structural probes sensitive to the different levels of structuration of biomolecular assemblies is necessary to push forward conformational studies. In this paper, we provide the first example of the combination of ion mobility (IM) and Förster resonance energy transfer (FRET) measurements within the same experimental setup. The possibility to obtain mass- and mobility-resolved FRET measurements is demonstrated on a model peptide and applied to monitor the collision-induced unfolding of ubiquitin. Graphical Abstract ᅟ.
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Affiliation(s)
- Steven Daly
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, Institut Lumière Matière UMR 5306, F-69100, Villeurbanne, France
- Université de Bordeaux, INSERM U1212, CNRS UMR 5320, ARNA Laboratory, IECB, F-33600, Pessac, France
| | - Luke MacAleese
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, Institut Lumière Matière UMR 5306, F-69100, Villeurbanne, France
| | - Philippe Dugourd
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, Institut Lumière Matière UMR 5306, F-69100, Villeurbanne, France
| | - Fabien Chirot
- Univ Lyon, Université Claude Bernard Lyon 1, Ens de Lyon, CNRS, Institut des Sciences Analytiques UMR 5280, 5 rue de la Doua, F-69100, Villeurbanne, France.
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11
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Garcia L, Lemoine J, Dugourd P, Girod M. Fragmentation patterns of chromophore-tagged peptides in visible laser induced dissociation. RAPID COMMUNICATIONS IN MASS SPECTROMETRY : RCM 2017; 31:1985-1992. [PMID: 28884878 DOI: 10.1002/rcm.7984] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/10/2017] [Revised: 08/21/2017] [Accepted: 09/02/2017] [Indexed: 06/07/2023]
Abstract
RATIONALE Tandem mass spectrometry (MS/MS) is the pivotal tool for protein structural characterization and quantification. Identification relies on the fragmentation step of tryptic peptides in bottom-up strategy. Specificity of fragmentation can be obtained using laser-induced dissociation (LID) in the visible range, after tagging of the targeted peptides with an adequate chromophore. Backbone fragmentation is required to obtain specific fragments and confident identification. We present herein a study of fragmentation patterns of chromophore-tagged peptides in LID, showing the potential of LID methodology to provide the maximum number of fragments for further identification and quantification. METHODS A total of 401 cysteine-containing tryptic peptides originating from the human proteome were derivatizated on the thiol group of cysteine with a Dabcyl maleimide chromophore, which has a high photo-absorption cross section at 473 nm. The derivatized peptides were then analyzed by LID at 473 nm on a Q Exactive instrument. RESULTS LID spectra present a characteristic fragment at m/z 252.112 for all precursors. This product ion arises from the internal dissociation of the Dabcyl chromophore. Several peptide-backbone fragment ions are also detected. Results show the quasi absence of fragmentation at the cysteine site. This indicates that part of the energy must be redistributed across the entire system despite excitation initially localized at the chromophore. Indeed, the fragmentation mainly occurs at 3 to 5 amino acids from the derivatized cysteine residue. CONCLUSIONS LID of derivatized cysteine-containing peptides displays the initial fragmentation of the chromophore. As energy is redistributed all along the peptide sequence, fragmentation of the peptide backbone is also observed. Thus, LID of chromophore-tagged peptides produces adequate fragment ions, allowing both good sequence coverage for a greater confidence of identification, and a large choice of transitions for specific quantification.
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Affiliation(s)
- Lény Garcia
- Univ de Lyon, CNRS, Université Claude Bernard Lyon 1, Ecole Normale Supérieure de Lyon, Institut des Sciences Analytiques, UMR 5280, 5 rue de la Doua, F-69100, Villeurbanne, France
| | - Jérôme Lemoine
- Univ de Lyon, CNRS, Université Claude Bernard Lyon 1, Ecole Normale Supérieure de Lyon, Institut des Sciences Analytiques, UMR 5280, 5 rue de la Doua, F-69100, Villeurbanne, France
| | - Philippe Dugourd
- Univ de Lyon, Université Claude Bernard Lyon 1, CNRS, Institut Lumière Matière, F-69622, VILLEURBANNE, France
| | - Marion Girod
- Univ de Lyon, CNRS, Université Claude Bernard Lyon 1, Ecole Normale Supérieure de Lyon, Institut des Sciences Analytiques, UMR 5280, 5 rue de la Doua, F-69100, Villeurbanne, France
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