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Reid DJ, Thibert S, Zhou M. Dissecting the structural heterogeneity of proteins by native mass spectrometry. Protein Sci 2023; 32:e4612. [PMID: 36851867 PMCID: PMC10031758 DOI: 10.1002/pro.4612] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2022] [Revised: 02/21/2023] [Accepted: 02/23/2023] [Indexed: 03/01/2023]
Abstract
A single gene yields many forms of proteins via combinations of posttranscriptional/posttranslational modifications. Proteins also fold into higher-order structures and interact with other molecules. The combined molecular diversity leads to the heterogeneity of proteins that manifests as distinct phenotypes. Structural biology has generated vast amounts of data, effectively enabling accurate structural prediction by computational methods. However, structures are often obtained heterologously under homogeneous states in vitro. The lack of native heterogeneity under cellular context creates challenges in precisely connecting the structural data to phenotypes. Mass spectrometry (MS) based proteomics methods can profile proteome composition of complex biological samples. Most MS methods follow the "bottom-up" approach, which denatures and digests proteins into short peptide fragments for ease of detection. Coupled with chemical biology approaches, higher-order structures can be probed via incorporation of covalent labels on native proteins that are maintained at the peptide level. Alternatively, native MS follows the "top-down" approach and directly analyzes intact proteins under nondenaturing conditions. Various tandem MS activation methods can dissect the intact proteins for in-depth structural elucidation. Herein, we review recent native MS applications for characterizing heterogeneous samples, including proteins binding to mixtures of ligands, homo/hetero-complexes with varying stoichiometry, intrinsically disordered proteins with dynamic conformations, glycoprotein complexes with mixed modification states, and active membrane protein complexes in near-native membrane environments. We summarize the benefits, challenges, and ongoing developments in native MS, with the hope to demonstrate an emerging technology that complements other tools by filling the knowledge gaps in understanding the molecular heterogeneity of proteins.
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Affiliation(s)
- Deseree J. Reid
- Chemical and Biological Signature SciencesPacific Northwest National LaboratoryRichlandWashingtonUSA
| | - Stephanie Thibert
- Environmental Molecular Sciences LaboratoryPacific Northwest National LaboratoryRichlandWashingtonUSA
| | - Mowei Zhou
- Environmental Molecular Sciences LaboratoryPacific Northwest National LaboratoryRichlandWashingtonUSA
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2
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Samayoa-Oviedo HY, Behrend KA, Kawa S, Knorke H, Su P, Belov ME, Anderson G, Warneke J, Laskin J. Design and Performance of a Soft-Landing Instrument for Fragment Ion Deposition. Anal Chem 2021; 93:14489-14496. [PMID: 34672519 DOI: 10.1021/acs.analchem.1c03009] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
We report the development of a new high-flux electrospray ionization-based instrument for soft landing of mass-selected fragment ions onto surfaces. Collision-induced dissociation is performed in a collision cell positioned after the dual electrodynamic ion funnel assembly. The high duty cycle of the instrument enables high-coverage deposition of mass-selected fragment ions onto surfaces at a defined kinetic energy. This capability facilitates the investigation of the reactivity of gaseous fragment ions in the condensed phase. We demonstrate that the observed reactions of deposited fragment ions are dependent on the structure of the ion and the composition of either ionic or neutral species codeposited onto a surface. The newly developed instrument provides access to high-purity ion fragments as building blocks for the preparation of unique ionic layers.
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Affiliation(s)
- Hugo Y Samayoa-Oviedo
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907, United States
| | - Kay-Antonio Behrend
- Wilhelm-Ostwald-Institut für Physikalische und Theoretische Chemie, Universität Leipzig, 04103 Leipzig, Germany
| | - Sebastian Kawa
- Wilhelm-Ostwald-Institut für Physikalische und Theoretische Chemie, Universität Leipzig, 04103 Leipzig, Germany
| | - Harald Knorke
- Wilhelm-Ostwald-Institut für Physikalische und Theoretische Chemie, Universität Leipzig, 04103 Leipzig, Germany
| | - Pei Su
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907, United States
| | - Mikhail E Belov
- Spectroglyph, LLC, Kennewick, Washington 99338, United States
| | - Gordon Anderson
- GAA Custom Electronics, LLC, POB 335, Benton City, Washington 99338, United States
| | - Jonas Warneke
- Wilhelm-Ostwald-Institut für Physikalische und Theoretische Chemie, Universität Leipzig, 04103 Leipzig, Germany.,Leibniz Institute of Surface Engineering (IOM), Sensoric Surfaces and Functional Interfaces, Permoserstr. 15, D-04318 Leipzig, Germany
| | - Julia Laskin
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907, United States
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3
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Su P, Hu H, Unsihuay D, Zhang D, Dainese T, Diaz RE, Lee J, Gunaratne DK, Wang H, Maran F, Mei J, Laskin J. Preparative Mass Spectrometry Using a Rotating‐Wall Mass Analyzer. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.202000065] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Affiliation(s)
- Pei Su
- Department of Chemistry Purdue University 560 Oval Drive West Lafayette IN 47907 USA
| | - Hang Hu
- Department of Chemistry Purdue University 560 Oval Drive West Lafayette IN 47907 USA
| | - Daisy Unsihuay
- Department of Chemistry Purdue University 560 Oval Drive West Lafayette IN 47907 USA
| | - Di Zhang
- School of Materials Engineering Purdue University 701 W. Stadium Avenue West Lafayette IN 47907 USA
| | - Tiziano Dainese
- Department of Chemistry University of Padova 1, Via Marzolo Padova 35131 Italy
| | - Rosa E. Diaz
- Birck Nanotechnology Center, Discovery Park Purdue University 1205 W. State St. West Lafayette IN 47907 USA
| | - Jongsu Lee
- Department of Chemistry Purdue University 560 Oval Drive West Lafayette IN 47907 USA
| | - Don K. Gunaratne
- Physical Science Division Pacific Northwest National Laboratory P.O. Box 999, MSIN K8-88 Richland WA 99352 USA
| | - Haiyan Wang
- School of Materials Engineering Purdue University 701 W. Stadium Avenue West Lafayette IN 47907 USA
- School of Electrical and Computer Engineering Purdue University 465 Northwestern Avenue West Lafayette IN 47907 USA
| | - Flavio Maran
- Department of Chemistry University of Padova 1, Via Marzolo Padova 35131 Italy
| | - Jianguo Mei
- Department of Chemistry Purdue University 560 Oval Drive West Lafayette IN 47907 USA
| | - Julia Laskin
- Department of Chemistry Purdue University 560 Oval Drive West Lafayette IN 47907 USA
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4
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Su P, Hu H, Unsihuay D, Zhang D, Dainese T, Diaz RE, Lee J, Gunaratne DK, Wang H, Maran F, Mei J, Laskin J. Preparative Mass Spectrometry Using a Rotating‐Wall Mass Analyzer. Angew Chem Int Ed Engl 2020; 59:7711-7716. [PMID: 32109333 DOI: 10.1002/anie.202000065] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2020] [Revised: 02/18/2020] [Indexed: 12/12/2022]
Affiliation(s)
- Pei Su
- Department of Chemistry Purdue University 560 Oval Drive West Lafayette IN 47907 USA
| | - Hang Hu
- Department of Chemistry Purdue University 560 Oval Drive West Lafayette IN 47907 USA
| | - Daisy Unsihuay
- Department of Chemistry Purdue University 560 Oval Drive West Lafayette IN 47907 USA
| | - Di Zhang
- School of Materials Engineering Purdue University 701 W. Stadium Avenue West Lafayette IN 47907 USA
| | - Tiziano Dainese
- Department of Chemistry University of Padova 1, Via Marzolo Padova 35131 Italy
| | - Rosa E. Diaz
- Birck Nanotechnology Center, Discovery Park Purdue University 1205 W. State St. West Lafayette IN 47907 USA
| | - Jongsu Lee
- Department of Chemistry Purdue University 560 Oval Drive West Lafayette IN 47907 USA
| | - Don K. Gunaratne
- Physical Science Division Pacific Northwest National Laboratory P.O. Box 999, MSIN K8-88 Richland WA 99352 USA
| | - Haiyan Wang
- School of Materials Engineering Purdue University 701 W. Stadium Avenue West Lafayette IN 47907 USA
- School of Electrical and Computer Engineering Purdue University 465 Northwestern Avenue West Lafayette IN 47907 USA
| | - Flavio Maran
- Department of Chemistry University of Padova 1, Via Marzolo Padova 35131 Italy
| | - Jianguo Mei
- Department of Chemistry Purdue University 560 Oval Drive West Lafayette IN 47907 USA
| | - Julia Laskin
- Department of Chemistry Purdue University 560 Oval Drive West Lafayette IN 47907 USA
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5
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Gu M, Yang L, Hase WL, Sun J, Zhang J. Energy Transfer of Peptide Ions Colliding with a Self‐Assembled Monolayer Surface. The Influence of Peptide Ion Size. CHINESE J CHEM 2019. [DOI: 10.1002/cjoc.201800544] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Meng Gu
- MIIT Key Laboratory of Critical Materials Technology for New Energy Conversion and Storage, School of Chemistry and Chemical Engineering, Harbin Institute of Technology Harbin Heilongjiang 150001 China
| | - Li Yang
- MIIT Key Laboratory of Critical Materials Technology for New Energy Conversion and Storage, School of Chemistry and Chemical Engineering, Harbin Institute of Technology Harbin Heilongjiang 150001 China
| | - William L Hase
- Department of Chemistry and BiochemistryTexas Tech University Lubbock TX 79401 USA
| | - Jianmin Sun
- MIIT Key Laboratory of Critical Materials Technology for New Energy Conversion and Storage, School of Chemistry and Chemical Engineering, Harbin Institute of Technology Harbin Heilongjiang 150001 China
| | - Jiaxu Zhang
- MIIT Key Laboratory of Critical Materials Technology for New Energy Conversion and Storage, School of Chemistry and Chemical Engineering, Harbin Institute of Technology Harbin Heilongjiang 150001 China
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6
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Hu Q, Laskin J. Secondary Structures of Ubiquitin Ions Soft-Landed onto Self-Assembled Monolayer Surfaces. J Phys Chem B 2016; 120:4927-36. [DOI: 10.1021/acs.jpcb.6b02448] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Affiliation(s)
- Qichi Hu
- Physical Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Julia Laskin
- Physical Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
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7
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Johnson GE, Laskin J. Understanding ligand effects in gold clusters using mass spectrometry. Analyst 2016; 141:3573-89. [PMID: 27221357 DOI: 10.1039/c6an00263c] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
This review summarizes recent research on the influence of phosphine ligands on the size, stability, and reactivity of gold clusters synthesized in solution. Sub-nanometer clusters exhibit size- and composition-dependent properties that are unique from those of larger nanoparticles. The highly tunable properties of clusters and their high surface-to-volume ratio make them promising candidates for a variety of technological applications. However, because "each-atom-counts" toward defining cluster properties it is critically important to develop robust synthesis methods to efficiently prepare clusters of predetermined size. For decades phosphines have been known to direct the size-selected synthesis of gold clusters. Despite the preparation of numerous species it is still not understood how different functional groups at phosphine centers affect the size and properties of gold clusters. Using electrospray ionization mass spectrometry (ESI-MS) it is possible to characterize the effect of ligand substitution on the distribution of clusters formed in solution at defined reaction conditions. In addition, ligand exchange reactions on preformed clusters may be monitored using ESI-MS. Collision induced dissociation (CID) may also be employed to obtain qualitative insight into the fragmentation of mixed ligand clusters and the relative binding energies of differently substituted phosphines. Quantitative ligand binding energies and cluster stability may be determined employing surface induced dissociation (SID) in a custom-built Fourier transform ion cyclotron resonance mass spectrometer (FT-ICR-MS). Rice-Ramsperger-Kassel-Marcus (RRKM) based modeling of the SID data allows dissociation energies and entropy values to be extracted. The charge reduction and reactivity of atomically precise gold clusters, including partially ligated species generated in the gas-phase by in source CID, on well-defined surfaces may be explored using ion soft landing (SL) in a custom-built instrument combined with in situ time of flight secondary ion mass spectrometry (TOF-SIMS). Jointly, this multipronged experimental approach allows characterization of the full spectrum of relevant phenomena including cluster synthesis, ligand exchange, thermochemistry, surface immobilization, and reactivity. The fundamental insights obtained from this work will facilitate the directed synthesis of gold clusters with predetermined size and properties for specific applications.
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Affiliation(s)
- Grant E Johnson
- Physical Sciences Division, Pacific Northwest National Laboratory, P. O. Box 999, MSIN K8-88, Richland, Washington 99352, USA.
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Johnson GE, Gunaratne D, Laskin J. Soft- and reactive landing of ions onto surfaces: Concepts and applications. MASS SPECTROMETRY REVIEWS 2016; 35:439-479. [PMID: 25880894 DOI: 10.1002/mas.21451] [Citation(s) in RCA: 52] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/23/2014] [Accepted: 10/31/2014] [Indexed: 06/04/2023]
Abstract
Soft- and reactive landing of mass-selected ions is gaining attention as a promising approach for the precisely-controlled preparation of materials on surfaces that are not amenable to deposition using conventional methods. A broad range of ionization sources and mass filters are available that make ion soft-landing a versatile tool for surface modification using beams of hyperthermal (<100 eV) ions. The ability to select the mass-to-charge ratio of the ion, its kinetic energy and charge state, along with precise control of the size, shape, and position of the ion beam on the deposition target distinguishes ion soft landing from other surface modification techniques. Soft- and reactive landing have been used to prepare interfaces for practical applications as well as precisely-defined model surfaces for fundamental investigations in chemistry, physics, and materials science. For instance, soft- and reactive landing have been applied to study the surface chemistry of ions isolated in the gas-phase, prepare arrays of proteins for high-throughput biological screening, produce novel carbon-based and polymer materials, enrich the secondary structure of peptides and the chirality of organic molecules, immobilize electrochemically-active proteins and organometallics on electrodes, create thin films of complex molecules, and immobilize catalytically active organometallics as well as ligated metal clusters. In addition, soft landing has enabled investigation of the size-dependent behavior of bare metal clusters in the critical subnanometer size regime where chemical and physical properties do not scale predictably with size. The morphology, aggregation, and immobilization of larger bare metal nanoparticles, which are directly relevant to the design of catalysts as well as improved memory and electronic devices, have also been studied using ion soft landing. This review article begins in section 1 with a brief introduction to the existing applications of ion soft- and reactive landing. Section 2 provides an overview of the ionization sources and mass filters that have been used to date for soft landing of mass-selected ions. A discussion of the competing processes that occur during ion deposition as well as the types of ions and surfaces that have been investigated follows in section 3. Section 4 discusses the physical phenomena that occur during and after ion soft landing, including retention and reduction of ionic charge along with factors that impact the efficiency of ion deposition. The influence of soft landing on the secondary structure and biological activity of complex ions is addressed in section 5. Lastly, an overview of the structure and mobility as well as the catalytic, optical, magnetic, and redox properties of bare ionic clusters and nanoparticles deposited onto surfaces is presented in section 6.
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Affiliation(s)
- Grant E Johnson
- Physical Sciences Division, Pacific Northwest National Laboratory, P.O. Box 999, MSIN K8-88, Richland, WA, 99352
| | - Don Gunaratne
- Physical Sciences Division, Pacific Northwest National Laboratory, P.O. Box 999, MSIN K8-88, Richland, WA, 99352
| | - Julia Laskin
- Physical Sciences Division, Pacific Northwest National Laboratory, P.O. Box 999, MSIN K8-88, Richland, WA, 99352
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Johnson GE, Colby R, Engelhard M, Moon D, Laskin J. Soft landing of bare PtRu nanoparticles for electrochemical reduction of oxygen. NANOSCALE 2015; 7:12379-91. [PMID: 26148814 DOI: 10.1039/c5nr03154k] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/24/2023]
Abstract
Magnetron sputtering of two independent Pt and Ru targets coupled with inert gas aggregation in a modified commercial source has been combined with soft landing of mass-selected ions to prepare bare 4.5 nm diameter PtRu nanoparticles on glassy carbon electrodes with controlled size and morphology for electrochemical reduction of oxygen in solution. Employing atomic force microscopy (AFM) it is shown that the nanoparticles bind randomly to the glassy carbon electrode at a relatively low coverage of 7 × 10(4) ions μm(-2) and that their average height is centered at 4.5 nm. Scanning transmission electron microscopy images obtained in the high-angle annular dark field mode (HAADF-STEM) further confirm that the soft-landed PtRu nanoparticles are uniform in size. Wide-area scans of the electrodes using X-ray photoelectron spectroscopy (XPS) reveal the presence of both Pt and Ru in atomic concentrations of ∼9% and ∼33%, respectively. Deconvolution of the high energy resolution XPS spectra in the Pt 4f and Ru 3d regions indicates the presence of both oxidized Pt and Ru. The substantially higher loading of Ru compared to Pt and enrichment of Pt at the surface of the nanoparticles is confirmed by wide-area analysis of the electrodes using time-of-flight medium energy ion scattering (TOF-MEIS) employing both 80 keV He(+) and O(+) ions. The activity of electrodes containing 7 × 10(4) ions μm(-2) of bare 4.5 nm PtRu nanoparticles toward the electrochemical reduction of oxygen was evaluated employing cyclic voltammetry (CV) in 0.1 M HClO4 and 0.5 M H2SO4 solutions. In both electrolytes a pronounced reduction peak was observed during O2 purging of the solution that was not evident during purging with Ar. Repeated electrochemical cycling of the electrodes revealed little evolution in the shape or position of the voltammograms indicating high stability of the nanoparticles supported on glassy carbon. The reproducibility of the nanoparticle synthesis and deposition was evaluated by employing the same experimental parameters to prepare nanoparticles on glassy carbon electrodes on three occasions separated by several days. Surfaces with almost identical electrochemical behavior were observed with CV, demonstrating the highly reproducible preparation of bare nanoparticles using physical synthesis in the gas-phase combined with soft landing of mass-selected ions.
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Affiliation(s)
- Grant E Johnson
- Physical Sciences Division, Pacific Northwest National Laboratory, P. O. Box 999, MSIN K8-88, Richland, WA 99352, USA.
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Johnson GE, Colby R, Laskin J. Soft landing of bare nanoparticles with controlled size, composition, and morphology. NANOSCALE 2015; 7:3491-3503. [PMID: 25626391 DOI: 10.1039/c4nr06758d] [Citation(s) in RCA: 41] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Physical synthesis employing magnetron sputtering and gas aggregation in a modified commercial source has been coupled with size-selection and ion soft landing to prepare bare nanoparticles on surfaces with controlled coverage, size, composition, and morphology. Employing atomic force microscopy (AFM) and scanning electron microscopy (SEM), it is demonstrated that the size and coverage of nanoparticles on flat and stepped surfaces may be controlled using a quadrupole mass filter and the length of deposition, respectively. AFM shows that nanoparticles bind randomly to flat surfaces when soft landed at relatively low coverage (4 × 10(4) ions μm(-2)). On stepped surfaces at intermediate coverage (4 × 10(5) ions μm(-2)) nanoparticles bind along step edges forming extended linear chains. At the highest coverage (2 × 10(6) ions μm(-2)) nanoparticles form a continuous film on flat surfaces. On one surface with sizable defects, the presence of localized imperfections results in agglomeration of nanoparticles onto these features and formation of neighboring zones devoid of particles. Employing high resolution scanning transmission electron microscopy (STEM) and electron energy loss spectroscopy (EELS) the customized magnetron sputtering/gas aggregation source is demonstrated to produce bare single metal particles with controlled morphology as well as bimetallic alloy nanoparticles with defined core-shell structures of that are of interest to catalysis.
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Affiliation(s)
- Grant E Johnson
- Physical Sciences Division, Pacific Northwest National Laboratory, P. O. Box 999, MSIN K8-88, Richland, WA 99352, USA.
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Gunaratne KDD, Prabhakaran V, Ibrahim YM, Norheim RV, Johnson GE, Laskin J. Design and performance of a high-flux electrospray ionization source for ion soft landing. Analyst 2015; 140:2957-63. [DOI: 10.1039/c5an00220f] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A high-flux electrospray source enables deposition of micrograms of mass-selected ions for studies in catalysis and materials science.
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Affiliation(s)
| | | | - Yehia M. Ibrahim
- Biological Sciences Division and Environmental Molecular Sciences Laboratory
- Pacific Northwest National Laboratory
- Richland
- USA
| | - Randolph V. Norheim
- Biological Sciences Division and Environmental Molecular Sciences Laboratory
- Pacific Northwest National Laboratory
- Richland
- USA
| | - Grant E. Johnson
- Pacific Northwest National Laboratory
- Physical Sciences Division
- Richland
- USA
| | - Julia Laskin
- Pacific Northwest National Laboratory
- Physical Sciences Division
- Richland
- USA
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12
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Sheng M, Gao Y, Sun J, Gao F. Carbon nanodots–chitosan composite film: A platform for protein immobilization, direct electrochemistry and bioelectrocatalysis. Biosens Bioelectron 2014; 58:351-8. [DOI: 10.1016/j.bios.2014.03.005] [Citation(s) in RCA: 54] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2013] [Revised: 02/20/2014] [Accepted: 03/03/2014] [Indexed: 11/16/2022]
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Johnson GE, Gunaratne KDD, Laskin J. In situ SIMS and IR spectroscopy of well-defined surfaces prepared by soft landing of mass-selected ions. J Vis Exp 2014:51344. [PMID: 24961913 PMCID: PMC4195338 DOI: 10.3791/51344] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/31/2022] Open
Abstract
Soft landing of mass-selected ions onto surfaces is a powerful approach for the highly-controlled preparation of materials that are inaccessible using conventional synthesis techniques. Coupling soft landing with in situ characterization using secondary ion mass spectrometry (SIMS) and infrared reflection absorption spectroscopy (IRRAS) enables analysis of well-defined surfaces under clean vacuum conditions. The capabilities of three soft-landing instruments constructed in our laboratory are illustrated for the representative system of surface-bound organometallics prepared by soft landing of mass-selected ruthenium tris(bipyridine) dications, [Ru(bpy)3](2+) (bpy = bipyridine), onto carboxylic acid terminated self-assembled monolayer surfaces on gold (COOH-SAMs). In situ time-of-flight (TOF)-SIMS provides insight into the reactivity of the soft-landed ions. In addition, the kinetics of charge reduction, neutralization and desorption occurring on the COOH-SAM both during and after ion soft landing are studied using in situ Fourier transform ion cyclotron resonance (FT-ICR)-SIMS measurements. In situ IRRAS experiments provide insight into how the structure of organic ligands surrounding metal centers is perturbed through immobilization of organometallic ions on COOH-SAM surfaces by soft landing. Collectively, the three instruments provide complementary information about the chemical composition, reactivity and structure of well-defined species supported on surfaces.
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Affiliation(s)
- Grant E Johnson
- Physical Sciences Division, Pacific Northwest National Laboratory
| | | | - Julia Laskin
- Physical Sciences Division, Pacific Northwest National Laboratory;
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Pratihar S, Kohale SC, Vázquez SA, Hase WL. Intermolecular potential for binding of protonated peptide ions with perfluorinated hydrocarbon surfaces. J Phys Chem B 2014; 118:5577-88. [PMID: 24779856 DOI: 10.1021/jp410886s] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
An analytic potential energy function was developed to model both short-range and long-range interactions between protonated peptide ions and perfluorinated hydrocarbon chains. The potential function is defined as a sum of two-body potentials of the Buckingham form. The parameters of the two-body potentials were obtained by fits to intermolecular potential energy curves (IPECs) calculated for CF4, which represents the F and C atoms of a perfluoroalkane chain, interacting with small molecules chosen as representatives of the main functional groups and atoms present in protonated peptide ions: specifically, CH4, NH3, NH4(+), and HCOOH. The IPECs were calculated at the MP2/aug-cc-pVTZ level of theory, with basis set superposition error (BSSE) corrections. Good fits were obtained for an energy range extending up to about 400 kcal/mol. It is shown that the pair potentials derived from the NH3/CF4 and HCOOH/CF4 fits reproduce acceptably well the intermolecular interactions in HCONH2/CF4, which indicates that the parameters obtained for the amine and carbonyl atoms may be transferable to the corresponding atoms of the amide group. The derived potential energy function may be used in chemical dynamics simulations of collisions of peptide-H(+) ions with perfluorinated hydrocarbon surfaces.
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Affiliation(s)
- Subha Pratihar
- Department of Chemistry and Biochemistry, Texas Tech University , Lubbock, Texas 79409-1061, United States
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15
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Alizadeh V, Mehrgardi MA, Fazlollah Mousavi M. Electrochemical Investigation of Cytochrome c Immobilized onto Self-Assembled Monolayer of Captopril. ELECTROANAL 2013. [DOI: 10.1002/elan.201300036] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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Szot K, Jönsson-Niedziolka M, Rozniecka E, Marken F, Opallo M. Direct electrochemistry of adsorbed proteins and bioelectrocatalysis at film electrode prepared from oppositely charged carbon nanoparticles. Electrochim Acta 2013. [DOI: 10.1016/j.electacta.2012.10.168] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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17
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Cyriac J, Pradeep T, Kang H, Souda R, Cooks RG. Low-Energy Ionic Collisions at Molecular Solids. Chem Rev 2012; 112:5356-411. [DOI: 10.1021/cr200384k] [Citation(s) in RCA: 88] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
Affiliation(s)
- Jobin Cyriac
- DST Unit of
Nanoscience, Department
of Chemistry, Indian Institute of Technology Madras, Chennai 600 036, India
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907, United
States
| | - T. Pradeep
- DST Unit of
Nanoscience, Department
of Chemistry, Indian Institute of Technology Madras, Chennai 600 036, India
| | - H. Kang
- Department of Chemistry, Seoul National University, Gwanak-gu, Seoul 151-747,
Republic of Korea
| | - R. Souda
- International
Center for Materials
Nanoarchitectonics, National Institute for Materials Science, 1-1 Namiki, Tsukuba, Ibaraki 305-0044, Japan
| | - R. G. Cooks
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907, United
States
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Benner WH, Lewis GS, Hering SV, Selgelke B, Corzett M, Evans JE, Lightstone FC. Re-electrospraying splash-landed proteins and nanoparticles. Anal Chem 2012; 84:2498-504. [PMID: 22283555 DOI: 10.1021/ac203298w] [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
FITC-albumin, Lsr-F, or fluorescent polystyrene latex particles were electrosprayed from aqueous buffer and subjected to dispersion by differential electrical mobility at atmospheric pressure. A resulting narrow size cut of singly charged molecular ions or particles was passed through a condensation growth tube collector to create a flow stream of small water droplets, each carrying a single ion or particle. The droplets were splash landed (impacted) onto a solid or liquid temperature controlled surface. Small pools of droplets containing size-selected particles, FITC-albumin, or Lsr-F were recovered, re-electrosprayed, and, when analyzed a second time by differential electrical mobility, showed increased homogeneity. Transmission electron microscopy (TEM) analysis of the size-selected Lsr-F sample corroborated the mobility observation.
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Affiliation(s)
- W Henry Benner
- Physics and Life Sciences, Biology and Biotechnology Division, Lawrence Livermore National Laboratory, P.O. Box 808, Livermore, California 94551, USA.
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Chen Z, Sun D, Zhou Y, Zhao J, Lu T, Huang X, Cai C, Shen J. Nano polyurethane-assisted ultrasensitive biodetection of H2O2 over immobilized Microperoxidase-11. Biosens Bioelectron 2011; 29:53-9. [DOI: 10.1016/j.bios.2011.07.065] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2011] [Revised: 07/25/2011] [Accepted: 07/26/2011] [Indexed: 02/08/2023]
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Cyriac J, Li G, Cooks RG. Vibrational Spectroscopy and Mass Spectrometry for Characterization of Soft Landed Polyatomic Molecules. Anal Chem 2011; 83:5114-21. [PMID: 21634371 DOI: 10.1021/ac200118f] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Affiliation(s)
- Jobin Cyriac
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907, United States
| | - Guangtao Li
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907, United States
| | - R. Graham Cooks
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907, United States
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Johnson GE, Hu Q, Laskin J. Soft landing of complex molecules on surfaces. ANNUAL REVIEW OF ANALYTICAL CHEMISTRY (PALO ALTO, CALIF.) 2011; 4:83-104. [PMID: 21370985 DOI: 10.1146/annurev-anchem-061010-114028] [Citation(s) in RCA: 44] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
Soft and reactive landing of mass-selected ions onto surfaces has become a topic of substantial interest due to its promising potential for the highly controlled preparation of materials. For example, there are possible applications in the production of peptide and protein microarrays for use in high-throughput screening, protein separation and conformational enrichment of peptides, redox protein characterization, thin-film production, and the preparation of catalysts through deposition of clusters and organometallic complexes. Soft landing overcomes many of the limitations associated with conventional thin-film production techniques and offers unprecedented selectivity and specificity of preparation of deposited species. This review discusses the fundamental aspects of soft and reactive landing of mass-selected ions on surfaces that pertain to applications of these techniques in biomaterials, molecular electronics, catalysis, and interfacial chemistry.
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Affiliation(s)
- Grant E Johnson
- Fundamental Science Directorate, Pacific Northwest National Laboratory, Richland, Washington 99352, USA.
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Johnson GE, Lysonski M, Laskin J. In Situ Reactivity and TOF-SIMS Analysis of Surfaces Prepared by Soft and Reactive Landing of Mass-Selected Ions. Anal Chem 2010; 82:5718-27. [DOI: 10.1021/ac100734g] [Citation(s) in RCA: 39] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Affiliation(s)
- Grant E. Johnson
- Chemical and Materials Sciences Division, Pacific Northwest National Laboratory, P.O. Box 999, MSIN K8-88, Richland, Washington 99352
| | - Michael Lysonski
- Chemical and Materials Sciences Division, Pacific Northwest National Laboratory, P.O. Box 999, MSIN K8-88, Richland, Washington 99352
| | - Julia Laskin
- Chemical and Materials Sciences Division, Pacific Northwest National Laboratory, P.O. Box 999, MSIN K8-88, Richland, Washington 99352
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Mazzei F, Favero G, Frasconi M, Tata A, Pepi F. Electron-Transfer Kinetics of Microperoxidase-11 Covalently Immobilised onto the Surface of Multi-Walled Carbon Nanotubes by Reactive Landing of Mass-Selected Ions. Chemistry 2009; 15:7359-67. [DOI: 10.1002/chem.200900887] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
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