193 nm Ultraviolet Photodissociation for the Characterization of Singly Charged Proteoforms Generated by MALDI

Zemaitis, Kevin J.; Zhou, Mowei; Kew, William R.; Paša-Tolić, Ljiljana

doi:10.1021/jasms.2c00302

193 nm Ultraviolet Photodissociation for the Characterization of Singly Charged Proteoforms Generated by MALDI

Journal Article · Sun Jan 08 23:00:00 EST 2023 · Journal of the American Society for Mass Spectrometry

DOI:https://doi.org/10.1021/jasms.2c00302· OSTI ID:1975100

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Pacific Northwest National Laboratory (PNNL), Richland, WA (United States). Environmental Molecular Sciences Laboratory (EMSL)

MALDI imaging allows for the near-cellular profiling of proteoforms directly from microbial, plant, and mammalian samples. Despite detecting hundreds of proteoforms, identification of unknowns with only intact mass information remains a distinct challenge, even with high mass resolving power and mass accuracy. To this end, many supplementary methods have been used to create experimental databases for accurate mass matching, including bulk or spatially resolved bottom-up and/or top-down proteomics. Herein, we describe the application of 193 nm ultraviolet photodissociation (UVPD) for fragmentation of quadrupole isolated singly charged ubiquitin (m/z 8565) by MALDI-UVPD on a UHMR HF Orbitrap. This platform permitted the high-resolution accurate mass measurement of not just terminal fragments but also large internal fragments. Finally, the outlined workflow demonstrates the feasibility of top-down analyses of isolated MALDI protein ions and the potential toward more comprehensive characterization of proteoforms in MALDI imaging applications.

View Accepted Manuscript (DOE)

Research Organization:: Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER); National Institutes of Health (NIH)

Grant/Contract Number:: AC05-76RL01830

OSTI ID:: 1975100

Report Number(s):: PNNL-SA-176946

Journal Information:: Journal of the American Society for Mass Spectrometry, Journal Name: Journal of the American Society for Mass Spectrometry Journal Issue: 2 Vol. 34; ISSN 1044-0305

Publisher:: American Society for Mass SpectrometryCopyright Statement

Country of Publication:: United States

Language:: English

References (27)

The mechanisms of collisional activation of ions in mass spectrometry Mayer, Paul M.; Poon, Clement Mass Spectrometry Reviews, Vol. 28, Issue 4 https://doi.org/10.1002/mas.20225	journal	July 2009
Radical solutions: Principles and application of electron-based dissociation in mass spectrometry-based analysis of protein structure Lermyte, Frederik; Valkenborg, Dirk; Loo, Joseph A. Mass Spectrometry Reviews, Vol. 37, Issue 6 https://doi.org/10.1002/mas.21560	journal	February 2018
Photodissociation at 193 nm of some singly protonated peptides and proteins withm/z 2000–9000 using a tandem time-of-flight mass spectrometer equipped with a second source for delayed extraction/post-acceleration of product ions Moon, Jeong Hee; Shin, Young Sik; Cha, Hyun Jung Rapid Communications in Mass Spectrometry, Vol. 21, Issue 3 https://doi.org/10.1002/rcm.2855	journal	January 2007
2D FT-ICR MS of Calmodulin: A Top-Down and Bottom-Up Approach Floris, Federico; van Agthoven, Maria; Chiron, Lionel Journal of the American Society for Mass Spectrometry, Vol. 27, Issue 9 https://doi.org/10.1007/s13361-016-1431-z	journal	July 2016
Defining Gas-Phase Fragmentation Propensities of Intact Proteins During Native Top-Down Mass Spectrometry Haverland, Nicole A.; Skinner, Owen S.; Fellers, Ryan T. Journal of The American Society for Mass Spectrometry, Vol. 28, Issue 6 https://doi.org/10.1007/s13361-017-1635-x	journal	April 2017
UV-POSIT: Web-Based Tools for Rapid and Facile Structural Interpretation of Ultraviolet Photodissociation (UVPD) Mass Spectra Rosenberg, Jake; Parker, W. Ryan; Cammarata, Michael B. Journal of The American Society for Mass Spectrometry, Vol. 29, Issue 6 https://doi.org/10.1007/s13361-018-1918-x	journal	April 2018
Top-Down Analysis of Proteins in Low Charge States Bashyal, Aarti; Sanders, James D.; Holden, Dustin D. Journal of the American Society for Mass Spectrometry, Vol. 30, Issue 4 https://doi.org/10.1007/s13361-019-02146-1	journal	February 2019
Photodissociation of high molecular weight peptides and proteins in a two-stage linear time-of-flight mass spectrometer Gimon-Kinsel, Mary E.; Kinsel, Gary R.; Edmondson, Ricky D. Journal of the American Society for Mass Spectrometry, Vol. 6, Issue 7 https://doi.org/10.1016/1044-0305(95)00247-B	journal	July 1995
Protein identification strategies in MALDI imaging mass spectrometry: a brief review Ryan, Daniel J.; Spraggins, Jeffrey M.; Caprioli, Richard M. Current Opinion in Chemical Biology, Vol. 48 https://doi.org/10.1016/j.cbpa.2018.10.023	journal	February 2019
Imaging of protein distribution in tissues using mass spectrometry: An interdisciplinary challenge Han, Jiaying; Permentier, Hjalmar; Bischoff, Rainer TrAC Trends in Analytical Chemistry, Vol. 112 https://doi.org/10.1016/j.trac.2018.12.016	journal	March 2019
Enhanced Spatial Mapping of Histone Proteoforms in Human Kidney Through MALDI-MSI by High-Field UHMR-Orbitrap Detection Zemaitis, Kevin J.; Veličković, Dušan; Kew, William Analytical Chemistry, Vol. 94, Issue 37 https://doi.org/10.1021/acs.analchem.2c01034	journal	September 2022
Implementation of Ultraviolet Photodissociation on a Benchtop Q Exactive Mass Spectrometer and Its Application to Phosphoproteomics Fort, Kyle L.; Dyachenko, Andrey; Potel, Clement M. Analytical Chemistry, Vol. 88, Issue 4 https://doi.org/10.1021/acs.analchem.5b04162	journal	January 2016
Vacuum Ultraviolet Photodissociation and Fourier Transform–Ion Cyclotron Resonance (FT-ICR) Mass Spectrometry: Revisited Shaw, Jared B.; Robinson, Errol W.; Paša-Tolić, Ljiljana Analytical Chemistry, Vol. 88, Issue 6 https://doi.org/10.1021/acs.analchem.6b00148	journal	February 2016
Design and Performance of a Novel Interface for Combined Matrix-Assisted Laser Desorption Ionization at Elevated Pressure and Electrospray Ionization with Orbitrap Mass Spectrometry Belov, Mikhail E.; Ellis, Shane R.; Dilillo, Marialaura Analytical Chemistry, Vol. 89, Issue 14 https://doi.org/10.1021/acs.analchem.7b01168	journal	June 2017
Implementation of Fragment Ion Protection (FIP) during Ultraviolet Photodissociation (UVPD) Mass Spectrometry Holden, Dustin D.; Sanders, James D.; Weisbrod, Chad R. Analytical Chemistry, Vol. 90, Issue 14 https://doi.org/10.1021/acs.analchem.8b01723	journal	June 2018
Structural Analysis of Monoclonal Antibodies by Ultrahigh Resolution MALDI In-Source Decay FT-ICR Mass Spectrometry van der Burgt, Yuri E. M.; Kilgour, David P. A.; Tsybin, Yury O. Analytical Chemistry, Vol. 91, Issue 3 https://doi.org/10.1021/acs.analchem.8b04515	journal	December 2018
Gas Phase Protein Folding Triggered by Proton Stripping Generates Inside-Out Structures: A Molecular Dynamics Simulation Study Sever, Alexander I. M.; Konermann, Lars The Journal of Physical Chemistry B, Vol. 124, Issue 18 https://doi.org/10.1021/acs.jpcb.0c01934	journal	April 2020
ClipsMS: An Algorithm for Analyzing Internal Fragments Resulting from Top-Down Mass Spectrometry Lantz, Carter; Zenaidee, Muhammad A.; Wei, Benqian Journal of Proteome Research, Vol. 20, Issue 4 https://doi.org/10.1021/acs.jproteome.0c00952	journal	March 2021
Ultraviolet Photodissociation of ESI- and MALDI-Generated Protein Ions on a Q-Exactive Mass Spectrometer Dilillo, Marialaura; de Graaf, Erik L.; Yadav, Avinash Journal of Proteome Research https://doi.org/10.1021/acs.jproteome.8b00896	journal	December 2018
Influence of Primary Structure on Fragmentation of Native-Like Proteins by Ultraviolet Photodissociation Macias, Luis A.; Sipe, Sarah N.; Santos, Inês C. Journal of the American Society for Mass Spectrometry, Vol. 32, Issue 12 https://doi.org/10.1021/jasms.1c00269	journal	October 2021
Improving the Center Section Sequence Coverage of Large Proteins Using Stepped-Fragment Ion Protection Ultraviolet Photodissociation Dunham, Sean D.; Sanders, James D.; Holden, Dustin D. Journal of the American Society for Mass Spectrometry, Vol. 33, Issue 3 https://doi.org/10.1021/jasms.1c00296	journal	February 2022
Proteoform: a single term describing protein complexity Smith, Lloyd M.; Kelleher, Neil L. Nature Methods, Vol. 10, Issue 3 https://doi.org/10.1038/nmeth.2369	journal	February 2013
Informed-Proteomics: open-source software package for top-down proteomics Park, Jungkap; Piehowski, Paul D.; Wilkins, Christopher Nature Methods, Vol. 14, Issue 9 https://doi.org/10.1038/nmeth.4388	journal	August 2017
Automated, parallel mass spectrometry imaging and structural identification of lipids Ellis, Shane R.; Paine, Martin R. L.; Eijkel, Gert B. Nature Methods, Vol. 15, Issue 7 https://doi.org/10.1038/s41592-018-0010-6	journal	May 2018
Influence of protein ion charge state on 213 nm top-down UVPD Becher, Simon; Wang, Huixin; Leeming, Michael G. The Analyst, Vol. 146, Issue 12 https://doi.org/10.1039/D1AN00571E	journal	January 2021
Proteoforms as the next proteomics currency Smith, Lloyd M.; Kelleher, Neil L. Science, Vol. 359, Issue 6380 https://doi.org/10.1126/science.aat1884	journal	March 2018
Discovery top-down proteomics in symbiotic soybean root nodules Zhou, Mowei; Fulcher, James M.; Zemaitis, Kevin J. Frontiers in Analytical Science, Vol. 2 https://doi.org/10.3389/frans.2022.1012707	journal	September 2022

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