From Protein Complexes to Subunit Backbone Fragments: A Multi-stage Approach to Native Mass Spectrometry
Abstract
Native mass spectrometry (MS) is becoming an important integral part of structural proteomics and system biology research. The approach holds great promise for elucidating higher levels of protein structure: from primary to quaternary. This requires the most efficient use of tandem MS, which is the cornerstone of MS-based approaches. In this work, we advance a two-step fragmentation approach, or (pseudo)-MS(3), from native protein complexes to a set of constituent fragment ions. Using an efficient desolvation approach and quadrupole selection in the extended mass-to-charge (m/z) range, we have accomplished sequential dissociation of large protein complexes, such as phosporylase B (194 kDa), pyruvate kinase (232 kDa), and GroEL (801 kDa), to highly charged monomers which were then dissociated to a set of multiply charged fragmentation products. Fragment ion signals were acquired with a high resolution, high mass accuracy Orbitrap instrument that enabled highly confident identifications of the precursor monomer subunits. The developed approach is expected to enable characterization of stoichiometry and composition of endogenous native protein complexes at an unprecedented level of detail.
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Sequence-informative fragments could be readily observed in the low-m/z region of the mass spectrum with the GroEL complex-down workflow.
“Sequence-informative fragments could be readily observed in the low-m/z region of the mass spectrum with this workflow.”
From Higher-order structural characterisation of native proteins and complexes by top-down mass spectrometry (2020) · cites this paper as [106]
GroEL monomers could be ejected from the GroEL 14-mer complex in the source and further fragmented with HCD.
“It was found that GroEL monomers could be ejected from the complex in the source and further fragmented with HCD.”
From Higher-order structural characterisation of native proteins and complexes by top-down mass spectrometry (2020) · cites this paper as [106]
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- Authors
- Belov, M. E., Damoc, E., Denisov, E., Compton, P. D., Horning, S., Makarov, A. A., & Kelleher, N. L.
- Affiliations
- Thermo Fisher Scientific (Germany) (DE)
- Northwestern University (US)
- Corresponding author
- Makarov, Alexander A.
- Kelleher, Neil L.
- Venue
- Analytical Chemistry
- Publisher
- American Chemical Society (ACS)
- Published
- 2013-11-20
- Volume
- 85
- Issue
- 23
- Pages
- 11163-11173
- ISSN
- 0003-2700 (ISSN-L)
- 1520-6882
- OpenAlex
- W2027138806
- Cited by
- 175
- References
- 58
- Citations by year
- 2026: 13 · 2025: 5 · 2024: 12 · 2023: 6 · 2022: 10 · 2021: 19 · 2020: 14 · 2019: 20 · 2018: 15 · 2017: 15 · 2016: 16 · 2015: 19 · 2014: 10
- FWCI
- 6.73
- Type
- journal article
- Language
- en
- Open access
- closed
- Locations
- Analytical Chemistry (publishedVersion)
- PubMed (publishedVersion)
- Funders
- W.M. Keck Foundation (DT061512)
- Topics
- Physical Sciences › Chemistry › Spectroscopy › Mass Spectrometry Techniques and Applications
- Physical Sciences › Chemistry › Spectroscopy › Advanced Proteomics Techniques and Applications
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Metabolomics and Mass Spectrometry Studies
- Keywords
- native mass spectrometry, protein complexes, tandem mass spectrometry, sequential dissociation, desolvation, protein stoichiometry, pyruvate kinase, GroEL, protein complex composition
- MeSH terms
- Phosphorylase b, Mass Spectrometry, Protein Subunits, Spectrometry, Mass, Electrospray Ionization, Proteomics, Tandem Mass Spectrometry
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