ArticleMolecular & cellular proteomics : MCP2016
Using the Ubiquitin-modified Proteome to Monitor Distinct and Spatially Restricted Protein Homeostasis Dysfunction.
Article in Molecular & cellular proteomics : MCP, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed, 42 citations in OpenAlex.
- The functional landscape of the human ubiquitinome.bioRxiv : the preprint server for biology · 2025Article
- Optical Control of Proteasomal Protein Degradation with a Photoswitchable Lipopeptide.Angewandte Chemie (International ed. in English) · 2024Article
- Site-specific ubiquitination: Deconstructing the degradation tag.Current opinion in structural biology · 2022Review
- Review
- Persistent mRNA localization defects and cell death in ALS neurons caused by transient cellular stress.Cell reports · 2021Article
- The p97-UBXN1 complex regulates aggresome formation.Journal of cell science · 2021Article
- Mechanistic basis for ubiquitin modulation of a protein energy landscape.Proceedings of the National Academy of Sciences of the United States of America · 2021Article
- Automating UbiFast for High-throughput and Multiplexed Ubiquitin Enrichment.Molecular & cellular proteomics : MCP · 2021Article
- Enzymatic RNA Biotinylation for Affinity Purification and Identification of RNA-Protein Interactions.ACS chemical biology · 2020Article
- Post-translational modifications of Hsp70 family proteins: Expanding the chaperone code.The Journal of biological chemistry · 2020Review
- PD-1 and BTLA regulate T cell signaling differentially and only partially through SHP1 and SHP2.The Journal of cell biology · 2020Article
- A cullin-RING ubiquitin ligase promotes thermotolerance as part of the intracellular pathogen response inProceedings of the National Academy of Sciences of the United States of America · 2020Article
- Perturbation of ubiquitin homeostasis promotes macrophage oxidative defenses.Scientific reports · 2019Article
- Active Protein Neddylation or Ubiquitylation Is Dispensable for Stress Granule Dynamics.Cell reports · 2019Article
- Article
- Decoys Untangle Complicated Redundancy and Reveal Targets of Circadian Clock F-Box Proteins.Plant physiology · 2018Article
- Mapping the mammalian ribosome quality control complex interactome using proximity labeling approaches.Molecular biology of the cell · 2018Article
- A VCP inhibitor substrate trapping approach (VISTA) enables proteomic profiling of endogenous ERAD substrates.Molecular biology of the cell · 2018Article
- K63 ubiquitylation triggers proteasomal degradation by seeding branched ubiquitin chains.Proceedings of the National Academy of Sciences of the United States of America · 2018Article
- Context-Dependent and Disease-Specific Diversity in Protein Interactions within Stress Granules.Cell · 2018Article
Corrections and comments
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Authors and funding
6 authors at 1 institution in 1 country.
Funding
Abstract
Protein homeostasis dysfunction has been implicated in the development and progression of aging related human pathologies. There is a need for the establishment of quantitative methods to evaluate global protein homoeostasis function. As the ubiquitin (ub) proteasome system plays a key role in regulating protein homeostasis, we applied quantitative proteomic methods to evaluate the sensitivity of site-specific ubiquitylation events as markers for protein homeostasis dysfunction. Here, we demonstrate that the ub-modified proteome can exceed the sensitivity of engineered fluorescent reporters as a marker for proteasome dysfunction and can provide unique signatures for distinct proteome challenges which is not possible with engineered reporters. We demonstrate that combining ub-proteomics with subcellular fractionation can effectively separate degradative and regulatory ubiquitylation events on distinct protein populations. Using a recently developed potent inhibitor of the critical protein homeostasis factor p97/VCP, we demonstrate that distinct insults to protein homeostasis function can elicit robust and largely unique alterations to the ub-modified proteome. Taken together, we demonstrate that proteomic approaches to monitor the ub-modified proteome can be used to evaluate global protein homeostasis and can be used to monitor distinct functional outcomes for spatially separated protein populations.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.