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ProteomicsData-independent acquisition method for ubiquitinome analysis reveals non-degrative regulation of circadian biology
Protein ubiquitination is involved in virtually all cellular processes. Enrichment strategies employing antibodies targeting ubiquitin-derived diGly remnants combined with mass spectrometry (MS) have enabled investigations of ubiquitin signaling at a large scale. However, so far the power of data in...
ORGANISM(S): Homo sapiens (Human) 
2020-11-20 | PXD019854 | Pride
Circadian biology Dia 
UnknownData-independent acquisition method for ubiquitinome analysis reveals regulation of circadian biology.
Not available
S-EPMC7801436 | biostudies-literature
ProteomicsSCFFbxw5 targets kinesin-13 proteins to facilitate ciliogenesis
Using substrate screening on protein microarrays we identified the kinesin-13 Kif2c/MCAK as a novel target of the ubiquitin E3 ligase SCF-Fbxw5. In cells, SCF-Fbxw5 ubiquitylates MCAK for proteasomal degradation during G2/M thereby facilitating ciliogenesis in the following G0 phase. Here, we perfor...
ORGANISM(S): Homo sapiens (Human) 
2021-08-12 | PXD026353 | Pride
Cullin-ring ligase / ubiquitin / fbxw5 / mcak / cilia 
ProteomicsProteome-wide identification of NEDD8 modification sites reveals distinct proteomes for canonical and atypical NEDDylation
The Ubiquitin-like molecule NEDD8 controls several biological processes and is a promising target for therapeutic intervention. NEDDylation occurs through specific NEDD8 enzymes (canonical) or enzymes of the Ubiquitin system (atypical). Identification of NEDD8 sites on substrates is critical for del...
ORGANISM(S): Homo sapiens (Human) 
2021-02-10 | PXD022812 | Pride
Proteomics Sumo-2 Nucleolus-related inclusions Digly remnants Nedd8 Nedd8 polymers 
ProteomicsSILAC diGlycine proteomics in C. elegans to identify ULP-3 targets upon DNA damage.
We found a conserved role for the deNEDDylating enzyme NEDP1 (ULP-3 in C. elegans) in the DNA damage induced apoptosis. To gain mechanistic insights into the role of ULP-3 in the IR-induced apoptosis, we devised an unbiased proteomics approach to discover potential NEDD8 targets for ULP-3 upon DNA d...
ORGANISM(S): Nematodes (ncbitaxon:333870) 
2019-08-19 | MSV000084214 | MassIVE
ProteomicsBlocking muscle wasting via deletion of the muscle specific E3 ligase MuRF1 impedes pancreatic tumor growth – ubiquitome dataset
Cancer-induced muscle wasting reduces quality of life, complicates or precludes cancer treatments, and predicts early mortality. Herein, we investigated the requirement of the muscle-specific E3 ubiquitin ligase, MuRF1, for muscle wasting induced by pancreatic cancer. Murine pancreatic cancer (KPC) ...
ORGANISM(S): Mus musculus (Mouse) 
2023-05-15 | PXD039151 | Pride
Proteasome system Cancer cachexia Mus musculus Murf1 Muscle wasting Pancreatic cancer 
ProteomicsAtomic-Resolution Prediction of Degrader-mediated Ternary Complex Structures by Combining Molecular Simulations with Hydrogen Deuterium Exchange
Targeted protein degradation (TPD) has emerged as a powerful approach for removing (rather than inhibiting) proteins implicated in diseases. A key step in TPD is the formation of an induced proximity complex where a degrader molecule recruits an E3 ligase to the protein of interest (POI), facilitat...
ORGANISM(S): Homo sapiens (Human) 
2022-10-01 | PXD033763 | Pride
Lc-msms Degrader prediction Hela cells Ubiquitination mapping 
ProteomicsUbiquitinated peptide identification in tomato
In this study, we identified ubiquitinated peptides that changed abundance in the mutant of an E3 ubiquitin ligase gene by coupling a K-(GG) peptide immunoprecipitation with quantitative proteomic analysis. Two independent replicates identified 265 and 236 ubiquitinated peptides, respectively. Seven...
ORGANISM(S): Solanum lycopersicum 
2020-11-24 | PXD018707 | Pride
Swath Fruit Ubiquitinated peptides Tomato 
ProteomicsIdentification of DX2 ubiquitination site
Although ubiquitination of DX2, novel oncogene, is significant on its protein stability, but DX2 ubiquitination sites are not unveiled. In this study, we identified ubiquitination sites of DX2 upon treatment with DX2 protein inhibitor, SDL01, via LC-MSMS technique. Lysine 90 of DX2 was revealed as a...
ORGANISM(S): Homo sapiens (Human) 
2024-05-30 | PXD051772 | Pride
Human Dx2 Uniqutination Cancer cell Lc-ms/ms 
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