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ProteomicsCompetitive Kinase Enrichment Proteomics Reveals that Abemaciclib Inhibits Glycogen Synthase Kinase 3 Beta and Activates WNT Signaling
The cellular and organismal phenotypic response to a small molecule kinase inhibitor is defined collectively by the inhibitor’s targets and their functions. The selectively of small molecule kinase inhibitors is commonly determined in vitro, using purified kinases and substrates. Recently, competiti...
ORGANISM(S): Homo sapiens (Human) Mus musculus (Mouse) 
2017-12-07 | PXD006139 | Pride
Polypharmacology Gsk3β Wnt signaling Kinase Chemoproteomics 
ProteomicsPatient-derived KEAP1 superbinder mutants stabilize KEAP1 structure and sequester NRF2 in p62-dependent clusters
Cancer-derived loss-of-function mutations in the KEAP1 tumor suppressor gene stabilize the NRF2 transcription factor, resulting in a pro-survival gene expression program that alters cellular metabolism and neutralizes oxidative stress. In a previous study of KEAP1 mutations observed in lung cancer, ...
ORGANISM(S): Homo sapiens (Human) 
2018-11-07 | PXD008411 | Pride
Nrf2 Keap1 Superbinders P62 Clusters Mutations Lung cancer 
ProteomicsProximity proteomics provides a new resource for exploring the function of Afadin and the complexity of cell-cell adherens junctions
Afadin and its Drosophila homolog Canoe are key components of the network of proteins that help link cell-cell adherens junctions to the actomyosin cytoskeleton. They stabilize this connection as force is generated to drive cell shape change and migration during embryonic morphogenesis, organogenes...
ORGANISM(S): Canis familiaris (Dog) (Canis lupus familiaris) 
2025-01-20 | PXD056971 | Pride
Bioid Afadin Cell-cell adherens junctions 
ProteomicsPost-translational modification of H2B C-terminal helix regulates nucleosome binding and chromatin signaling
Histone H2B contains a highly conserved C-terminal (H2B C) helix that has been implicated in chromatin interactions and dynamics. The H2B C helix is positioned adjacent to a major site of nucleosome interactions called the acidic patch. Despite individual structural studies highlighting interactions...
ORGANISM(S): Homo sapiens (Human) 
2025-08-25 | PXD063304 | Pride
Nucleosomes Protein-protein interactions 
ProteomicsSubstrate Trapping Proteomics Reveals Targets of the βTrCP2/FBXW11 Ubiquitin Ligase
We inhibited the proteosome to ‘trap’ ubiquitylated substrates on the SCFFBXW11 E3 complex. Comparative mass spectrometry analysis of immunopurified FBXW11 protein complexes before and after proteosome inhibition revealed known and putatively novel substrates.
ORGANISM(S): Homo sapiens (Human) 
2014-10-24 | PXD001062 | Pride
Btrc Fbxw11 E3 ubiquitin ligase 
ProteomicsDeciphering Differential Gut Bacterial Drug Metabolism with Activity-Based Protein Profiling
Gut bacterial β-glucuronidases (GUS) promote the toxic side effects of therapeutics by reactivating drugs from their inactive glucuronide conjugates. It is increasingly clear that the interindividual variability of bacterial GUS-producing species in the gut microbiota contributes to differential dru...
ORGANISM(S): human gut metagenome 
2019-12-03 | PXD014864 | Pride
Drug metabolism Gut microbiome Activity-based protein profiling 
ProteomicsStructural basis of paralog-specific KDM2A/B nucleosome recognition
The nucleosome acidic patch is a major interaction hub for chromatin, providing a platform for enzymes to dock and orient for nucleosome-targeted activities. In order to define the molecular basis of acidic patch recognition proteome-wide, we performed an amino acid resolution acidic patch interacto...
ORGANISM(S): Homo sapiens (Human) 
2023-02-14 | PXD032791 | Pride
Nucleosome Demethylase Kdm2b Jmjc Chromatin Acidic patch Kdm2a 
ProteomicsComprehensive nucleosome interactome screen establishes fundamental principles of nucleosome binding
Nuclear proteins bind chromatin to execute and regulate genome-templated processes. While structural and biochemical studies of individual nucleosome interactions have suggested that an acidic patch on the nucleosome disk surface may be a common site for recruitment to chromatin, the pervasiveness o...
ORGANISM(S): Mus musculus (Mouse) Homo sapiens (Human) 
2020-06-24 | PXD018690 | Pride
Anaphase-promoting complex/cyclosome Nucleosome Proteomics Elys Arginine anchor Nuclear pore Y-complex Chromatin Acidic patch 
ProteomicsIdentification and Characterization of MCM3 as a KEAP1 Substrate
KEAP1 is a substrate adaptor protein for a CUL3-based E3 ubiquitin ligase. Ubiquitylation and degradation of the antioxidant transcription factor NRF2 is considered the primary function of KEAP1; however, few other KEAP1 substrates have been identified. Because KEAP1 is altered in a number of human ...
ORGANISM(S): Homo sapiens (Human) 
2017-10-12 | PXD003929 | Pride
Hek293t Di-gly Apms Silac Label free quantification 
ProteomicsWnt Regulation: Exploring Axin-Disheveled interactions and defining mechanisms by which the SCF E3 ubiquitin ligase is recruited to the destruction complex
Wnt signaling plays key roles in development and disease, by regulating the stability of its key effector βcat. In the absence of Wnt signals, βcat is phosphorylated by the Wnt-regulatory destruction complex, ubiquitinated by an SCF-class E3 ubiquitin ligase, and destroyed by the proteasome. Bindi...
ORGANISM(S): Homo sapiens (Human) 
2020-04-20 | PXD016314 | Pride
Wnt signaling E3 ubiquitin ligase 
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