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ProteomicsUbiquitination at the Parkin ubiquitin-like domain suggests a new mechanism for Parkin activation
The mitochondrial kinase PINK1 and the cytosolic ubiquitin ligase (E3) Parkin is involved in mitochondrial quality control. PINK1, which phosphorylates ubiquitin at serine 65 residue and the ubiquitin-like (Ubl) domain of Parkin at serine 65 residue, promotes the Parkin activation and translocation ...
ORGANISM(S): Homo Sapiens (human) 
2022-08-24 | PXD026554 | JPOST Repository
ProteomicsK48 ubiquitin selectively targets oxidized proteins in vivo
Ubiquitin is a highly conserved eukaryotic protein responsible for regulating a variety of functions when conjugated to target proteins. Ubiquitin is essential, accumulates during the stress response, and is the canonical signal for protein degradation by the proteasome. Still, the function of ubiqu...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2021-04-30 | PXD014173 | Pride
K48 ubiquitin Yeast Oxidation Oxidative stress 
ProteomicsUbiREAD deciphers proteasomal degradation code of homotypic and branched K48 and K63 ubiquitin chains
Ubiquitin chains encode signals defining the fates of their modified proteins. Ubiquitin chain-mediated proteasomal degradation is a widespread eukaryotic regulatory mechanism. Yet, heterogeneity of intracellular ubiquitination has precluded systematically comparing degradation capacities of differe...
ORGANISM(S): Homo sapiens (Human) 
2025-06-23 | PXD060731 | Pride
Ubiquitin K48 Deubiquitination K63 Protein degradation Proteasome Proteostasis Electroporation Ubiquitin code Branched ubiquitin chains 
ProteomicsThe UBA-domain of Ubc1/Ube2K Facilitates the Assembly of K48-/K63-Branched Ubiquitin Chains
Assembly of polymeric ubiquitin (Ub) chains is an essential posttranslational protein modification that regulates widespread intracellular processes in eukaryotic cells. Factors and mechanisms that regulate the formation of Ub chains are key to the understanding of many cellular processes. The E2 en...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2021-09-09 | PXD018651 | Pride
Ubc1/ube2k ubiquitin k48-/k63-branched ubiquitin prm 
ProteomicsDevelopmentally regulated sex differences in K48 polyubiquitination in the amygdala
This project examined if sex differences in K48 polyubiquitination in the amygdala were developmentally regulated. This used basolateral amygdala (BLA) samples collected from 4 and 9 week old male and female Sprague-Dawley rats.
ORGANISM(S): Rattus norvegicus (Rat) 
2023-11-06 | PXD042021 | Pride
Sex differences Amygdala Ubiquitin Ptsd K48 
ProteomicsThe deubiquitinase TRABID stabilises the K29/K48-specific E3 ubiquitin ligase HECTD1
The OTU deubiquitinase TRABID is highly tuned for the recognition and cleavage of K29 and K33-linked ubiquitin chains. Yet the cellular functions of these atypical ubiquitin signals remain unclear. Here, we compared the interactome of two different catalytically-dead TRABID constructs, one that lack...
ORGANISM(S): Homo sapiens (Human) 
2021-06-23 | PXD022703 | Pride
Ubiquitin K29/k48-linked polyubiquitin chain Ubiquitin thioesterase E3 ubiquitin ligase Deubiquitination Trabid Hectd1 Lc-ms/ms Polyubiquitin chain Protein degradation 
ProteomicsK48-K63-Ubiquitin chain pulldown from U2OS cell lysates
SpyTagged branched and unbranched K48- and K63-linked Tetra-Ubiquitin chains were immobilized on SpyCatcher agarose (48Ub4; 63Ub4; [Ub]2-48,63Ub-48Ub; [Ub]2-48,63Ub-63Ub). Pulldown were performed from protease-inhibitor treated U2OS cell lines to identify specific binders of K48-K63-branched Ub4.
ORGANISM(S): Homo sapiens (Human) 
2024-05-07 | PXD046025 | Pride
Human Lc-msms Dia Ubiquitin Branched ubiquitin 
ProteomicsThe UBA domain of Ubc1 (Ube2K) Facilitates the Assembly of K48/K63-Branched Ubiquitin Chains
The assembly of a specific polymeric ubiquitin (Ub) chain on a target protein is a key event in the regulation of numerous cellular processes. Yet, the mechanisms that govern the selective synthesis of particular polyubiquitin signals remain enigmatic. The ubiquitin-conjugating (E2) enzymes Ubc1 in ...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2021-03-02 | PXD022621 | Pride
Ubiquitin Ubc1 Ubc4 Yeast Branched 
ProteomicsStructural ubiquitin contributes to K48 linkage-specificity of the HECT ligase Tom1
Homologous to E6AP C-Terminus (HECT) ubiquitin ligases play key roles in essential pathways such as DNA repair, cell cycle control or protein quality control. Tom1 is one of five HECT ubiquitin E3 ligases in budding yeast S. cerevisiae and prototypical for a ligase with pleiotropic functions such as...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2025-08-07 | PXD062321 | Pride
Hect  ubiquitin  orphan quality control  huwe1  tom1  protein ubiquitylation  cryo-em 
ProteomicsTemporally graded K48 polyubiquitin targets in the male amygdala following contextual fear conditioning
Temporally graded K48 polyubiquitin targets in the male amygdala following contextual fear conditioning
ORGANISM(S): Rattus norvegicus (Rat) 
2026-04-27 | PXD070314 | Pride
Sex differences Amygdala Ubiquitin K48 
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