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ProteomicsMass spectrometry insights into a tandem ubiquitinâ??binding domain hybrid engineered for the selective recognition of unanchored polyubiquitin
Unanchored polyubiquitin chains are emerging as important regulators of cellular physiology with diverse roles paralleling those of substrate-conjugated polyubiquitin. However tools able to discriminate unanchored polyubiquitin chains of different isopeptide linkages have not been described. We desc...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2016-07-22 | MSV000079990 | MassIVE
ProteomicsLinkage Reprogramming by Tailor-made E3s Reveals Polyubiquitin Chain Requirements in DNA Damage Bypass
A polyubiquitin chain can adopt a variety of shapes, depending on how the ubiquitin monomers are joined. However, the relevance of linkage for the signaling functions of polyubiquitin chains is often poorly understood because of our inability to control or manipulate this parameter in vivo. Here we ...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2022-04-25 | PXD030735 | Pride
Ubiquitin E3 ligase Dna damage bypass Pcna 
UnknownLinkage reprogramming by tailor-made E3s reveals polyubiquitin chain requirements in DNA-damage bypass.
Not available
S-EPMC9098123 | biostudies-literature
ProteomicsA novel polyubiquitin chain linkage formed by viral Ubiquitin resists cleavage by deubiquitinating enzymes
The project reports the structural difference between viral Ubiquitin (vUB) and human ubiquitin, hence causing local and global destabilization in vUB. Viral Ubiquitin conjugates are degraded by proteasome machinery. The in-vitro biochemical assays suggest comparable activity of mono UB and mono-vUB...
ORGANISM(S): Bombyx mori (Silk moth) 
2020-06-28 | PXD017215 | Pride
Ubiquitination Dubs Nmr Lc-ms Isopeptide bond Proteasomal degradation 
ProteomicsMass spectrometry insights into a tandem ubiquitin‐binding domain hybrid engineered for the selective recognition of unanchored polyubiquitin
Unanchored polyubiquitin chains are emerging as important regulators of cellular physiology with diverse roles paralleling those of substrate-conjugated polyubiquitin. However tools able to discriminate unanchored polyubiquitin chains of different isopeptide linkages have not been described. We desc...
ORGANISM(S): Homo sapiens (Human) 
2016-05-18 | PXD004059 | Pride
Ubiquitin Polyubiquitin 
UnknownThe E2-25K ubiquitin-associated (UBA) domain aids in polyubiquitin chain synthesis and linkage specificity.
Not available
S-EPMC3086721 | biostudies-literature
ProteomicsDiscovery and mechanism of K63-linkage-directed deubiquitinase activity in USP53
Ubiquitin-specific proteases (USPs) are the largest class of human deubiquitinases (DUBs) and comprise its phylogenetically most distant members USP53 and USP54, which are annotated as catalytically inactive pseudo-enzymes. Conspicuously, mutations in the USP domain of USP53 cause progressive famili...
ORGANISM(S): Homo sapiens (Human) 
2024-11-11 | PXD054748 | Pride
Ubiquitin chain length Dubs Ubiquitin signaling K63 linkage X-ray crystallography Cholestasis Deubiquitinating enzymes Protease mechanism Ubiquitin probes Ubiquitin Polyubiquitin specificity Usp54 Usp53 
ProteomicsProteomic Analysis of Ubiquitin Chain Types in Murine Cells and Tissues
Mass spectrometry-based proteomics has become an integral approach for characterising ubiquitin chain-linkage compositions and architectures. In this study, we optimised sample preparation and chromatographic separation of Ubiquitin peptides for Absolute Quantification by Parallel Reaction Monitorin...
ORGANISM(S): Mus musculus (Mouse) 
2020-09-28 | PXD017754 | Pride
Absolute quantification Ubiquitin chain-linkage composition Murine tissues Parallel reaction monitoring 
UnknownExploring the linkage dependence of polyubiquitin conformations using molecular modeling.
Not available
S-EPMC2813430 | biostudies-literature
UnknownMolecular determinants of polyubiquitin linkage selection by an HECT ubiquitin ligase.
Not available
S-EPMC1440828 | biostudies-literature
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