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ProteomicsGlobal ubiquitinome profiling identify Nedd4 as aregulator of Profilin 1 and actin remodeling in neural crest cells
We utilized quantitative analyses of the proteome, transcriptome, and ubiquitinome to study how ubiquitination and NEDD4 control neural crest cell survival and stem-cell-like properties. We report 276 novel NEDD4 targets in neural crest cells and show that loss of NEDD4 leads to a striking global r...
ORGANISM(S): Mus musculus (Mouse) 
2022-02-08 | PXD024103 | Pride
Nedd4 Ubiquitin remnant enrichment Mouse Neural crest 
ProteomicsAnalysis of the ubiquitin-modified proteome identifies novel host determinants of Kaposi’s sarcoma herpesvirus lytic reactivation
Kaposi’s Sarcoma Herpesvirus (KSHV) is the causative agent of Kaposi’s Sarcoma (KS) and isassociated with primary effusion lymphoma (PEL), multicentric Castleman’s disease (MCD) and two inflammatory diseases. KSHV-associated cancers are primarily associated with genes expressed during latency, while...
ORGANISM(S): Homo sapiens (Human) 
2024-11-24 | PXD046571 | Pride
Kaposi’s sarcoma herpesvirus Proteome Ubiquitin 
ProteomicsUbiquitin S65 proteomics: Targets of ubiquitin phosphorylation
Ubiquitylation is an essential post-translational modification that regulates numerous cellular processes, most notably protein degradation. Ubiquitin itself can be post-translationally modified by phosphorylation, with nearly every serine, threonine, and tyrosine residue having the potential to be...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2015-07-07 | PXD002201 | Pride
Yeast Orbitrap Phosphorylation Ubiquitin 
ProteomicsEpitope and paratope mapping of a SUMO-remnant antibody using cross-linking mass spectrometry and molecular docking
The small ubiquitin-like modifier (SUMO) is an important post-translational modification that regulates the function of various proteins essential for DNA damage repair, genome integrity and cell homeostasis. To identify protein SUMOylation effectively, an enrichment step is necessary, often require...
ORGANISM(S): Oryctolagus cuniculus (Rabbit) 
2025-02-19 | PXD055077 | Pride
Antibody Cross-linking Mass spectrometry Molecular docking Paratope mapping Sumo 
ProteomicsEpitope and paratope mapping of a SUMO-remnant antibody using cross-linking mass spectrometry and molecular docking
The small ubiquitin-like modifier (SUMO) is an important post-translational modification that regulates the function of various proteins essential for DNA damage repair, genome integrity and cell homeostasis. To identify protein SUMOylation effectively, an enrichment step is necessary, often require...
ORGANISM(S): Oryctolagus sp. 'Rabbit_OD' 
2025-02-19 | PXD055085 | Pride
Antibody Cross-linking Mass spectrometry Molecular docking Paratope mapping Sumo 
ProteomicsEpitope and paratope mapping of a SUMO-remnant antibody using cross-linking mass spectrometry and molecular docking
The small ubiquitin-like modifier (SUMO) is an important post-translational modification that regulates the function of various proteins essential for DNA damage repair, genome integrity and cell homeostasis. To identify protein SUMOylation effectively, an enrichment step is necessary, often require...
ORGANISM(S): Oryctolagus cuniculus (Rabbit) 
2025-02-19 | PXD060724 | Pride
Antibody Cross-linking Mass spectrometry Molecular docking Paratope mapping Sumo 
ProteomicsMus musculus primary CD4+ T cell di-glycine remnant and whole cell proteomics
It is known that ubiquitination is important for T cell receptor (TCR) signaling during T cell activation but the breadth of ubiquitination events triggered during TCR signaling is not completely understood. This dataset utilizes di-glycine remnant profiling combined with mass spectrometry to identi...
ORGANISM(S): Mus musculus (Mouse) 
2019-05-09 | PXD012831 | Pride
Mus musculus primary cd4+ t cell di-glycine remnant and whole cell proteomics 
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 
ProteomicsUbiquitin remnant motif profiling (Ubiquitomics) in VACV infected HeLa cells
HeLa cells were pretreated with MG132, inoculated with VACV-Cop at an MOI of 3 for 1 h, and posttreated with MG132 again. Cells were lysed and extracted proteins were digested to peptides using trypsin, and desalted peptides were subjected to automated diGly enrichment using the PTMScan ubiquitin re...
ORGANISM(S): Vaccinia Virus Copenhagen (ncbitaxon:10249) Homo Sapiens (ncbitaxon:9606) 
2024-02-05 | MSV000094020 | MassIVE
ProteomicsThe ubiquitin landscape of the Influenza A Virus polymerase
During influenza A virus (IAV) infections, viral proteins are targeted by cellular E3 ligases for modification with ubiquitin. Here, we decipher and functionally explore the ubiquitin landscape of the IAV polymerase during infection of human alveolar epithelial cells by applying mass spectrometry an...
ORGANISM(S): Homo sapiens (Human) Influenza A virus (A/Wilson-Smith/1933(H1N1)) 
2023-03-11 | PXD030816 | Pride
Influenza a virus Pb1 Affinity enrichment Pa Viral rna-dependent rna polymerase Ubiquitination K-ε-gg motif Lc-msms Pb2 
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