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ProteomicsDDA LC-MS/MS of reference human plasma and urine samples
Brief description of the data submitted: Three LC-MS/MS files acquired using Data Dependent Acquisition (DDA) for (1) NIST 1950 Frozen Human Plasma standard reference material subjected to reversed-phase chromatographic (RPC) metabolomic assay tailored for complex lipid separation; (2) plasma Long...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2022-11-04 | MSV000090642 | MassIVE
ProteomicsA comprehensive landscape of 60S ribosome biogenesis factors
We used quantitative proteomics and crosslinking mass spectrometry (XL-MS) to analyse a comprehensive set of purified pre-60S ribosomal particles, obtaining a detailed timeline of RBF engagement during 60S ribosome biogenesis as well as particle-specific crosslink networks for all analysed particles...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2021-12-07 | PXD021831 | Pride
Ribosome assembly factors (afs) Ribosome biogenesis factors (rbfs) Mi-filter False discovery rate (fdr) Crosslinking coupled to mass spectrometry (xl-ms) Ribosome biogenesis 
ProteomicsHuman RNA ligase 1 as a novel regulator of ribosome function and translation under oxidative stress
Human RNA ligase 1 (Rlig1) is a recently identified human 5’-3’ RNA ligase essential for maintaining 28S rRNA integrity and promoting cell survival under oxidative stress. Although the enzymatic activity of Rlig1 implies a role in RNA maintenance or repair, its broader molecular context remains insu...
ORGANISM(S): Homo sapiens (Human) 
2026-05-25 | PXD067856 | Pride
Q-exactive hf Angel2 In-solution digest Ampylation Human Dis3 Rlig1 Clp1 Rna ligase Hek293 Dia Ribosome Enrichment Oxidative stress Exosome Ap-ms Rna repair 
ProteomicsHuman RNA ligase 1 as a novel regulator of ribosome function and translation under oxidative stress
Human RNA ligase 1 (Rlig1) is a recently identified human 5’-3’ RNA ligase essential for maintaining 28S rRNA integrity and promoting cell survival under oxidative stress. Although the enzymatic activity of Rlig1 implies a role in RNA maintenance or repair, its broader molecular context remains insu...
ORGANISM(S): Homo sapiens (Human) 
2026-05-25 | PXD067615 | Pride
Ribosome Xl-ms Rna repair Rlig1 
ProteomicsCobalamins function as allosteric activators of an Angelman syndrome-associated UBE3A/E6AP variant
Genetic aberrations of the maternal UBE3A allele, which encodes the E3 ubiquitin ligase E6AP, are the cause of Angelman syndrome (AS), an imprinting disorder. In most cases, the maternal UBE3A allele is not expressed. Yet, approximately 10 percent of AS individuals harbor distinct point mutations in...
ORGANISM(S): Homo sapiens (Human) 
2024-05-09 | PXD048963 | Pride
Lip-ms Small molecule activators Qxl-ms Structural proteomics Ube3a Angelman syndrome 
ProteomicsMembers of the RhoA subfamily of Rho GTPases interfere with HPV E6-mediated stimulation of the ubiquitin ligase E6AP
The E3 ubiquitin ligase E6AP, encoded by the UBE3A gene, plays a prominent role in cancers induced by human papillomaviruses (HPVs). In complex with the HPV E6 oncoprotein, it targets for instance the tumor suppressor p53 for degradation, thereby contributing to HPV-induced cellular transformation. ...
ORGANISM(S): Homo sapiens (Human) 
2026-09-14 | PXD069463 | Pride
E6ap Rhoa Hpv E6 Ube3a Ubiquitination Mass spectrometry In-gel 
ProteomicsMembers of the RhoA subfamily of Rho GTPases interfere with HPV E6-mediated stimulation of the ubiquitin ligase E6AP
The E3 ubiquitin ligase E6AP, encoded by the UBE3A gene, plays a prominent role in cancers induced by human papillomaviruses (HPVs). In complex with the HPV E6 oncoprotein, it targets for instance the tumor suppressor p53 for degradation, thereby contributing to HPV-induced cellular transformation. ...
ORGANISM(S): Homo sapiens (Human) 
2026-09-14 | PXD069396 | Pride
E6ap Rhoa Hpv E6 Ube3a Ubiquitination Xl-ms 
ProteomicsMembers of the RhoA subfamily of Rho GTPases interfere with HPV E6-mediated stimulation of the ubiquitin ligase E6AP
The E3 ubiquitin ligase E6AP, encoded by the UBE3A gene, plays a prominent role in cancers induced by human papillomaviruses (HPVs). In complex with the HPV E6 oncoprotein, it targets for instance the tumor suppressor p53 for degradation, thereby contributing to HPV-induced cellular transformation. ...
ORGANISM(S): Homo sapiens (Human) 
2026-09-14 | PXD069419 | Pride
E6ap Rhoa Hpv E6 Ube3a Lip-ms Ubiquitination 
ProteomicsNon-canonical BIM-regulated energy metabolism determines drug-induced liver necrosis
Paracetamol (acetaminophen, APAP) overdose severely damages mitochondria and triggers several apoptotic processes in hepatocytes, but the final outcome is fulminant necrotic cell death, resulting in acute liver failure and mortality. Here, we studied this switch of cell death modes and demonstrate a...
ORGANISM(S): Mus musculus (Mouse) 
2024-09-24 | PXD045034 | Pride
Apap Hepatotoxicity Paracetamol Necrosis 
ProteomicsHierarchical antagonistic regulatory elements in the TRPV4 intrinsically disordered N-terminus modulate lipid binding and channel activity through transient long-range interactions
Intrinsically disordered regions (IDRs) are important for the functional regulation of membrane receptors. Among the TRP Vanilloid channels involved in thermo- and osmosensation, TRPV4 features the largest N-terminal IDR of ~150 residues. Here, we elucidate the structural ensemble of the TRPV4 IDR t...
ORGANISM(S): Gallus gallus (Chicken) 
2023-08-01 | PXD038153 | Pride
Trp channel Integrated structural biology Intrinsically disordered protein Long-range communication Pip2 binding 
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