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112 results for “E3 Ligase”
Data accompanying "HSP70 inhibits CHIP E3 ligase activity to maintain germline function in Caenorhabditis elegans" article.
<p>This work was funded by the National Science Centre, Poland (grant PRELUDIUM number 2021/41/N/NZ1/03086) (to P.T.) and by the Deutsche Forschungsgemeinschaft (DFG; German Research Foundation) under Germany’s Excellence Strategy – EXC 2030 – 390661388 and – FOR 5504 – project number 496650118 (to T.H.). M.T.P. received support by the Cologne Graduate School of Aging Research. N.A.S., A.S., K.J., and M.N. were supported by the International Institute of Molecular and Cell Biology in Warsaw.</p>
Multi-body cryo-em maps and models of a pentameric KCTD5/Cullin3/Gβγ E3 ubiquitin ligase complex
<p>Heterotrimeric G proteins can be regulated by post-translational modifications, including ubiquitylation. KCTD5, a pentameric substrate receptor protein consisting of an N-terminal BTB domain and a C-terminal domain (CTD), engages CUL3 to form the central scaffold of a cullin-RING E3 ligase complex (CRL3<sup>KCTD5</sup>) that ubiquitylates Gβγ and reduces Gβγ protein levels in cells. The cryo-EM structure of a 5:5:5 KCTD5/CUL3<sup>NTD</sup>/Gβ<sub>1</sub>γ<sub>2</sub> assembly reveals a highly dynamic complex with rotations of over 60° between the KCTD5<sup>BTB</sup>/CUL3<sup>NTD</sup> and KCTD5<sup>CTD</sup>/Gβγ moieties of the structure. CRL3<sup>KCTD5</sup> engages the E3 ligase ARIH1 to ubiquitylate Gβγ in an E3-E3 super-assembly, and extension of the structure to include full-length CUL3<sup> </sup>with RBX1 and an ARIH1~ubiquitin conjugate reveals that some conformational states position the ARIH1~ubiquitin thioester bond to within 10 Å of lysine-23 of Gβ and likely represent priming complexes. Most previously described CRL/substrate structures have consisted of monovalent complexes and have involved flexible peptide substrates. The structure of the KCTD5/CUL3<sup>NTD</sup> Gβγ complex shows that the oligomerization of a substrate receptor can generate a polyvalent E3 ligase complex and that the internal dynamics of the substrate receptor can position a structured target for ubiquitylation in a CRL3 complex.</p>
Design and high-throughput implementation of MALDI-TOF/MS-based assays for Parkin E3 ligase activity
<p><strong>Summary</strong></p> <p><span>Parkinson’s disease (PD) is a progressive neurological disorder that manifests clinically as alterations in movement as well as multiple non-motor symptoms including but not limited to cognitive and autonomic abnormalities. Loss-of-function mutations in the gene encoding the ubiquitin E3 ligase Parkin are causal for familial and juvenile PD. Among several therapeutic approaches being explored to treat or improve PD patient’s prognosis, the use of small molecules able to reinstate or boost Parkin activity represents a potential pharmacological treatment strategy. A major barrier is the lack of high throughput platforms for the robust and accurate quantification of Parkin activity <em>in vitro</em>. Here we present two different and complementary Matrix Assisted Laser Desorption/Ionization-Time of Flight Mass Spectrometry (MALDI-TOF/MS) based approaches for the quantification of Parkin E3 ligase activity<em> in vitro</em>. Both approaches are scalable for high-throughput primary screening to facilitate the identification of Parkin modulators.</span></p>
MD Simulation Files for Dual BACH1 regulation by complementary SCF-type E3 ligases
<p>MD Simulation input files and analysis files for the SKP1-FBXO22/BACH1<sup>BTB</sup> complex, SKP1-FBXO22 by itself, BACH1<sup>BTB</sup>, and the BACH1<sup>BTB</sup> F9A mutant.</p>
Supplementary materials for "High-Throughput Discovery of Substrate Peptide Sequences for E3 Ubiquitin Ligases Using a cDNA Display Method."
<p>The next-generation sequencing (NGS) data of the 5th rounds' samples for LX9 library and p53deg library. The csv files contain DNA sequences read out, amino acid sequences and their read counts in descending order. </p>
Competitive binding of E3 ligases TRIM26 and WWP2 controls SOX2 in glioblastoma
<p>This repository contains proteomics data and 10x Genomics single-cell RNA sequencing data for "Competitive binding of E3 ligases TRIM26 and WWP2 controls SOX2 in glioblastoma." Proteomics data for three samples (one IgG control and two replicates of the SOX2 IP) is stored in the file ProteomicsData.zip. scRNAseq for four samples (from three tumors) is stored in a Seurat object (<a href="https://zenodo.org/api/files/2eac7284-dbc2-44d6-bd94-270ebc55a8c6/Cycling.SCT.PCA.UMAP.TSNE.CLUST.200522.rds">Cycling.SCT.PCA.UMAP.TSNE.CLUST.200522.rds</a>). Raw fastq files have been deposited in Annotare. As of 9/18/20, they are still in the curation stage.</p>
Dataset related to article Super-resolution study of PIAS SUMO E3-ligases in hippocampal and cortical neurons
<p>Immagini ottenute con la sim e il confocale dei neuroni ippocampali e corticali presenti nelle immagini. Grafici relativi ai coefficenti di localizzazione</p>
SIAH ubiquitin E3 ligases as modulators of inflammatory gene expression
GEO Series GSE179190. Homo sapiens. 8 samples. Type: Expression profiling by high throughput sequencing.
The E3 Ubiquitin Ligase Nedd4L Acts as a Checkpoint Against Activation in Quiescent Muscle Stem Cells
GEO Series GSE230622. Mus musculus. 19 samples. Type: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing.
GID/CTLH E3 ligase complex control cell fate programs for sexual development of Plasmodium falciparum
GEO Series GSE314126. Plasmodium falciparum. 1 samples. Type: Expression profiling by high throughput sequencing.
The SPOP-containing Complex Functions as an E3 Ligase for SETD2 to Regulate Gene-Specific H3K36me3-Coupled Alternative Splicing
GEO Series GSE75270. Homo sapiens. 18 samples. Type: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing.
MAEA is an E3 ubiquitin ligase promoting autophagy and maintenance of haematopoietic stem cells
GEO Series GSE133431. Mus musculus. 6 samples. Type: Expression profiling by high throughput sequencing.
UBR7 is a novel E3 ubiquitin ligase for H2BK120 and acts as a tumor-suppressor in breast cancer
GEO Series GSE93759. Homo sapiens. 22 samples. Type: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing.
The E3 Ubiquitin Ligase UBE3A Antagonizes Steatosis by Targeting the Pro-Steatotic Epigenetic Regulator MLL4 for Degradation
GEO Series GSE103553. Mus musculus. 8 samples. Type: Expression profiling by high throughput sequencing.
S. cerevisiae Mub1, a substrate adaptor of E3 ubiquitin ligase, modulates sensitivity to cell wall stressors through multiple transcription factors
GEO Series GSE267457. Saccharomyces cerevisiae. 8 samples. Type: Expression profiling by high throughput sequencing.
The AMBRA1 E3 ligase adaptor regulates the stability of cyclin D
GEO Series GSE146303. Mus musculus. 3 samples. Type: Other.
BRCT phosphoprotein recognition, but not E3 ligase activity, is essential for BRCA1 tumor suppression
GEO Series GSE31673. Mus musculus. 3 samples. Type: Genome variation profiling by genome tiling array.
CUL5 E3 ubiquitin ligase regulates the evasion of bladder cancer cells to CD8+ T cell-mediated killing by inhibiting autophagy
GEO Series GSE279149. Homo sapiens. 6 samples. Type: Expression profiling by high throughput sequencing.
RNF12 E3 ligase activity-dependent transcriptional profile in mouse embryonic stem cells
GEO Series GSE149554. Mus musculus. 9 samples. Type: Expression profiling by high throughput sequencing.
The AMBRA1 E3 ligase adaptor regulates Cyclin D protein stability [U937 cells]
GEO Series GSE146588. Homo sapiens. 6 samples. Type: Expression profiling by high throughput sequencing.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.