Unfolding - OmicsDI

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Organisms

Mus musculus (48)
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CHEBI ID

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Metabolite Name

TAG 59:12 (15:0/22:6/22:6) (2)
TAG 55:7 (15:0/18:1/22:6) (2)
TAG 55:6 (15:0/18:0/22:6) (2)
TAG 55:1 (15:0/18:1/22:0) (2)
TAG 51:5 (15:0/18:1/18:4) (2)
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TAG 51:2 (15:0/18:1/18:1) (2)
TAG 49:1 (15:0/16:0/18:1) (2)
TAG 48:1 (14:0/16:0/18:1) (2)
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4-methylcytidine (2)
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Modelling Approach

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Lab affiliation

Wageningen University (5)
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Analytics Core Facility Essen (ACE), Chemische Biologie, Universität Duisburg-Essen, ZMB, Germany (2)
Dept. of Molecular and Cellular Biology, University of Geneva (2)
University of Konstanz, Department of Biology, Biophysics & Structural Biology, Germany (2)
1) Structural and Computational Biology Unit, EMBL Heidelberg, Meyerhofstraße 1, 69117, Heidelberg, Germany 2) Chair of Biochemistry IV, Biophysical Chemistry, University of Bayreuth, Bayreuth, Germany (1)
Assistant Professor Department of Chemisty University of South Florida Tampa, FL. USA. (1)
Assistant Professor, Department of Chemistry Assistant Professor, Department of Biology (by courtesy) Assistant Professor, Thomas C. Jenkins Department of Biophysics (by courtesy) Preceptor, Chemistry-Biology Interface (CBI) Program (1)
Assistant Professor, Department of Chemistry Assistant Professor, Thomas C. Jenkins Department of Biophysics (by courtesy) (1)
Bavarian Center for Biomolecular Mass Spectrometry (BayBioMS), Technical University of Munich (TUM), Freising, Germany (1)
Biomedicine Discovery Institute, Department of Biochemistry and Molecular Biology, Monash University, Clayton VIC 3800, Australia (1)
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Chemistry Department, Duke University (1)
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Clemens Schöpf Institute, Department of Chemistry, Technical University of Darmstadt, Peter-Grünberg-Straße 4, 64287 Darmstadt, Germany (1)
Dalian Institute of Chemical Physics, CAS (1)
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Department of Biochemistry and Molecular Biology, Center for Mechanical Excitability, Institute for Biophysical Dynamics, Prizker School for Molecular Engineering, The University of Chicago, Chicago, Illinois, USA (1)
Department of Biochemistry and Molecular Biology, Section for Biomedical Mass Spectrometry and Systems Biology, University of Southern Denmark (1)
Department of Biochemistry and Molecular Biology, University of Chicago (1)
Department of Biochemistry and Pharmacology, Bio21 Institute, University of Melbourne (1)
Department of Cell Biology, Harvard Medical School (1)
Department of Cellular Biochemistry, Max Planck Institute of Biochemistry, Am Klopferspitz 18, 82152 Martinsried, Germany (1)
Department of Chemistry and Biochemistry, UC Merced & Department of Chemistry, Syracuse University (1)
Department of Chemistry, Johns Hopkins University, Baltimore, Maryland, United States (1)
Department of Chemistry, University of Oxford Oxford, UK; Department of Pharmacology, University of Oxford, Oxford, UK; The Rosalind Franklin Institute, Oxfordshire, UK (1)
Department of Molecular Medicine, University of Padua, via A. Gabelli 63, 35121 Padua, Italy (1)
Department of Pharmaceutical Sciences, School of Pharmacy, University of Maryland, Baltimore (1)

Keyword

Colonoscopy (1)

IsPrivate

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Classification

bacteria (3)

Study type

Transcription profiling by array (21)
RNA-seq of coding RNA (8)
Other (4)
ChIP-seq (4)
RNA-seq of non coding RNA (3)
ChIP-chip by tiling array (2)
Cell line - High-throughput sequencing (1)
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Interventional (1)

Release Date

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Visualization of the Cdc48 AAA+ ATPase protein unfolding pathway: Substrate Identification

The Cdc48 AAA+ ATPase is an abundant and essential enzyme that unfolds substrates in multiple protein quality control pathways. The enzyme includes two conserved AAA+ ATPase cassettes, D1 and D2, that assemble as hexameric rings with D1 stacked above D2. Here, we report an ensemble of structures of ...

ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast)

2024-10-17 | PXD048280 | Pride

Human Shp1 pulldown

Unfolding the inactive X chromosome

PRJNA478454 | ENA

Genome-wide probing of RNA structure reveals active unfolding of mRNA structures in vivo

We present an approach for globally monitoring RNA structure in native conditions in vivo with single nucleotide precision. This method is based on in vivo modification with dimethyl sulfate (DMS), which reacts with unpaired adenine and cytosine residues9, followed by deep sequencing to monitor modi...

ORGANISM(S): Homo sapiens

2013-12-15 | E-GEOD-45803 | biostudies-arrayexpress

Modular DNA origami compartments for the engineering of a protein unfolding and degradation pathway

Within the cell, chemical reactions are often confined and organized through a modular architecture. In this project, a cell-free nanoscale model of the proteasome was analyzed that exploits this compartmentalization principle to perform regulated protein unfolding and degradation. To this end, the ...

ORGANISM(S): Homo sapiens (Human)

2024-07-25 | PXD050816 | Pride

Directional degradation Dna origami compartments Nanofactories

ANGPTL3/8 is an atypical unfoldase that regulates intravascular lipolysis by catalyzing unfolding of lipoprotein lipase as measured by hydrogen/deuterium exchange mass spectrometry (HDX-MS)

Lipoprotein lipase (LPL) carries out the lipolytic processing of triglyceride-rich lipoproteins (TRL) along the luminal surface of capillaries. LPL activity is regulated by angiopoietin-like proteins (ANGPTL3, ANGPTL4, and ANGPTL8), which control the delivery of TRL-derived lipid nutrients to tissue...

ORGANISM(S): Bos taurus (Bovine) Homo sapiens (Human)

2025-03-26 | PXD060125 | Pride

Gpihbp1 Angptl3/8 Lipoprotein lipase Intravascular lipolysis Hdx-ms

Epigenetic regulation by dynamic RNA G-quadruplex folding and unfolding (CHART-Seq)

PRJNA907001 | ENA

Epigenetic regulation by dynamic RNA G-quadruplex folding and unfolding (RNA-Seq)

PRJNA907003 | ENA

Epigenetic regulation by dynamic RNA G-quadruplex folding and unfolding (ChIP-Seq)

PRJNA907002 | ENA

Epigenetic regulation by dynamic RNA G-quadruplex folding and unfolding (DMS-Seq)

PRJNA907004 | ENA

Structural and biochemical insights into RNA unfolding by a chaperone machine