3,987 results match your criteria: "Institute of Organic Chemistry and Biochemistry[Affiliation]"
J Plant Physiol
December 2024
Research Centre for Plant Growth and Development, School of Life Sciences, University of KwaZulu-Natal, Pietermaritzburg, Private Bag X01, Scottsville 3209, South Africa. Electronic address:
Nat Commun
October 2024
Department of Biology and Ecology, Faculty of Natural Sciences, University of Ostrava, Chittussiho 10, Ostrava, Czech Republic.
J Chem Phys
October 2024
Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Flemingovo nám. 2, 16610 Prague 6, Czech Republic.
Chem Commun (Camb)
October 2024
Department of Chemistry and Chemical Biology, Indian Institute of Technology (ISM), Dhanbad, Jharkhand 826004, India.
An expedient route to 2-aminodihydrothiophenes and their seleno analogues is reported. A three-component photoredox reaction between alkene, thio(seleno)cyanate, and bromomalonate is employed, generating a carbo-thio(seleno)cyanate intermediate that undergoes a domino of reactions mediated by alumina column chromatography, leading to valuable chalcogen pharmacophores. Mechanistic investigations using DFT and control experiments reveals an intramolecular H-bond responsible for driving the domino forward.
View Article and Find Full Text PDFNat Commun
October 2024
Institute of Organic Chemistry and Biochemistry AS CR, v.v.i., Prague, Czech Republic.
The proteasome is a proteolytic enzyme complex essential for protein homeostasis in mammalian cells and protozoan parasites like Trichomonas vaginalis (Tv), the cause of the most common, non-viral sexually transmitted disease. Tv and other protozoan 20S proteasomes have been validated as druggable targets for antimicrobials. However, low yields and purity of the native proteasome have hindered studies of the Tv 20S proteasome (Tv20S).
View Article and Find Full Text PDFNat Genet
October 2024
Laboratory of Systems Biology and Genetics, Institute of Bioengineering, School of Life Sciences, École Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland.
Many enhancers control gene expression by assembling regulatory factor clusters, also referred to as condensates. This process is vital for facilitating enhancer communication and establishing cellular identity. However, how DNA sequence and transcription factor (TF) binding instruct the formation of high regulatory factor environments remains poorly understood.
View Article and Find Full Text PDFiScience
October 2024
Hybrid Porous Materials Laboratory, Department of Chemistry, Indian Institute of Technology Jammu, Jammu & Kashmir 181221, India.
The photocatalytic reduction of carbon dioxide (CO) into multi-electron carbon products remains challenging due to the inherent stability of CO and slow multi-electron transfer kinetics. Here in, we synthesized a hybrid material, cesium copper halide (CsCuI) intercalated onto two-dimensional (2D) cobalt-based zeolite framework (ZIF-9-III) nanosheets (denoted as CsCuI@ZIF-1) through a simple mechanochemical grinding. The synergy in the hybrid effectively reduces CO to carbon monoxide (CO) at 110 μmol/g/h and methane at 5 μmol/g/h with high selectivity, suppressing hydrogen evolution.
View Article and Find Full Text PDFBiol Chem
October 2024
Early Protein Supply and Characterization, Merck Healthcare KGaA, Frankfurter Straße 250, 64293 Darmstadt, Germany.
In this work, we report the development of a platform for the early selection of non-competitive antibody-fragments against cell surface receptors that do not compete for binding of their natural ligand. For the isolation of such subtype of blocking antibody-fragments, we applied special fluorescence-activated cell sorting strategies for antibody fragments isolation from yeast surface display libraries. Given that most of the monoclonal antibodies approved on the market are blocking ligand-receptor interactions often leading to resistance and/or side effects, targeting allosteric sites represents a promising mechanism of action to open new avenues for treatment.
View Article and Find Full Text PDFNucleic Acids Res
November 2024
Department of Cell Biology, Faculty of Science, Charles University, Viničná 7, Prague 12800, Czech Republic.
The ribosome, owing to its exceptional conservation, harbours a remarkable molecular fossil known as the protoribosome. It surrounds the peptidyl transferase center (PTC), responsible for peptide bond formation. While previous studies have demonstrated the PTC activity in RNA alone, our investigation reveals the intricate roles of the ribosomal protein fragments (rPeptides) within the ribosomal core.
View Article and Find Full Text PDFChemistry
December 2024
Institute of Organic Chemistry and Biochemistry, Academy of Sciences, Flemingovo náměstí 2, 16610, Prague, Czech Republic.
Quadruplexes formed by guanine derivatives or guanine-rich nucleic acids are involved in metabolism and genetic storage of many living organisms, they are used in DNA nanotechnologies or as biosensors. Since many quadruplex geometries are possible the determination of their structures in aqueous solutions is difficult. Raman optical activity (ROA) can make it easier: For guanosine monophosphate (GMP), we observed a distinct change of the spectra upon its condensation and quadruplex formation.
View Article and Find Full Text PDFiScience
October 2024
Institute of Organic Chemistry and Biochemistry of the Academy of Sciences of the Czech Republic, Flemingovo n. 2, 166 10 Prague, Czech Republic.
DDI2 is an aspartic protease that cleaves polyubiquitinated substrates. Upon proteotoxic stress, DDI2 activates the transcription factor TCF11/NRF1 (NFE2L1), crucial for maintaining proteostasis in mammalian cells, enabling the expression of rescue factors, including proteasome subunits. Here, we describe the consequences of DDI2 ablation and in cells.
View Article and Find Full Text PDFAngew Chem Int Ed Engl
September 2024
Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Flemingovo nám. 542/2, 160 00, Prague 6, Czech Republic.
Proc Natl Acad Sci U S A
October 2024
Department of Biotechnology, University of Chemistry and Technology, 166 28 Prague, Czech Republic.
We explored how a simple retrovirus, Mason-Pfizer monkey virus (M-PMV) to facilitate its replication process, utilizes DHX15, a cellular RNA helicase, typically engaged in RNA processing. Through advanced genetic engineering techniques, we showed that M-PMV recruits DHX15 by mimicking cellular mechanisms, relocating it from the nucleus to the cytoplasm to aid in viral assembly. This interaction is essential for the correct packaging of the viral genome and critical for its infectivity.
View Article and Find Full Text PDFACS Omega
September 2024
Faculty of Chemistry, Brno University of Technology (BUT), Purkyňova 118, Brno CZ-612 00, Czech Republic.
The anisotropic nature of charge transport through organic materials requires high control over the self-assembly of the organic materials. This is particularly so for conductive polymers, where transport occurs mainly along the polymers' backbone. Herein, we demonstrate the use of self-assembled monolayers (SAMs) to influence the self-assembly of poly(3-adamantylmethylthiophene).
View Article and Find Full Text PDFAnal Bioanal Chem
October 2024
Institute of Organic Chemistry and Biochemistry, University of Technology Darmstadt, Peter-Grünberg-Straße 4, 64287, Darmstadt, Germany.
Nat Protoc
September 2024
Virtual Multi-Omics Laboratory, The Internet, Riverside, CA, USA.
Feature-based molecular networking (FBMN) is a popular analysis approach for liquid chromatography-tandem mass spectrometry-based non-targeted metabolomics data. While processing liquid chromatography-tandem mass spectrometry data through FBMN is fairly streamlined, downstream data handling and statistical interrogation are often a key bottleneck. Especially users new to statistical analysis struggle to effectively handle and analyze complex data matrices.
View Article and Find Full Text PDFAngew Chem Int Ed Engl
September 2024
Institute of Organic Chemistry and Biochemistry of the CAS, Flemingovo nám. 2, 16000, Prague 6, Czech Republic.
Bioorthogonal reactions that enable switching molecular functions by breaking chemical bonds have gained prominence, with the tetrazine-mediated cleavage of trans-cyclooctene caged compounds (click-to-release) being particularly noteworthy for its high versatility, biocompatibility, and fast reaction rates. Despite several recent advances, the development of highly reactive tetrazines enabling quantitative elimination from trans-cyclooctene linkers remains challenging. In this study, we present the synthesis and application of sulfo-tetrazines, a class of derivatives featuring phenolic hydroxyl groups with increased acidity constants (pK).
View Article and Find Full Text PDFOpen Biol
September 2024
J. Heyrovský Institute of Physical Chemistry of the Czech Academy of Sciences, Dolejškova 2155/3 , 182 23 Prague 8, Czech Republic.
Calmodulin (CaM) is a ubiquitous calcium-sensitive messenger in eukaryotic cells. It was previously shown that CaM possesses an affinity for diverse lipid moieties, including those found on CaM-binding proteins. These facts, together with our observation that CaM accumulates in membrane-rich protrusions of HeLa cells upon increased cytosolic calcium, motivated us to perform a systematic search for unmediated CaM interactions with model lipid membranes mimicking the cytosolic leaflet of plasma membranes.
View Article and Find Full Text PDFCold Spring Harb Perspect Med
September 2024
Department of Pathology, Boston Children's Hospital, Harvard Medical School, Boston, Massachusetts 02115, USA
It is increasingly appreciated that cancer cells adapt their metabolic pathways to support rapid growth and proliferation as well as survival, often even under the poor nutrient conditions that characterize some tumors. Cancer cells can also rewire their metabolism to circumvent chemotherapeutics that inhibit core metabolic pathways, such as nucleotide synthesis. A critical approach to the study of cancer metabolism is metabolite profiling (metabolomics), the set of technologies, usually based on mass spectrometry, that allow for the detection and quantification of metabolites in cancer cells and their environments.
View Article and Find Full Text PDFProg Lipid Res
November 2024
Pôle Chimie Balard Recherche, Institut des Biomolécules Max Mousseron, IBMM UMR 5247, Univ. Montpellier, CNRS, ENSCM, 1919 route de Mende, 34293 Montpellier, Cedex 5, France.
Chemistry
October 2024
Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Flemingovo nám. 2, 160 00, Prague 6, Czech Republic.
Molecular platforms are essential components of various surface-mounted molecular devices. Here, we document the synthesis of two universal triptycene-based tripodal pedestals featuring terminal alkynes in the axial position. We showcase their versatility by incorporating them into the structures of diverse functional molecules such as unidirectional light-driven molecular motors, photoswitches, and Brownian molecular rotors using standard cross-coupling reactions.
View Article and Find Full Text PDFPLoS One
September 2024
Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Prague, Czech Republic.
Preptin, a 34-amino acid peptide derived from pro-IGF2, is believed to influence various physiological processes, including insulin secretion and the regulation of bone metabolism. Despite its recognized involvement, the precise physiological role of preptin remains enigmatic. To address this knowledge gap, we synthesized 16 analogs of preptin, spanning a spectrum from full-length forms to fragments, and conducted comprehensive comparative activity evaluations alongside native human, mouse and rat preptin.
View Article and Find Full Text PDFHeliyon
August 2024
Department of Paediatrics, Faculty of Medicine in Pilsen, Faculty Hospital, Charles University in Prague, Pilsen, Czech Republic.
Recent advances in endoscopic technology have allowed detailed observation of the gastric mucosa, including Raman microscopy and spectroscopy. To explore the possibilities for future diagnostic use, we discuss the measurements and molecular markers found in this tissue. The Raman spectra of 16 samples of antral mucosa and 16 samples of corpus gastric mucosa obtained from healthy donors were analysed.
View Article and Find Full Text PDFAngew Chem Int Ed Engl
September 2024
Institute of Applied Synthetic Chemistry, TU Wien, 1060, Vienna, Austria.
Bioorthogonal bond-cleavage reactions have emerged as a powerful tool for precise spatiotemporal control of (bio)molecular function in the biological context. Among these chemistries, the tetrazine-triggered elimination of cleavable trans-cyclooctenes (click-to-release) stands out due to high reaction rates, versatility, and selectivity. Despite an increasing understanding of the underlying mechanisms, application of this reaction remains limited by the cumulative performance trade-offs (i.
View Article and Find Full Text PDFJ Chem Inf Model
September 2024
Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Flemingovo nám. 542/2, CZ-16610 Prague 6, Czech Republic.
Glycosaminoglycans (GAGs) are negatively charged polysaccharides found on cell surfaces, where they regulate transport pathways of foreign molecules toward the cell. The structural and functional diversity of GAGs is largely attributed to varied sulfation patterns along the polymer chains, which makes understanding their molecular recognition mechanisms crucial. Molecular dynamics (MD) simulations, thanks to their unmatched microscopic resolution, have the potential to be a reference tool for exploring the patterns responsible for biologically relevant interactions.
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