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Akademický článek

In-cell NMR suggests that DNA i-motif levels are strongly depleted in living human cells

Autor: Pavlína Víšková, Eva Ištvánková, Jan Ryneš, Šimon Džatko, Tomáš Loja, Martina Lenarčič Živković, Riccardo Rigo, Roberto El-Khoury, Israel Serrano-Chacón, Masad J. Damha, Carlos González, Jean-Louis Mergny, Silvie Foldynová-Trantírková, Lukáš Trantírek

Publikováno v: Nature Communications, Vol 15, Iss 1, Pp 1-12 (2024)

Abstract I-Motifs (iM) are non-canonical DNA structures potentially forming in the accessible, single-stranded, cytosine-rich genomic regions with regulatory roles. Chromatin, protein interactions, and intracellular properties seem to govern iM forma

Externí odkaz: https://doaj.org/article/dccb82735cd744549a5a5749aaeca993

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Akademický článek

Dishevelled-3 conformation dynamics analyzed by FRET-based biosensors reveals a key role of casein kinase 1

Publikováno v: Nature Communications, Vol 10, Iss 1, Pp 1-18 (2019)

Dishevelled (DVL) is the key component of Wnt signaling pathway that acts as a signaling hub. Here, authors study the conformational dynamics of DVL3 in vivo using their engineered FlAsH-based FRET biosensors and describe how Wnt activation opens DVL

Externí odkaz: https://doaj.org/article/c656ec6d84244ea4ba47e39232d91995

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Composite 5-methylations of cytosines modulate i-motif stability in a sequence-specific manner: Implications for DNA nanotechnology and epigenetic regulation of plant telomeric DNA

Autor: Jiří Fajkus, Michaela Vorlíčková, Miloslava Fojtová, Lukáš Trantírek, Jean-Louis Mergny, Silvie Foldynová-Trantírková, Jan Ryneš, Radek Marek, Jiří Šponer, Petra Školáková, Zahra Badri

Publikováno v: Biochimica et Biophysica Acta (BBA)-General Subjects

Background The i-motif is a tetrameric DNA structure based on the formation of hemiprotonated cytosine-cytosine (C+.C) base pairs. i-motifs are widely used in nanotechnology. In biological systems, i-motifs are involved in gene regulation and in cont

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::91f3aaf8a4e1a6946c31a79e3ed2baac

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Advances in the cellular structural biology of nucleic acids

Autor: Ilektra-Chara Giassa, Jan Ryneš, Tomas Fessl, Lukáš Trantírek, Silvie Foldynová-Trantírková

Publikováno v: FEBS Letters

Conventional biophysical and chemical biology approaches for delineating relationships between the structure and biological function of nucleic acids (NAs) abstract NAs from their native biological context. However, cumulative experimental observatio

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::935c840475978ffb8cf922d2a300f581
https://doi.org/10.1002/1873-3468.13054

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G-quadruplex formation in the Oct4 promoter positively regulates Oct4 expression

Autor: Silvie Foldynová-Trantírková, Lukáš Trantírek, Michaela Vorlíčková, Michael Andäng, Jan Ryneš, Daniel Renčiuk, Iva Kejnovská

Publikováno v: Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms. 1860:175-183

The Oct4 gene codes for a transcription factor that plays a critical role in the maintenance of pluripotency in embryonic and cancer stem cells. Its expression thus has to be tightly regulated. We performed biophysical characterization of the promote

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6987621127bb72edac1a510732f5812f
https://doi.org/10.1016/j.bbagrm.2016.11.002

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Elucidation of protein-protein interactions necessary for maintenance of the BCR-ABL signaling complex

Autor: Bohumil Fafilek, Silvie Foldynová-Trantírková, Tomas Gregor, Lukáš Trantírek, Sara P. Abraham, Pavel Krejci, Michaela Bosakova, Jiri Mayer, Alexandru Nita, Jan Ryneš, Nicole H. Cernohorsky

Approximately 50% of chronic myeloid leukemia (CML) patients in deep remission experience a return of clinical CML after withdrawal of tyrosine kinase inhibitors (TKIs). This suggests signaling of inactive BCR-ABL, which allows for survival of cancer

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::e525f3133f2826972c48b5b83b55c1e2
https://doi.org/10.1101/684480

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Elucidation of protein interactions necessary for the maintenance of the BCR-ABL signaling complex

Autor: Nicole H. Cernohorsky, Silvie Foldynová-Trantírková, Bohumil Fafilek, Daniela Zackova, Lukáš Trantírek, Alexandru Nita, Jan Ryneš, Sara P. Abraham, Jiri Mayer, Michaela Bosakova, Tomas Gregor, Pavel Krejci

Publikováno v: Cellular and molecular life sciences : CMLS. 77(19)

Many patients with chronic myeloid leukemia in deep remission experience return of clinical disease after withdrawal of tyrosine kinase inhibitors (TKIs). This suggests signaling of inactive BCR-ABL, which allows the survival of cancer cells, and rel

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::be5fdbd70c1dc04b10a836a03d8f4437
https://pubmed.ncbi.nlm.nih.gov/31820037

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Dishevelled-3 conformation dynamics analyzed by FRET-based biosensors reveals a key role of casein kinase 1

Publikováno v: Nature Communications, Vol 10, Iss 1, Pp 1-18 (2019)
Nature Communications

Dishevelled (DVL) is the key component of the Wnt signaling pathway. Currently, DVL conformational dynamics under native conditions is unknown. To overcome this limitation, we develop the Fluorescein Arsenical Hairpin Binder- (FlAsH-) based FRET in v

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::b5af2d2100c7aaed0c7ee83d894e2a39
https://doi.org/10.1038/s41467-019-09651-7

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Analysis of binding interfaces of the human scaffold protein AXIN1 by peptide microarrays

Autor: Silvie Foldynová-Trantírková, Jakub Harnoš, Lukáš Trantírek, Lola Bajard-Ešner, Jan Ryneš, Vítězslav Bryja, Pavlína Víšková

Intrinsically disordered regions (IDRs) are protein regions that lack persistent secondary or tertiary structure under native conditions. IDRs represent >40% of the eukaryotic proteome and play a crucial role in protein–protein interactions. The cl

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::d407dab4aee37932221c401b3524fbc3
https://europepmc.org/articles/PMC6200943/

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Cbf11 and Cbf12, the fission yeast CSL proteins, play opposing roles in cell adhesion and coordination of cell and nuclear division

Autor: František Půta, Petr Folk, Martin Převorovský, Jana Staňurová, Tomáš Groušl, Jan Ryneš, Wolfgang Nellen

Publikováno v: Experimental cell research. 315(8)

The CSL (CBF1/RBP-Jkappa/Suppressor of Hairless/LAG-1) family is comprised of transcription factors essential for metazoan development, mostly due to their involvement in the Notch receptor signaling pathway. Recently, we identified two novel classes

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::191af3c71dbe018e30b2a3960dfb78b6
https://pubmed.ncbi.nlm.nih.gov/19101542

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