Zobrazeno 1 - 10
of 14
pro vyhledávání: '"Pavlína Pokorná"'
Autor:
Soňa Legartová, Gabriela Lochmanová, Zbyněk Zdráhal, Stanislav Kozubek, Jiří Šponer, Miroslav Krepl, Pavlína Pokorná, Eva Bártová
Publikováno v:
Cells, Vol 8, Iss 9, p 1097 (2019)
The family of heterochromatin protein 1 (HP1) isoforms is essential for chromatin packaging, regulation of gene expression, and repair of damaged DNA. Here we document that γ-radiation reduced the number of HP1α-positive foci, but not HP1β and HP1
Externí odkaz:
https://doaj.org/article/db6c1e9f9a5f46199bac09c13d72220f
Publikováno v:
The Journal of Physical Chemistry B. 126:9207-9221
RNA-protein complexes use diverse binding strategies, ranging from structurally well-defined interfaces to completely disordered regions. Experimental characterization of flexible segments is challenging and can be aided by atomistic molecular dynami
Publikováno v:
Nucleic acids research. 50(21)
Recognition of single-stranded RNA (ssRNA) by RNA recognition motif (RRM) domains is an important class of protein–RNA interactions. Many such complexes were characterized using nuclear magnetic resonance (NMR) and/or X-ray crystallography techniqu
Autor:
Christine von Schroetter, Fred F. Damberger, Dominik Theler, Miroslav Krepl, Frédéric H.-T. Allain, Jiří Šponer, Pavlína Pokorná
Background The YTH domain of YTHDC1 belongs to a class of protein “readers”, recognizing the N6-methyladenosine (m6A) chemical modification in mRNA. Static ensemble-averaged structures revealed details of N6-methyl recognition via a conserved aro
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::4c7de749724a444a1acbe14857a8fb0a
https://doi.org/10.1101/2021.02.08.430239
https://doi.org/10.1101/2021.02.08.430239
Autor:
Judit E. Šponer, Pavel Banáš, Miroslav Krepl, Petra Kührová, Pavlína Pokorná, Klaudia Mráziková, Vojtech Mlynsky, Holger Kruse, Michal Otyepka
Explicit solvent atomistic molecular dynamics (MD) simulations represent an established technique to study structural dynamics of RNA molecules and an important complement for diverse experimental methods. However, performance of molecular mechanical
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::2ab3e5b8a59958e171d5a0563f5a7983
https://doi.org/10.1101/2020.07.27.223826
https://doi.org/10.1101/2020.07.27.223826
Publikováno v:
Biochimica et biophysica acta. General subjects. 1865(1)
The chromodomain (CD) of HP1 proteins is an established H3K9We acquired ~350 μs of explicit solvent molecular dynamics (MD) simulations of the CD domain interacting with several peptides using the latest AMBER force fields.The simulations reproduced
Publikováno v:
Journal of Chemical Theory and Computation. 14:5419-5433
Although atomistic explicit-solvent Molecular Dynamics (MD) is a popular tool to study protein-RNA recognition, satisfactory MD description of protein-RNA complexes is not always achieved. Unfortunately, it is often difficult to separate MD simulatio
Publikováno v:
Journal of Chemical Theory and Computation. 13:5658-5670
The HutP protein from B. subtilis regulates histidine metabolism by interacting with an antiterminator mRNA hairpin in response to the binding of l-histidine and Mg2+. We studied the functional ligand-bound HutP hexamer complexed with two mRNAs using
Publikováno v:
Journal of chemical theory and computation. 15(10)
Human heterochromatin protein 1 (HP1) is a key factor in heterochromatin formation and maintenance. Its chromo-shadow domain (CSD) homodimerizes, and the HP1 dimer acts as a hub, transiently interacting with diverse binding partner (BP) proteins. We
Autor:
Zbyněk Zdráhal, Miroslav Krepl, Sofia Legartová, Eva Bártová, Gabriela Lochmanová, Jiří Šponer, Stanislav Kozubek, Pavlína Pokorná
Publikováno v:
Cells
Cells, Vol 8, Iss 9, p 1097 (2019)
Volume 8
Issue 9
Cells, Vol 8, Iss 9, p 1097 (2019)
Volume 8
Issue 9
The family of heterochromatin protein 1 (HP1) isoforms is essential for chromatin packaging, regulation of gene expression, and repair of damaged DNA. Here we document that &gamma
radiation reduced the number of HP1&alpha
positive foci, but
radiation reduced the number of HP1&alpha
positive foci, but