doc. Mgr. Karel Kubíček, PhD.

Curriculum Vitae

Person-Related Identification Information

• Mgr. Karel Kubíček, Ph.D., 19.09.1977 in Valtice, married, 2 children

Department

• Department of Condensed Matter Physics
  Masaryk University
  Kotlářská 2
  611 37 Brno
  Czech Republic
   
  
• CEITEC - Central European Institute of Technology
  Structural Biology of Gene Regulation
  Kamenice 753/5
  625 00 Brno
   
  T: +420 549 49 3253
  M: +420 731 28 76 16
  F: +420 541 211 214
  E: karelk(AT)physics.muni.cz
      karel.kubicek(AT)ceitec.muni.cz

Employment - Position

• Associate Professor in Biophysics
  
• Researcher @Laboratory of Structural Biology of Gene Regulation (prof. Richard Štefl)

Education and Academic Qualifications

• 2020-present: Associate Professor in Biophysics
• 2018 (5 months): Scientific exchange within Twinning project (TWINFUSYON) Johannes Kepler University Linz, Austria (prof. Kurt Hingerl)
• 2008-present: Researcher in the laboratory of prof. Richard Štefl
• 2007-2020: Assistant Professor for Biophysics at the Dept. Condensed Matter Physics, Faculty of Science, Masaryk University, Brno, Czech Republic
• 2005–2007: Postdoctoral researcher at the Max-Planck-Institute for Biophysical Chemistry in Göttingen, Department of NMR-based Structural Biology; studies of ligand–target interactions by solution NMR in the group of Dr. Teresa Carlomagno and Prof. Christian Griesinger.)
• 2001–2004: International doctorate in structural biology, Magnetic Resonance Center (CERM) in Florence, Italy. Degree awarded by University of Florence, Italy. Topic of Thesis: NMR Characterization of Protein–Protein and Protein–Cofactor Interactions (Supervisor Prof.Lucia Banci)
• 1996–2001: Masaryk University, Faculty of Science, Department of Theoretical and Physical Chemistry, final exams passed in June 2001. Topic of Thesis: Application of Residual Dipolar Interactions for Structure Determination of Biomolecules (Supervisor Prof. Vladimír Sklenář)
• 1992–1996: Technical College of Chemistry in Brno, final exams passed in 1996

Grants

• 2015-2018 GAČR standard grant
• 2011-2013 OP Vzdělávání pro konkurenceschopnost: Reforma a rozvoj výuky Biofyziky pro potřeby 21. století
• 2008-2010 GAČR postdoctoral grant

Teaching Activities

• 2013-present Organisation of Biophysical competition (http://physics.muni.cz/biophys/souteze.shtml)
• 2008-present Mentoring students
• 2008-present Teaching activities (biophysics, practical and theoretical NMR spectroscopy, experimental techniques in biophysical research)

Scientific and Research Activities

• Electron microscopy, NMR spectroscopy, AFM microscopy, protein-protein interactions, drug-design, protein-ligand interactions, SAXS, fluorescent anisotropy, isothermal titration calorimetry, molecular dynamics, electron microscopy ...

University Activities

• 2021-2023 Academic Senate of the Masaryk University Brno, Czech Rep.
• 2018-2020 Academic Senate of the Masaryk University Brno, Czech Rep.
• 2015-2017 Academic Senate of the Masaryk University Brno, Czech Rep.
• 2008-2011 Academic Senate of the Faculty of Science of the Masaryk University Brno, Czech Rep.
• 1998–2001 Academic Senate of the Masaryk University Brno, Czech Rep.
• 1996–2001 Academic Senate of the Faculty of Science of the Masaryk University Brno, Czech Rep.

Activities Outside University

• The Board of Biophysics @University of South Bohemia

Awards Related to Science and Research

• 2006–2007 DAAD scholarship within the program “Modern Applications of Biotechnology”
• 2001 Special prize of the Czech chemical society for the “Best presentation” on the Student scientific competition
• 2001 Chemistry section prize
• 2000 I. prize in the Student scientific competition
• 2000 Chemistry section prize

Major Publications

• BRÁZDA, Pavel, Ondrej ŠEDO, Karel KUBÍČEK a Richard ŠTEFL. Efficient and robust preparation of tyrosine phosphorylated intrinsically disordered proteins. BioTechniques. UNITED HOUSE, 2 ALBERT PL, LONDON N3 1QB: FUTURE SCI LTD, 2019, roč. 67, č. 1, s. 16-22. ISSN 0736-6205. Dostupné z: https://dx.doi.org/10.2144/btn-2019-0033. URL info
• JASNOVIDOVA, Olga, Magdaléna KREJČÍKOVÁ, Karel KUBÍČEK a Richard ŠTEFL. Structural insight into recognition of phosphorylated threonine-4 of RNA polymerase II C-terminal domain by Rtt103p. EMBO reports. Hoboken: Wiley-Blackwell, 2017, roč. 18, č. 6, s. 906-913. ISSN 1469-221X. Dostupné z: https://dx.doi.org/10.15252/embr.201643723. URL info
• JASNOVIDOVA, Olga, Tomáš KLUMPLER, Karel KUBÍČEK, Sergei KALYNYCH, Pavel PLEVKA a Richard ŠTEFL. Structure and dynamics of the RNAPII CTDsome with Rtt103. Proceeding of the National Academy of Sciences of the USA. The Academy, 2017, roč. 114, č. 42, s. 11133-11138. ISSN 0027-8424. Dostupné z: https://dx.doi.org/10.1073/pnas.1712450114. URL info
• NEČASOVÁ, Ivona, Tomáš KLUMPLER, Karel KUBÍČEK a Ctirad HOFR. Revisiting the role of TRF2 basic domain in chromatin maintenance with the most recent structural and functional approaches. In EMBO Workshop Telomeric chromatin and telomere fragility. 2015. info
• BAČÍKOVÁ, Veronika, Josef PASULKA, Karel KUBÍČEK a Richard ŠTEFL. Structure and semi-sequence-specific RNA binding of Nrd1. Nucleic Acids Research. United Kingdom: Oxford University Press, 2014, roč. 42, č. 12, s. 8024-8038. ISSN 0305-1048. Dostupné z: https://dx.doi.org/10.1093/nar/gku446. URL info
• TUDEK, Agnieszka, Odil Porrua FUERTE, Tomasz KABZINSKI, Michael LIDSCHREIBER, Karel KUBÍČEK, Andrea FOŘTOVÁ, Francoise LACROUTE, Štěpánka VAŇÁČOVÁ, Patrick CRAMER, Richard ŠTEFL a Domenico LIBRI. Molecular Basis for Coordinating Transcription Termination with Noncoding RNA Degradation. Molecular Cell. CAMBRIDGE: CELL PRESS, 2014, roč. 55, č. 3, s. 467-481. ISSN 1097-2765. Dostupné z: https://dx.doi.org/10.1016/j.molcel.2014.05.031. URL info
• SUCHÁNKOVÁ, Tereza, Karel KUBÍČEK, Jana KAŠPÁRKOVÁ, Viktor BRABEC a Jiří KOZELKA. Platinum-DNA interstrand crosslinks: Molecular determinants of bending and unwinding of the double helix. Journal of Inorganic Biochemistry. New York, USA: Elsevier Science Inc, 2012, roč. 108, č. 1, s. 69-79. ISSN 0162-0134. Dostupné z: https://dx.doi.org/10.1016/j.jinorgbio.2011.09.025. info
• KUBÍČEK, Karel, Hana ČERNÁ, Peter HOLUB, Josef PASULKA, Dominika HROŠŠOVÁ, Frank LOEHR, Ctirad HOFR, Štěpánka VAŇÁČOVÁ a Richard ŠTEFL. Serine phosphorylation and proline isomerization in RNAP II CTD control recruitment of Nrd1. Genes & Development. New York: Cold Spring Harbor Laboratory Press, 2012, roč. 26, č. 17, s. 1891-1896. ISSN 0890-9369. Dostupné z: https://dx.doi.org/10.1101/gad.192781.112. URL info
• PORRUA-FUERTE, Odil, Fruzsina HÓBOR, Jocelyne BOULAY, Karel KUBÍČEK, Yves D’AUBENTON-CARAFA, Rajani Kanth GUDIPATI, Richard ŠTEFL a Domenico LIBRI. In vivo SELEX reveals novel sequence and structural determinants of Nrd1-Nab3-Sen1 dependent transcription termination. EMBO Journal. NEW YORK: NATURE PUBLISHING GROUP, 2012, roč. 31, č. 19, s. 3935-3948. ISSN 0261-4189. Dostupné z: https://dx.doi.org/10.1038/emboj.2012.237. URL info
• ŠIKORSKÝ, Tomáš, Fruzsina HÓBOR, Eva KRIŽANOVÁ, Josef PASULKA, Karel KUBÍČEK a Richard ŠTEFL. Recognition of asymmetrically dimethylated arginine by TDRD3. Nucleic Acids Research. Oxford: Oxford University Press, 2012, roč. 40, č. 22, s. 11748-11755. ISSN 0305-1048. Dostupné z: https://dx.doi.org/10.1093/nar/gks929. URL info
• HÓBOR, Fruzsina, Roberto PERGOLI, Karel KUBÍČEK, Dominika HROŠŠOVÁ, Veronika BAČÍKOVÁ, Michal ZIMMERMANN, Josef PASULKA, Ctirad HOFR, Štěpánka VAŇÁČOVÁ a Richard ŠTEFL. Recognition of transcription termination signal by the nuclear polyadenylated RNA-binding (Nab)3 protein. The Journal of Biological Chemistry. Am. Soc. for Biochem. and Mol. Biol., 2011, roč. 286, č. 5, s. 3645-3657. ISSN 0021-9258. Dostupné z: https://dx.doi.org/10.1074/jbc.M110.158774. info
• KUBÍČEK, Karel, Josef PASULKA, Hana ČERNÁ, Frank LÖHR a Richard ŠTEFL. 1H, 13C, and 15N resonance assignments for the CTD-Interacting Domain of Nrd1 bound to Ser5-phosphorylated CTD of RNA Polymerase II. Biomolecular NMR Assignments. Netherlands: Springer Netherlands, 2011, roč. 5, č. 2, s. 203-205. ISSN 1874-2718. Dostupné z: https://dx.doi.org/10.1007/s12104-011-9300-y. URL info
• KUBÍČEK, Karel, Jordan MONNET, Simone SCINTILLA, Jana KOPEČNÁ, Fabio ARNESANO, Lukáš TRANTÍREK, Claude CHOPARD, Giovanni NATILE a Jiří KOZELKA. Unusual Interstrand Pt(S,S-diaminocyclohexane)-GG Crosslink Formed by Rearrangement of a Classical Intrastrand Crosslink Within a DNA Duplex. Chemistry - An Asian Journal. WILEY-V C H VERLAG GMBH, 2010, roč. 5, č. 2, s. 244-247. ISSN 1861-4728. URL info
• PERGOLI, Roberto, Karel KUBÍČEK, Fruzsina HÓBOR, Josef PASULKA a Richard ŠTEFL. (1)H, (13)C, and (15)N chemical shift assignments for the RNA recognition motif of Nab3. Biomolecular NMR Assignments. UNITED STATES: SPRINGER, 2010, roč. 4, č. 1, s. 119-121. ISSN 1874-2718. Dostupné z: https://dx.doi.org/10.1007/s12104-010-9221-1. URL info
• KUBICEK, Karel, S. Kaspar GRIMM, Julien ORTS, Florenz SASSE a Teresa CARLOMAGNO. The Tubulin-Bound Structure of the Antimitotic Drug Tubulysin. Angewandte Chemie International Edition. Weinheim, Spolková republika Německo: Wiley-VCH Verlag GmbH & Co., 2010, roč. 49, č. 28, s. 4809-4812. ISSN 1433-7851. URL info
• REESE, Marcel, Victor M SANCHEZ-PEDREGAL, Karel KUBÍČEK, Jens MEILER, Marcel J BLOMMERS, Christian GRIESINGER a Teresa CARLOMAGNO. Structural basis of the activity of the microtubule-stabilizing agent epothilone a studied by NMR spectroscopy in solution. Angewandte Chemie International Edition. Weinheim: Wiley-VCH Verlag GmbH & Co., 2007, roč. 46, č. 11, s. 1864-1868. ISSN 1433-7851. URL info
• SANCHEZ-PEDREGAL, Victor M, Karel KUBÍČEK, Jens MEILER, Isabelle LYOTHIER, Ian PATERSON a Teresa CARLOMAGNO. The tubulin-bound conformation of discodermolide derived by NMR studies in solution supports a common pharmacophore model for epothilone and discodermolide. Angewandte Chemie International Edition. Weinheim: Wiley-VCH Verlag GmbH & Co., 2006, roč. 45, č. 44, s. 7388-7394. ISSN 1433-7851. URL info
• BANCI, Lucia, Ivano BERTINI, Simone CIOFI-BAFFONI, Efthalia KATSARI, Nikolaos KATSAROS, Karel KUBÍČEK a Stefano MANGANI. A copper(I) protein possibly involved in the assembly of CuA center of bacterial cytochrome c oxidase. Proceedings of the National Academy of Sciences of the USA. Washington, 2005, roč. 102, č. 11, s. 3994-3999. ISSN 0027-8424. URL info
• BANCI, Lucia, Ivano BERTINI, Isabella C FELLI, Ludwig KRIPPAHL, Karel KUBÍČEK, Jose J MOURA a Antonio ROSATO. A further investigation of the cytochrome b5-cytochrome c complex. Journal of Biological Inorganic Chemistry. Heidelberg: Springer Verlag, 2003, roč. 8, č. 7, s. 777-786. ISSN 0949-8257. URL info

2021/06/07