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Richard Stefl

Research Profile

Concepts & Ideas

Physiology

Genetic Transcription Termination

Chemicals & Drugs

Procedures

Nuclear Magnetic Resonance, Biomolecular

Activities & Behaviors

Computer Simulation

Phenomena

Living Beings

Saccharomyces cerevisiae

Co-author Network

Publications

TOP 3
Olga Jasnovidova; Richard Stefl
The CTD code of RNA polymerase II: a structural view.
Tomas Sikorsky; Fruzsina Hobor; Eva Krizanova; Karel Kubicek; Josef Pasulka; Richard Stefl
Recognition of asymmetrically dimethylated arginine by TDRD3.
Odil Porrua; Richard Stefl; Jocelyne Boulay; Yves d'Aubenton-Carafa; Rajani Kanth Gudipati; Fruzsina Hobor; Karel Kubicek; Domenico Libri
In vivo SELEX reveals novel sequence and structural determinants of Nrd1-Nab3-Sen1-dependent transcription termination.

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All Publications

2013: Olga Jasnovidova; Richard Stefl
The CTD code of RNA polymerase II: a structural view.
Wiley interdisciplinary reviews. RNA 2013;4(1):1-16.
2012: Tomas Sikorsky; Fruzsina Hobor; Eva Krizanova; Karel Kubicek; Josef Pasulka; Richard Stefl
Recognition of asymmetrically dimethylated arginine by TDRD3.
Nucleic acids research 2012;40(22):11748-55.
2012: Odil Porrua; Richard Stefl; Jocelyne Boulay; Yves d'Aubenton-Carafa; Rajani Kanth Gudipati; Fruzsina Hobor; Karel Kubicek; Domenico Libri
In vivo SELEX reveals novel sequence and structural determinants of Nrd1-Nab3-Sen1-dependent transcription termination.
The EMBO journal 2012;31(19):3935-48.
2012: Karel Kubicek; Frank Loehr; Josef Pasulka; Hana Cerna; Ctirad Hofr; Peter Holub; Dominika Hrossova; Stepanka Vanacova; Richard Stefl
Serine phosphorylation and proline isomerization in RNAP II CTD control recruitment of Nrd1.
Genes & development 2012;26(17):1891-6.
2012: Peter Holub; Kristyna Hrazdilova; Jana Lalakova; Josef Pasulka; Marie Sarazova; Richard Stefl; Maria Sanudo Arce; Hana Cerna; Fruzsina Hobor; Stepanka Vanacova
Air2p is critical for the assembly and RNA-binding of the TRAMP complex and the KOW domain of Mtr4p is crucial for exosome activation.
Nucleic acids research 2012;40(12):5679-93.
2011: Karel Kubíček; Frank Löhr; Josef Pasulka; Hana Černá; Richard Stefl
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 2011;5(2):203-5.
2011: Maria Sanudo; Martin Jacko; Christiane Rammelt; Stepanka Vanacova; Richard Stefl
1H, 13C, and 15N chemical shift assignments of ZCCHC9.
Biomolecular NMR assignments 2011;5(1):19-21.
2011: Fruzsina Hobor; Roberto Pergoli; Karel Kubicek; Dominika Hrossova; Veronika Bacikova; Michal Zimmermann; Josef Pasulka; Ctirad Hofr; Stepanka Vanacova; Richard Stefl
Recognition of transcription termination signal by the nuclear polyadenylated RNA-binding (NAB) 3 protein.
The Journal of biological chemistry 2011;286(5):3645-57.
2010: Richard Stefl; Florian C Oberstrass; Jennifer L Hood; Muriel Jourdan; Michal Zimmermann; Lenka Skrisovska; Christophe Maris; Li Peng; Ctirad Hofr; Ronald B Emeson; Frédéric H-T Allain
The solution structure of the ADAR2 dsRBM-RNA complex reveals a sequence-specific readout of the minor groove.
Cell 2010;143(2):225-37.
2010: Roberto Pergoli; Karel Kubicek; Fruzsina Hobor; Josef Pasulka; Richard Stefl
1H, 13C, and 15N chemical shift assignments for the RNA recognition motif of Nab3.
Biomolecular NMR assignments 2010;4(1):119-21.
2004: Eva Fadrná; Nad'a Spacková; Richard Stefl; Jaroslav Koca; Thomas E Cheatham; Jirí Sponer
Molecular dynamics simulations of Guanine quadruplex loops: advances and force field limitations.
Biophysical journal 2004;87(1):227-42.
2004: Richard Stefl; Haihong Wu; Sapna Ravindranathan; Vladimír Sklenár; Juli Feigon
DNA A-tract bending in three dimensions: solving the dA4T4 vs. dT4A4 conundrum.
Proceedings of the National Academy of Sciences of the United States of America 2004;101(5):1177-82.
2003: Richard Stefl; Thomas E Cheatham; Nad'a Spacková; Eva Fadrná; Imre Berger; Jaroslav Koca; Jirí Sponer
Formation pathways of a guanine-quadruplex DNA revealed by molecular dynamics and thermodynamic analysis of the substates.
Biophysical journal 2003;85(3):1787-804.
2003: Kamila Réblová; Nad'a Spacková; Richard Stefl; Kristina Csaszar; Jaroslav Koca; Neocles Leontis; Jirí Sponer
Non-Watson-Crick basepairing and hydration in RNA motifs: molecular dynamics of 5S rRNA loop E.
Biophysical journal 2003;84(6):3564-82.
2002: Petr Padrta; Richard Stefl; Lukás Králík; Lukás Zídek; Vladimír Sklenár
Refinement of d(GCGAAGC) hairpin structure using one- and two-bond residual dipolar couplings.
Journal of biomolecular NMR 2002;24(1):1-14.
2002: Lukás Trantírek; Richard Stefl; James E Masse; Juli Feigon; Vladimír Sklenár
Determination of the glycosidic torsion angles in uniformly 13C-labeled nucleic acids from vicinal coupling constants 3J(C2)/4-H1' and 3J(C6)/8-H1'.
Journal of biomolecular NMR 2002;23(1):1-12.
2001: K Csaszar; Nad'a Spacková; Richard Stefl; Jirí Sponer; Neocles Leontis
Molecular dynamics of the frame-shifting pseudoknot from beet western yellows virus: the role of non-Watson-Crick base-pairing, ordered hydration, cation binding and base mutations on stability and unfolding.
Journal of molecular biology 2001;313(5):1073-91.
2001: Lukás Zídek; Richard Stefl; Vladimír Sklenár
NMR methodology for the study of nucleic acids.
Current opinion in structural biology 2001;11(3):275-81.
2001: Richard Stefl; Lukás Trantírek; Michaela Vorlícková; Jaroslav Koca; Vladimír Sklenár; Jaroslav Kypr
A-like guanine-guanine stacking in the aqueous DNA duplex of d(GGGGCCCC).
Journal of molecular biology 2001;307(2):513-24.
2001: Richard Stefl; Nad'a Spacková; Imre Berger; Jaroslav Koca; Jirí Sponer
Molecular dynamics of DNA quadruplex molecules containing inosine, 6-thioguanine and 6-thiopurine.
Biophysical journal 2001;80(1):455-68.
2000: Lukás Trantírek; Richard Stefl; Michaela Vorlícková; Jaroslav Koca; Vladimír Sklenár; Jaroslav Kypr
An A-type double helix of DNA having B-type puckering of the deoxyribose rings.
Journal of molecular biology 2000;297(4):907-22.
1999: Richard Stefl; Eva Fadrná; Jaroslav Koca
Differences in conformational behavior of ATA and TAT sequences in single strand DNA trimer.
Journal of biomolecular structure & dynamics 1999;16(5):1087-95.