Publications

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Kasiliauskaite, A; Kubicek, K; Klumpler, T; Zanova, M; Zapletal, D; Koutna, E; Novacek, J; Stefl, R, 2022: Cooperation between intrinsically disordered and ordered regions of Spt6 regulates nucleosome and Pol II CTD binding, and nucleosome assembly. NUCLEIC ACIDS RESEARCH 50(10), p. 5961 - 5973, doi: 10.1093/nar/gkac451
Zapletal, D; Taborska, E; Pasulka, J; Malik, R; Kubicek, K; Zanova, M; Much, C; Sebesta, M; Buccheri, V; Horvat, F; Jenickova, I; Prochazkova, M; Prochazka, J; Pinkas, M; Novacek, J; Joseph, DF; Sedlacek, R; Bernecky, C; O´Carroll, D; Stefl, R; Svoboda, P, 2022: Structural and functional basis of mammalian microRNA biogenesis by Dicer. MOLECULAR CELL 82(21), p. 4064 - +, doi: 10.1016/j.molcel.2022.10.010

Appel, LM; Franke, V; Bruno, M; Grishkovskaya, I; Kasiliauskaite, A; Kaufmann, T; Schoeberl, UE; Puchinger, MG; Kostrhon, S; Ebenwaldner, C; Sebesta, M; Beltzung, E; Mechtler, K; Lin, G; Vlasova, A; Leeb, M; Pavri, R; Stark, A; Akalin, A; Stefl, R; Bernecky, C; Djinovic-Carugo, K; Slade, D, 2021: PHF3 regulates neuronal gene expression through the Pol II CTD reader domain SPOC. NATURE COMMUNICATIONS 12(1), doi: 10.1038/s41467-021-26360-2

Han, Z; Jasnovidova, O; Haidara, N; Tudek, A; Kubicek, K; Libri, D; Stefl, R; Porrua, O, 2020: Termination of non-coding transcription in yeast relies on both an RNA Pol II CTD interaction domain and a CTD-mimicking region in Sen1. EMBO JOURNAL , doi: 10.15252/embj.2019101548
Brazda, P; Krejcikova, M; Kasiliauskaite, A; Smirakova, E; Klumpler, T; Vacha, R; Kubicek, K; Stefl, R, 2020: Yeast Spt6 Reads Multiple Phosphorylation Patterns of RNA Polymerase II C-Terminal Domain In Vitro. JOURNAL OF MOLECULAR BIOLOGY 432(14), p. 4092 - 4107, doi: 10.1016/j.jmb.2020.05.007

Jasnovidova, O; Krejcikova, M; Kubicek, K; Stefl, R, 2017: Structural insight into recognition of phosphorylated threonine-4 of RNA polymerase II C-terminal domain by Rtt103p. EMBO REPORTS 18(6), p. 906 - 913, doi: 10.15252/embr.201643723
Jasnovidova, O; Klumpler, T; Kubicek, K; Kalynych, S; Plevka, P; Stefl, R, 2017: Structure and dynamics of the RNAPII CTDsome with Rtt103. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 114(42), p. 11133 - 11138, doi: 10.1073/pnas.1712450114

Krepl, M; Havrila, M; Stadlbauer, P; Banas, P; Otyepka, M; Pasulka, J; Stefl, R; Sponer, J, 2015: Can We Execute Stable Microsecond-Scale Atomistic Simulations of Protein-RNA Complexes?. JOURNAL OF CHEMICAL THEORY AND COMPUTATION 11(3), p. 1220 - 1243, doi: 10.1021/ct5008108
Hrossova, D; Sikorsky, T; Potesil, D; Bartosovic, M; Pasulka, J; Zdrahal, Z; Stefl, R; Vanacova, S, 2015: RBM7 subunit of the NEXT complex binds U-rich sequences and targets 3 ´-end extended forms of snRNAs. NUCLEIC ACIDS RESEARCH 43(8), p. 4236 - 4248, doi: 10.1093/nar/gkv240

Tudek, A; Porrua, O; Kabzinski, T; Lidschreiber, M; Kubicek, K; Fortova, A; Lacroute, F; Vanacova, S; Cramer, P; Stefl, R; Libri, D, 2014: Molecular Basis for Coordinating Transcription Termination with Noncoding RNA Degradation. MOLECULAR CELL 55(3), p. 467 - 481, doi: 10.1016/j.molcel.2014.05.031
Bacikova, V; Pasulka, J; Kubicek, K; Stefl, R, 2014: Structure and semi-sequence-specific RNA binding of Nrd1. NUCLEIC ACIDS RESEARCH 42(12), p. 8024 - 8038, doi: 10.1093/nar/gku446

Jasnovidova, O; Stefl, R, 2013: The CTD code of RNA polymerase II: a structural view. WILEY INTERDISCIPLINARY REVIEWS-RNA 4(1), p. 1 - 16, doi: 10.1002/wrna.1138

Holub, P; Lalakova, J; Cerna, H; Pasulka, J; Sarazova, M; Hrazdilova, K; Arce, MS; Hobor, F; Stefl, R; Vanacova, S, 2012: 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 40(12), p. 5679 - 5693, doi: 10.1093/nar/gks223
Porrua, O; Hobor, F; Boulay, J; Kubicek, K; D´Aubenton-Carafa, Y; Gudipati, RK; Stefl, R; Libri, D, 2012: In vivo SELEX reveals novel sequence and structural determinants of Nrd1-Nab3-Sen1-dependent transcription termination. EMBO JOURNAL 31(19), p. 3935 - 3948, doi: 10.1038/emboj.2012.237
Sikorsky, T; Hobor, F; Krizanova, E; Pasulka, J; Kubicek, K; Stefl, R, 2012: Recognition of asymmetrically dimethylated arginine by TDRD3. NUCLEIC ACIDS RESEARCH 40(22), p. 11748 - 11755, doi: 10.1093/nar/gks929
Kubicek, K; Cerna, H; Holub, P; Pasulka, J; Hrossova, D; Loehr, F; Hofr, C; Vanacova, S; Stefl, R, 2012: Serine phosphorylation and proline isomerization in RNAP II CTD control recruitment of Nrd1. GENES & DEVELOPMENT 26(17), p. 1891 - 1896, doi: 10.1101/gad.192781.112

Hobor, F; Pergoli, R; Kubicek, K; Hrossova, D; Bacikova, V; Zimmermann, M; Pasulka, J; Hofr, C; Vanacova, S; Stefl, R, 2011: Recognition of Transcription Termination Signal by the Nuclear Polyadenylated RNA-binding (NAB) 3 Protein. JOURNAL OF BIOLOGICAL CHEMISTRY 286(5), p. 3645 - 3657, doi: 10.1074/jbc.M110.158774

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. Allaine, 2010: The solution structure of the ADAR2 dsRBM-RNA complex reveals a sequence-specific read out of the minor groove. CELL 143(2), p. 225 - 237, doi: 10.1016/j.cell.2010.09.026