Prof. Richard Štefl, Ph.D.

Publications that are part of the Web of Science database, possibly also other publications chosen by authors.

2020

• 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

2019

• Brazda, P; Sedo, O; Kubicek, K; Stefl, R, 2019: Efficient and robust preparation of tyrosine phosphorylated intrinsically disordered proteins. BIOTECHNIQUES 67(1), p. 16 - 22, doi: 10.2144/btn-2019-0033

2017

• 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

2016

• Jasnovidova, O; Krejcikova, M; Kubicek, K; Stefl, R, 2016: Recognition of phosphorylated threonine-4 of RNA polymerase II C-terminal domain by 3 ´-end processing apparatus. FEBS JOURNAL 283, p. 208 - 209
• Kubicek, K; Krejcikova, M; Brazda, P; Smirakova, E; Novacek, J; Cramer, P; Stefl, R, 2016: What are the key aspects of interaction between RNA polymerase II C-terminal domain phosphorylated on tyrosine-1 and the elongation factors. FEBS JOURNAL 283, p. 21 - 21

2015

• 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
• 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

2014

• 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

2013

• 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

2012

• 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

2011

• 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
• Sanudo, M; Jacko, M; Rammelt, C; Vanacova, S; Stefl, R, 2011: H-1, C-13, and N-15 chemical shift assignments of ZCCHC9. BIOMOLECULAR NMR ASSIGNMENTS 5(1), p. 19 - 21, doi: 10.1007/s12104-010-9257-2
• Kubicek, K; Pasulka, J; Cerna, H; Lohr, F; Stefl, R, 2011: H-1, C-13, and N-15 resonance assignments for the CTD-interacting domain of Nrd1 bound to Ser5-phosphorylated CTD of RNA polymerase II. BIOMOLECULAR NMR ASSIGNMENTS 5(2), p. 203 - 205, doi: 10.1007/s12104-011-9300-y

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. 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
• Pergoli, R; Kubicek, K; Hobor, F; Pasulka, J; Stefl, R, 2010: H-1, C-13, and N-15 chemical shift assignments for the RNA recognition motif of Nab3. BIOMOLECULAR NMR ASSIGNMENTS 4(1), p. 119 - 121, doi: 10.1007/s12104-010-9221-1

• Fázová separace fosforylované RNA Polymerázy II, Grantová agentura ČR, 2021 - 2023
• CIISB - Česká infrastruktura pro integrativní strukturní biologii pro lidské zdraví (CZ.02.1.01/0.0/0.0/16_013/0001776), Ministerstvo školství, mládeže a tělovýchovy ČR, 2017 - 2021
• Molecular architecture of ADAR - RNA complexes (GA18-11397S), Grantová agentura ČR, 2018 - 2020
• DECOR (649030), Evropská unie, 2015 - 2020
• Centrum biologie RNA (GAP305/12/G034), Grantová agentura ČR, 2012 - 2018
• Molekulární podstata pro specifické rozpoznávání histonu H3K4me2 pomocí Set3 PHD domény (GA15-17670S), Grantová agentura ČR, 2015 - 2017
• Zásadní význam fosforylace YS. Studium interakce mezi CTD a transkripčním elongačním faktorem Spt6 (GA15-24117S), Grantová agentura ČR, 2015 - 2017
• Studium kódu CTD RNA polymerázy II (GA13-18344S), Grantová agentura ČR, 2013 - 2017
• Development of new interdisciplinary approaches to study function and regulation of transcriptome, Masarykova univerzita, 2014 - 2016
• Zaměstnáním nejlepších mladých vědců k rozvoji mezinárodní spolupráce (CZ.1.07/2.3.00/30.0037), Ministerstvo školství, mládeže a tělovýchovy ČR, 2013 - 2015
• Strukturní podstata ukončení transkripce nezávislé na poly(A) signálu (GAP305/10/1490), Grantová agentura ČR, 2010 - 2014
• Structural basis for transcription termination of nonpolyadenylated transcripts (IAA401630903), Akademie věd ČR, 2009 - 2011
• Structural studies of protein-RNA complexes involved in RNA quality control (GA204/08/1212), Howard Hughes Medical Institute, 2008 - 2010
• Structural studies of protein-RNA complexes involved in RNA quality control (1263), Howard Hughes Medical Institute, 2007 - 2009
• Structural studies of protein-RNA interactions involved in RNA quality control (CDA0049/2006), Human Frontier Science Program - Career Development Award, 2007 - 2009