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  • 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, 111 RIVER ST, HOBOKEN 07030-5774,NJ, USA: WILEY-BLACKWELL, 2017. ISSN 1469-221X. doi:10.15252/embr.201643723. 
  • 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. doi.org/10.1093/nar/gku446.
  • JASNOVIDOVA, Olga a Richard ŠTEFL. The CTD code of RNA polymerase II: a structural view. Wiley Interdisciplinary Reviews: RNA, Hoboken, USA: WILEY-BLACKWELL, 2013, roč. 4, č. 1, s. 1-16. ISSN 1757-7004. doi:10.1002/wrna.1138.
  • 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. doi:10.1101/gad.192781.112.  
  • 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. doi:10.1093/nar/gks929.  
  • 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. doi:10.1074/jbc.M110.158774. 
  • VAŇÁČOVÁ, Štěpánka a Richard ŠTEFL. The exosome and RNA quality control in the nucleus. EMBO REPORTS, Nature Publishing Group, London, UK: Nature Publishing Group, London, UK, 2007, roč. 8, č. 7, s. 651-657. ISSN 1469-221X. doi:10.1038/sj.embor.7401005
  • ŠTEFL, Richard, Ming XU, Lenka SKŘÍŠOVSKÁ, Ron EMESON a Frederic ALLAIN. Structure and Specific RNA Binding of ADAR2 Double-Stranded RNA Binding Motifs. Structure, 2006, roč. 14, č. 2, s. 345–355. ISSN 0969-2126. doi.org/10.1016/j.str.2005.11.013.
  • OBERSTRASS, Florian, Albert LEE, Richard ŠTEFL, Michael JANIS, Guillaume CHANFREAU a Frederic ALLAIN. Shape-specific recognition in the structure of the Vts1p SAM domain with RNA. NATURE STRUCTURAL & MOLECULAR BIOLOGY, 2006, roč. 13, č. 2, s. 160-167. ISSN 1545-9985. doi:10.1038/nsmb1038.
  • ŠTEFL, Richard. "Lock and key" recognition in the world of protein-RNA interactions: How ADAR2 binds RNA. USA: xxx, 2006. xxx.
  • ŠTEFL, Richard. "Lock and key" recognition in the world of protein-RNA interactions: How ADAR2 binds RNA. In xxx. Croatia: xxxx, 2006. s. 36.

  • ŠTEFL, Richard. RNA recognition by the ADAR2 dsRBMs. In Meeting of Internationat Resarch Scholars. USA: Howard Hughes Medical Institute, 2006. s. 71-153. 

  • ŠTEFL, Richard a Frederic ALLAIN. A novel RNA pentaloop fold involved in targeting ADAR2. RNA, 2005, roč. 11, č. 5, s. 592-597. ISSN 1355-8382. doi:10.1261/rna.7276805

  • ŠTEFL, Richard, Lenka SKŘÍŠOVSKÁ, Ming XU, Ron EMESON a Frederic ALLAIN. Resonance assignments of the double-stranded RNA-binding of adenosine deaminase acting on RNA 2 (ADAR2). JOURNAL OF BIOMOLECULAR NMR, 2005, roč. 31, č. 1, s. 71-72. ISSN 0925-2738. doi:10.1007/s10858-004-6058-x
  • ŠTEFL, Richard, Lenka SKŘÍŠOVSKÁ a Frederic ALLAIN. RNA sequence- and shape-dependent recognition by proteins in the ribonucleoprotein particle. EMBO REPORTS, 2005, roč. 6, č. 1, s. 33-38. ISSN 1469-221X. doi: 10.1038/sj.embor.7400325
  • ŠTEFL, Richard, Haihong WU, Sapna RAVINDRANATHAN, Vladimír SKLENÁŘ a Juli FEIGON. DNA A-tract bending in three dimensions: Solving the dA4T4 vs. dT4A4 conundrum. Proceedings of the National Academy of Sciences of the U.S.A., 2004, roč. 101, č. 5, s. 1171-1176. ISSN 0027-8424. doi.org/10.1073/pnas.0308143100
  • FADRNÁ, Eva, Naděžda ŠPAČKOVÁ, Richard ŠTEFL, Jaroslav KOČA, Thomas E. CHEATHAM a Jiří ŠPONER. Molecular dynamics simulations of guanine quadruplex loops:Advances and force field limitations. Biophysical Journal, Bethesda, USA: Biophysical Society, 2004, roč. 87, č. 1, s. 227-242. ISSN 0006-3495. doi.org/10.1529/biophysj.103.034751
  • RÉBLOVÁ, Kamila, Nadezda SPACKOVÁ, Richard STEFL, Kristina CSASZAR, Jaroslav KOCA, Neocles LEONTIS a Jiri SPONER. Non-Watson-Crick Basepairing and Hydration in RNA Motifs:. Biophysical Journal, New York, USA: Rockefeller University, 2003, roč. 84, č. 6, s. 3564-3582. ISSN 0006-3465. doi: 10.1016/S0006-3495(03)75089-9
  • ŠTEFL, Richard, Thomas E. CHEATHAM, Naděžda ŠPAČKOVÁ, Eva FADRNÁ, Imre BERGER, Jaroslav KOČA a Jiří ŠPONER. Formation Pathways of a Guanine-Quadruplex DNA Revealed by Molecular Dynamics and Thermodynamics Analysis of the Substates. Biophysical Journal, Bethesda, USA: Biophysical Society, 2003, roč. 85, č. 3, s. 1787-1804. ISSN 0006-3495. doi.org/10.1016/S0006-3495(03)74608-6
  • TRANTÍREK, Lukáš, Richard ŠTEFL, James MASSE, Juli FEIGON a Vladimír SKLENÁŘ. Determination of the glycosidic torsion angels in uniformly C-13 labeled nucleic acids from vicinal coupling constants 3J(C2/4-H1') and 3J(C6/8-H1'). Journal of Biomolecular NMR, Dordrecht: Kluwer/Escom, 2002, roč. 23, č. 1, s. 1-12. ISSN 0925-2738. doi: 10.1023/A:1015389118506
  • PADRTA, Petr, Richard ŠTEFL, Lukáš KRÁLÍK, Lukáš ŽÍDEK a Vladimír SKLENÁŘ. Refinement of d(GCGAAGC) hairpin structure using one- and two-bond residual dipolar couplings. Journal of Biomolecular NMR, Dordrecht: Kluwer/Escom, 2002, roč. 24, č. 1, s. 1-14. ISSN 0925-2738.
  • RÉBLOVÁ, Kamila, Naděžda ŠPAČKOVÁ, Richard ŠTEFL, Kristina CSASZAR, Jaroslav KOČA, Neocles LEONTIS a Jiří ŠPONER. Molecular dynamics of the 5S rRNA loop E. In Chemometrics. Brno: Chemometrics VI., 2002. s. 18-18, 1 s.  
  • ŽÍDEK, Lukáš, Richard ŠTEFL a Vladimír SKLENÁŘ. NMR methodology for the study of nucleic acids. Current Opinion in Structural Biology, London: Elsevier Science Ltd., 2001, roč. 11, č. 3, s. 275-281. ISSN 0959-440X.  
  • CSASZAR, Kristina, Naděžda ŠPAČKOVÁ, Richard ŠTEFL, Jiří ŠPONER a Neocles B. 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, London: Academic Press, 2001, roč. 313, č. 5, s. 1073-1091. ISSN 0022-2836. doi.org/10.1006/jmbi.2001.5100
  • ​ŠTEFL, Richard, Naděžda ŠPAČKOVÁ, Imre BERGER, Jaroslav KOČA a Jiří ŠPONER. Molecular dynamics of DNA quadruplex molecules containing inosine, 6-thioguanine and 6-thiopurine. Biophysical Journal, Bethesda, USA: Biophysical Society, 2001, roč. 80, č. 1, s. 455-468. ISSN 0006-3495. doi.org/10.1016/S0006-3495(01)76028-6
  • TRANTÍREK, Lukáš, Richard ŠTEFL, Michalea VORLÍČKOVÁ, Jaroslav KOČA, Vladimír SKLENÁŘ a Jaroslav KYPR. An A-type Double Helix of DNA Having B-type Puckering of the Deoxyribose Rings. Journal of Molecular Biology, USA: Academic Press, 2000, roč. 297, č. 4, s. 907-922. ISSN 0022-2836. doi.org/10.1006/jmbi.2000.3592
  • TRANTÍREK, Lukáš, Milan URBÁŠEK, Richard ŠTEFL, Juli FEIGON a Vladimír SKLENÁŘ. A Method for Direct Determination of Helical Parameters in Nucleic Acids Using Residual Dipolar Couplings. Journal of the American Chemical Society, Washington, D.C.: American Chemical Society, 2000, roč. 122, č. 42, s. 10454-10455. ISSN 0002-7863. doi:10.1021/ja0015702
  • ŠTEFL, Richard a Jaroslav KOČA. Unrestrained Molecular Dynamics Simulations of d(AT5]2 Duplex in Aqueous Solution: Hydration and Sodium Ions Binding in the Minor Groove. Journal of the American Chemical Society, Washington, D.C.: American Chemical Society, 2000, roč. 122, č. 22, s. 5025-5033. ISSN 0002-7863. doi: 10.1021/ja9912170
  • ŠTEFL, Richard, Eva FADRNÁ a Jaroslav KOČA. Differences in Conformational Behavior of ATA and TAT Sequences in Single Strand DNA Trimer. Journal of Biomolecular Structure and Dynamics, USA: Adenine Press, 1999, roč. 16, č. 5, s. 1087-1095. ISSN 0739-1102. doi.org/10.1080/07391102.1999.10508317
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2026

  • Klapstova, V; Sedova, K; Houser, J; Sebesta, M, 2026: . JOURNAL OF BIOLOGICAL CHEMISTRY 302(1), doi: 10.1016/j.jbc.2025.111010

2025

  • Dikunova, A; Noskova, N; Overbeck, JH; Polak, M; Stelzig, D; Zapletal, D; Kubicek, K; Novacek, J; Sprangers, R; Stefl, R, 2025: . STRUCTURE 33(2), doi: 10.1016/j.str.2024.11.010

2024

  • Linhartova, K; Falginella, FL; Matl, M; Sebesta, M; Vacha, R; Stefl, R, 2024: . NATURE COMMUNICATIONS 15(1), doi: 10.1038/s41467-024-53305-2
  • Keown, J; Baazaoui, A; Sebesta, M; Stefl, R; Carrique, L; Fodor, E; Grimes, JM, 2024: . JOURNAL OF VIROLOGY , doi: 10.1128/jvi.00138-24
  • Ishemgulova, A; Mukhamedova, L; Trebichalská, Z; Rájecká, V; Payne, P; Smerdová, L; Moravcová, J; Hrebik, D; Buchta, D; Skubnik, K; Füzik, T; Vanácová, S; Novacek, J; Plevka, P, 2024: . COMMUNICATIONS BIOLOGY 7(1), doi: 10.1038/s42003-024-07147-9
  • Gybel, T; Cada, S; Klementová, D; Schwalm, MP; Berger, BT; Sebesta, M; Knapp, S; Bryja, V, 2024: . JOURNAL OF BIOLOGICAL CHEMISTRY 300(7), doi: 10.1016/j.jbc.2024.107407
  • Long, QL; Ajit, K; Sedova, K; Haluza, V; Stefl, R; Dokaneheifard, S; Beckedorff, F; Valencia, MG; Sebesta, M; Shiekhattar, R; Gullerova, M, 2024: . NUCLEIC ACIDS RESEARCH 52(21), doi: 10.1093/nar/gkae937

2023

  • Papageorgiou, AC; Pospisilova, M; Cibulka, J; Ashraf, R; Waudby, CA; Kaderávek, P; Maroz, V; Kubicek, K; Prokop, Z; Krejci, L; Tripsianes, K, 2023: . NATURE COMMUNICATIONS 14(1), doi: 10.1038/s41467-023-42503-z
  • Hasanova, Z; Klapstova, V; Porrua, O; Stefl, R; Sebesta, M, 2023: . NUCLEIC ACIDS RESEARCH , doi: 10.1093/nar/gkad092
  • Zapletal, D; Kubicek, K; Svoboda, P; Stefl, R, 2023: . EMBO REPORTS 24(7), doi: 10.15252/embr.202357215

2022

  • Kasiliauskaite, A; Kubicek, K; Klumpler, T; Zanova, M; Zapletal, D; Koutna, E; Novacek, J; Stefl, R, 2022: . 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: . MOLECULAR CELL 82(21), p. 4064 - +, doi: 10.1016/j.molcel.2022.10.010

2021

  • 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: . NATURE COMMUNICATIONS 12(1), doi: 10.1038/s41467-021-26360-2

2020

  • Han, Z; Jasnovidova, O; Haidara, N; Tudek, A; Kubicek, K; Libri, D; Stefl, R; Porrua, O, 2020: . EMBO JOURNAL , doi: 10.15252/embj.2019101548
  • Brazda, P; Krejcikova, M; Kasiliauskaite, A; Smirakova, E; Klumpler, T; Vacha, R; Kubicek, K; Stefl, R, 2020: . 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: . BIOTECHNIQUES 67(1), p. 16 - 22, doi: 10.2144/btn-2019-0033

2017

  • Jasnovidova, O; Krejcikova, M; Kubicek, K; Stefl, R, 2017: . 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: . 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: . FEBS JOURNAL 283, p. 208 - 209
  • Kubicek, K; Krejcikova, M; Brazda, P; Smirakova, E; Novacek, J; Cramer, P; Stefl, R, 2016: . FEBS JOURNAL 283, p. 21 - 21

2015

  • Hrossova, D; Sikorsky, T; Potesil, D; Bartosovic, M; Pasulka, J; Zdrahal, Z; Stefl, R; Vanacova, S, 2015: . 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: . JOURNAL OF CHEMICAL THEORY AND COMPUTATION 11(3), p. 1220 - 1243, doi: 10.1021/ct5008108

2014

  • Bacikova, V; Pasulka, J; Kubicek, K; Stefl, R, 2014: . NUCLEIC ACIDS RESEARCH 42(12), p. 8024 - 8038, doi: 10.1093/nar/gku446
  • Tudek, A; Porrua, O; Kabzinski, T; Lidschreiber, M; Kubicek, K; Fortova, A; Lacroute, F; Vanacova, S; Cramer, P; Stefl, R; Libri, D, 2014: . MOLECULAR CELL 55(3), p. 467 - 481, doi: 10.1016/j.molcel.2014.05.031

2013

  • Jasnovidova, O; Stefl, R, 2013: . WILEY INTERDISCIPLINARY REVIEWS-RNA 4(1), p. 1 - 16, doi: 10.1002/wrna.1138

2012

  • Kubicek, K; Cerna, H; Holub, P; Pasulka, J; Hrossova, D; Loehr, F; Hofr, C; Vanacova, S; Stefl, R, 2012: . GENES & DEVELOPMENT 26(17), p. 1891 - 1896, doi: 10.1101/gad.192781.112
  • Holub, P; Lalakova, J; Cerna, H; Pasulka, J; Sarazova, M; Hrazdilova, K; Arce, MS; Hobor, F; Stefl, R; Vanacova, S, 2012: . NUCLEIC ACIDS RESEARCH 40(12), p. 5679 - 5693, doi: 10.1093/nar/gks223
  • Sikorsky, T; Hobor, F; Krizanova, E; Pasulka, J; Kubicek, K; Stefl, R, 2012: . NUCLEIC ACIDS RESEARCH 40(22), p. 11748 - 11755, doi: 10.1093/nar/gks929
  • Porrua, O; Hobor, F; Boulay, J; Kubicek, K; D'Aubenton-Carafa, Y; Gudipati, RK; Stefl, R; Libri, D, 2012: . EMBO JOURNAL 31(19), p. 3935 - 3948, doi: 10.1038/emboj.2012.237

2011

  • Hobor, F; Pergoli, R; Kubicek, K; Hrossova, D; Bacikova, V; Zimmermann, M; Pasulka, J; Hofr, C; Vanacova, S; Stefl, R, 2011: . JOURNAL OF BIOLOGICAL CHEMISTRY 286(5), p. 3645 - 3657, doi: 10.1074/jbc.M110.158774

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: . CELL 143(2), p. 225 - 237, doi: 10.1016/j.cell.2010.09.026

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