Search results
- 1.0578599 - ÚOCHB 2024 RIV CH eng J - Journal Article
Tanaka, Y. - Yamanaka, D. - Morioka, S. - Yamaguchi, T. - Morikawa, M. - Kodama, T. S. - Sychrovský, Vladimír - Kojima, C. - Hattori, Y.
Physicochemical Characterization of the Catalytic Unit of Hammerhead Ribozyme and Its Relationship with the Catalytic Activity.
Biophysica. Roč. 2, č. 3 (2022), s. 221-239. E-ISSN 2673-4125
Institutional support: RVO:61388963
Keywords : hammerhead ribozyme * mechanism * pKa * pH-titration * NMR spectroscopy * G12 * G10.1
OECD category: Biophysics
Method of publishing: Open access
https://doi.org/10.3390/biophysica2030022
Permanent Link: https://hdl.handle.net/11104/0347566 - 2.0563450 - ÚOCHB 2023 RIV DE eng J - Journal Article
Curtis, Edward A.
Pushing the Limits of Nucleic Acid Function.
Chemistry - A European Journal. Roč. 28, č. 71 (2022), č. článku e202201737. ISSN 0947-6539. E-ISSN 1521-3765
R&D Projects: GA MŠMT(CZ) EF16_019/0000729
Institutional support: RVO:61388963
Keywords : aptamer * deoxyribozyme * in vitro selection * ribozyme * supernova deoxyribozyme
OECD category: Biochemistry and molecular biology
Impact factor: 4.3, year: 2022
Method of publishing: Open access
https://doi.org/10.1002/chem.202201737
Permanent Link: https://hdl.handle.net/11104/0335408 - 3.0544488 - ÚOCHB 2022 RIV GB eng J - Journal Article
Streckerová, Tereza - Kurfürst, Jaroslav - Curtis, Edward A.
Single-round deoxyribozyme discovery.
Nucleic Acids Research. Roč. 49, č. 12 (2021), s. 6971-6981. ISSN 0305-1048. E-ISSN 1362-4962
R&D Projects: GA ČR(CZ) GA19-20989S; GA MŠMT(CZ) EF16_019/0000729
Institutional support: RVO:61388963
Keywords : in-vitro selection * lead-dependent ribozyme * RNA aptamer
OECD category: Biochemistry and molecular biology
Impact factor: 19.160, year: 2021
Method of publishing: Open access
https://doi.org/10.1093/nar/gkab504
Permanent Link: http://hdl.handle.net/11104/0321332 - 4.0541893 - ÚOCHB 2022 RIV CH eng J - Journal Article
Sgallová, Ráchel - Curtis, Edward A.
Secondary Structure Libraries for Artificial Evolution Experiments.
Molecules. Roč. 26, č. 6 (2021), č. článku 1671. E-ISSN 1420-3049
R&D Projects: GA ČR(CZ) GA19-20989S; GA MŠMT(CZ) EF16_019/0000729
Institutional support: RVO:61388963
Keywords : SELEX * in vitro selection * aptamer * deoxyribozyme * ribozyme * artificial evolution * synthetic biology * DNA * RNA * nucleic acids * secondary structure
OECD category: Biochemistry and molecular biology
Impact factor: 4.927, year: 2021
Method of publishing: Open access
https://doi.org/10.3390/molecules26061671
Permanent Link: http://hdl.handle.net/11104/0319388 - 5.0486054 - BFÚ 2018 RIV US eng J - Journal Article
Mlýnský, V. - Kührová, P. - Jurečka, P. - Šponer, Jiří - Otyepka, M. - Banáš, Pavel
Mapping the Chemical Space of the RNA Cleavage and Its Implications for Ribozyme Catalysis.
Journal of Physical Chemistry B. Roč. 121, č. 48 (2017), s. 10828-10840. ISSN 1520-6106. E-ISSN 1520-5207
R&D Projects: GA ČR GAP208/12/1878
Institutional support: RVO:68081707
Keywords : delta-virus ribozyme * self-cleaving ribozymes
OECD category: Physical chemistry
Impact factor: 3.146, year: 2017
Permanent Link: http://hdl.handle.net/11104/0280942 - 6.0476273 - BFÚ 2018 RIV GB eng J - Journal Article
Šponer, Jiří - Krepl, Miroslav - Banáš, P. - Kührová, P. - Zgarbová, M. - Jurečka, P. - Havrila, Marek - Otyepka, M.
How to understand atomistic molecular dynamics simulations of RNA and protein-RNA complexes?
Wiley Interdisciplinary Reviews-RNA. Roč. 8, č. 3 (2017), č. článku e1405. ISSN 1757-7004. E-ISSN 1757-7012
R&D Projects: GA ČR(CZ) GBP305/12/G034
Grant - others:GA MŠk(CZ) LO1305
Institutional support: RVO:68081707
Keywords : hepatitis-delta-virus * amber force-field * free-energy landscape * hdv ribozyme
OECD category: Physical chemistry
Impact factor: 5.844, year: 2017
Permanent Link: http://hdl.handle.net/11104/0272813 - 7.0447582 - BFÚ 2016 RIV US eng J - Journal Article
Dubecký, M. - Walter, Nils G. - Šponer, Jiří - Otyepka, M. - Banáš, Pavel
Chemical Feasibility of the General Acid/Base Mechanism of glmS Ribozyme Self-Cleavage.
Biopolymers. Roč. 103, č. 10 (2015), s. 550-562. ISSN 0006-3525. E-ISSN 1097-0282
R&D Projects: GA MŠMT(CZ) ED1.1.00/02.0068; GA ČR(CZ) GAP208/12/1878
Institutional support: RVO:68081707
Keywords : MOLECULAR-DYNAMICS SIMULATIONS * ACTIVE-SITE GUANINE * HAIRPIN RIBOZYME
Subject RIV: BO - Biophysics
Impact factor: 2.248, year: 2015
Permanent Link: http://hdl.handle.net/11104/0249403 - 8.0435961 - BFÚ 2015 RIV US eng J - Journal Article
Šponer, Jiří - Banáš, P. - Jurečka, P. - Zgarbová, M. - Kührová, P. - Havrila, Marek - Krepl, Miroslav - Stadlbauer, Petr - Otyepka, M.
Molecular Dynamics Simulations of Nucleic Acids. From Tetranucleotides to the Ribosome.
Journal of Physical Chemistry Letters. Roč. 5, č. 10 (2014), s. 1771-1782. ISSN 1948-7185
R&D Projects: GA ČR(CZ) GAP208/12/1878
Institutional support: RVO:68081707
Keywords : DELTA-VIRUS RIBOZYME * AMBER FORCE-FIELD * REPLICA-EXCHANGE METHOD
Subject RIV: BO - Biophysics
Impact factor: 7.458, year: 2014
Permanent Link: http://hdl.handle.net/11104/0239809 - 9.0431756 - BFÚ 2015 RIV US eng J - Journal Article
Sripathi, K.N. - Tay, W.W. - Banáš, P. - Otyepka, M. - Šponer, Jiří - Walter, N. G.
Disparate HDV ribozyme crystal structures represent intermediates on a rugged free-energy landscape.
RNA. Roč. 20, č. 7 (2014), s. 1112-1128. ISSN 1355-8382. E-ISSN 1469-9001
R&D Projects: GA MŠMT(CZ) ED1.1.00/02.0068; GA ČR(CZ) GAP208/12/1878
Institutional support: RVO:68081707
Keywords : time-resolved FRET * steady-state FRET * small ribozyme
Subject RIV: BO - Biophysics
Impact factor: 4.936, year: 2014
Permanent Link: http://hdl.handle.net/11104/0236328 - 10.0428665 - BFÚ 2015 US eng J - Journal Article
Mlýnský, V. - Banáš, P. - Šponer, Jiří - van der Kamp, M.W. - Mulholland, A.J. - Otyepka, M.
Comparison of ab Initio, DFT, and Semiempirical QM/MM Approaches for Description of Catalytic Mechanism of Hairpin Ribozyme.
Journal of Chemical Theory and Computation. Roč. 10, č. 4 (2014), s. 1608-1622. ISSN 1549-9618. E-ISSN 1549-9626
R&D Projects: GA ČR(CZ) GAP208/12/1878; GA ČR(CZ) GBP301/11/P558; GA MŠMT(CZ) ED1.1.00/02.0068
Institutional support: RVO:68081707
Keywords : MOLECULAR-DYNAMICS SIMULATIONS * DELTA-VIRUS RIBOZYME * ACID-BASE CATALYSIS
Subject RIV: BO - Biophysics
Impact factor: 5.498, year: 2014
Permanent Link: http://hdl.handle.net/11104/0233987