Search results
- 1.0580275 - ÚOCHB 2025 RIV GB eng J - Journal Article
Osifová, Zuzana - Kalvoda, Tadeáš - Galgonek, Jakub - Culka, Martin - Vondrášek, Jiří - Bouř, Petr - Bednárová, Lucie - Andrushchenko, Valery - Dračínský, Martin - Rulíšek, Lubomír
What are the minimal folding seeds in proteins? Experimental and theoretical assessment of secondary structure propensities of small peptide fragments.
Chemical Science. Roč. 15, č. 2 (2024), s. 594-608. ISSN 2041-6520. E-ISSN 2041-6539
R&D Projects: GA ČR(CZ) GA23-05940S; GA ČR(CZ) GA22-33060S
Research Infrastructure: e-INFRA CZ II - 90254
Institutional support: RVO:61388963
Keywords : vibrational circular dichroism * spin coupling constants * conformational propensities
OECD category: Physical chemistry
Impact factor: 8.4, year: 2022
Method of publishing: Open access
https://doi.org/10.1039/D3SC04960D
Permanent Link: https://hdl.handle.net/11104/0349025 - 2.0560534 - ÚOCHB 2023 RIV US eng J - Journal Article
Kalvoda, Tadeáš - Culka, Martin - Rulíšek, Lubomír - Andris, Erik
Exhaustive Mapping of the Conformational Space of Natural Dipeptides by the DFT-D3//COSMO-RS Method.
Journal of Physical Chemistry B. Roč. 126, č. 32 (2022), s. 5949-5958. ISSN 1520-6106. E-ISSN 1520-5207
R&D Projects: GA ČR(CZ) GA20-08772S; GA MŠMT(CZ) EF16_019/0000729
Research Infrastructure: e-INFRA CZ - 90140
Institutional support: RVO:61388963
Keywords : protein structure * alanine * energy
OECD category: Physical chemistry
Impact factor: 3.3, year: 2022
Method of publishing: Limited access
https://doi.org/10.1021/acs.jpcb.2c02861
Permanent Link: https://hdl.handle.net/11104/0333407
Research data: Figshare - 3.0556929 - ÚOCHB 2023 RIV SE eng J - Journal Article
Tupec, Michal - Culka, Martin - Machara, Aleš - Macháček, Stanislav - Bím, Daniel - Svatoš, Aleš - Rulíšek, Lubomír - Pichová, Iva
Understanding desaturation/hydroxylation activity of castor stearoyl Δ9-Desaturase through rational mutagenesis.
Computational and Structural Biotechnology Journal. Roč. 20, March (2022), s. 1378-1388. ISSN 2001-0370. E-ISSN 2001-0370
R&D Projects: GA MŠMT(CZ) LTAUSA19148; GA MŠMT(CZ) LM2015064; GA MŠMT(CZ) EF16_019/0000729
Institutional support: RVO:61388963
Keywords : Δ9 desaturase * methane monooxygenase * reaction mechanism * proton transfer * desaturation * hydroxylation
OECD category: Biochemistry and molecular biology
Impact factor: 6, year: 2022
Method of publishing: Open access
https://doi.org/10.1016/j.csbj.2022.03.010
Permanent Link: http://hdl.handle.net/11104/0331046 - 4.0556188 - ÚOCHB 2023 RIV GB eng J - Journal Article
Kipouros, I. - Stanczak, Agnieszka - Culka, Martin - Andris, Erik - Machonkin, T. R. - Rulíšek, Lubomír - Solomon, E. I.
Evidence for H-bonding interactions to the μ-η2:η2-peroxide of oxy-tyrosinase that activate its coupled binuclear copper site.
Chemical Communications. Roč. 58, č. 24 (2022), s. 3913-3916. ISSN 1359-7345. E-ISSN 1364-548X
R&D Projects: GA MŠMT(CZ) LTAUSA19148
Research Infrastructure: IT4Innovations - 90070
Institutional support: RVO:61388963
Keywords : absorption fine structure * hemocyanins * spectroscopy * binding
OECD category: Physical chemistry
Impact factor: 4.9, year: 2022
Method of publishing: Limited access
https://doi.org/10.1039/D2CC00750A
Permanent Link: http://hdl.handle.net/11104/0331028 - 5.0552067 - ÚOCHB 2023 RIV US eng J - Journal Article
Bím, Daniel - Navrátil, Michal - Gutten, Ondrej - Konvalinka, Jan - Kutil, Zsofia - Culka, Martin - Navrátil, Václav - Alexandrova, A. N. - Bařinka, Cyril - Rulíšek, Lubomír
Predicting Effects of Site-Directed Mutagenesis on Enzyme Kinetics by QM/MM and QM Calculations: A Case of Glutamate Carboxypeptidase II.
Journal of Physical Chemistry B. Roč. 126, č. 1 (2022), s. 132-143. ISSN 1520-6106. E-ISSN 1520-5207
R&D Projects: GA MŠMT(CZ) LTAUSA19148; GA ČR(CZ) GA18-14167S; GA ČR(CZ) GJ19-22269Y
Institutional support: RVO:61388963 ; RVO:86652036
Keywords : monoamine-oxidase B * reaction mechanism * membrane antigen
OECD category: Physical chemistry
Impact factor: 3.3, year: 2022
Method of publishing: Limited access
https://doi.org/10.1021/acs.jpcb.1c09240
Permanent Link: http://hdl.handle.net/11104/0327224 - 6.0542023 - ÚOCHB 2022 RIV US eng J - Journal Article
Culka, Martin - Kalvoda, Tadeáš - Gutten, Ondrej - Rulíšek, Lubomír
Mapping Conformational Space of All 8000 Tripeptides by Quantum Chemical Methods: What Strain Is Affordable within Folded Protein Chains?
Journal of Physical Chemistry B. Roč. 125, č. 1 (2021), s. 58-69. ISSN 1520-6106. E-ISSN 1520-5207
R&D Projects: GA ČR(CZ) GA20-08772S
Institutional support: RVO:61388963
Keywords : protein structure * quantum chemistry * energy
OECD category: Physical chemistry
Impact factor: 3.466, year: 2021
Method of publishing: Limited access
https://doi.org/10.1021/acs.jpcb.0c09251
Permanent Link: http://hdl.handle.net/11104/0319519
Research data: OSF - 7.0531531 - ÚOCHB 2021 RIV US eng J - Journal Article
Benoni, Roberto - Culka, Martin - Hudeček, Oldřich - Gahurová, L. - Cahová, Hana
Dinucleoside Polyphosphates as RNA Building Blocks with Pairing Ability in Transcription Initiation.
ACS Chemical Biology. Roč. 15, č. 7 (2020), s. 1765-1772. ISSN 1554-8929. E-ISSN 1554-8937
R&D Projects: GA MŠMT(CZ) LL1603
Institutional support: RVO:61388963
Keywords : RNA caps * transcription Initiation * dinucleoside polyphosphates
OECD category: Biochemistry and molecular biology
Impact factor: 5.100, year: 2020
Method of publishing: Open access
https://doi.org/10.1021/acschembio.0c00178
Permanent Link: http://hdl.handle.net/11104/0310167 - 8.0525592 - ÚOCHB 2021 RIV US eng J - Journal Article
Bím, Daniel - Chalupský, Jakub - Culka, Martin - Solomon, E. I. - Rulíšek, Lubomír - Srnec, M.
Proton–Electron Transfer to the Active Site Is Essential for the Reaction Mechanism of Soluble Δ9-Desaturase.
Journal of the American Chemical Society. Roč. 142, č. 23 (2020), s. 10412-10423. ISSN 0002-7863. E-ISSN 1520-5126
R&D Projects: GA MŠMT(CZ) EF16_019/0000729; GA ČR(CZ) GJ20-06451Y; GA MŠMT(CZ) LTAUSA19148
Institutional support: RVO:61388963
Keywords : 2nd order perturbation theory * density functional theory * carrier protein desaturase
OECD category: Physical chemistry
Impact factor: 15.419, year: 2020
Method of publishing: Limited access
https://pubs.acs.org/doi/10.1021/jacs.0c01786
Permanent Link: http://hdl.handle.net/11104/0309704 - 9.0524184 - ÚOCHB 2021 RIV US eng J - Journal Article
Culka, Martin - Rulíšek, Lubomír
Interplay between Conformational Strain and Intramolecular Interaction in Protein Structures: Which of Them Is Evolutionarily Conserved?
Journal of Physical Chemistry B. Roč. 124, č. 16 (2020), s. 3252-3260. ISSN 1520-6106. E-ISSN 1520-5207
R&D Projects: GA ČR(CZ) GA20-08772S
Institutional support: RVO:61388963
Keywords : folding transition state * long-range interactions * secondary structure
OECD category: Physical chemistry
Impact factor: 2.991, year: 2020
Method of publishing: Limited access
https://pubs.acs.org/doi/10.1021/acs.jpcb.9b11784
Permanent Link: http://hdl.handle.net/11104/0308553 - 10.0522578 - ÚOCHB 2021 RIV GB eng J - Journal Article
Hudeček, Oldřich - Benoni, Roberto - Reyes Gutierrez, Paul Eduardo - Culka, Martin - Šanderová, Hana - Hubálek, Martin - Rulíšek, Lubomír - Cvačka, Josef - Krásný, Libor - Cahová, Hana
Dinucleoside polyphosphates act as 5′-RNA caps in bacteria.
Nature Communications. Roč. 11, Feb 26 (2020), č. článku 1052. E-ISSN 2041-1723
R&D Projects: GA MŠMT(CZ) LL1603; GA ČR(CZ) GA17-03419S
Institutional support: RVO:61388963 ; RVO:61388971
Keywords : diadenosine tetraphosphate * nudix hydrolase * RNA polymerase * dinucleoside polyphosphates * RNA caps
OECD category: Biochemistry and molecular biology; Microbiology (MBU-M)
Impact factor: 14.919, year: 2020
Method of publishing: Open access
https://www.nature.com/articles/s41467-020-14896-8
Permanent Link: http://hdl.handle.net/11104/0307050