Search results
- 1.0329244 - BFÚ 2010 RIV US eng J - Journal Article
Fadrná, E. - Špačková, Naďa - Sarzynska, J. - Koča, J. - Orozco, M. - Cheatham III, T.E. - Kulinski, T. - Šponer, Jiří
Single stranded loops of quadruplex DNA as key benchmark for testing nucleic acids force fields.
[Jednořetězcové smyčky DNA kvadruplexů jako klíčový benchmark pro testování silových polí pro nukleové kyseliny.]
Journal of Chemical Theory and Computation. Roč. 5, č. 9 (2009), s. 2514-2530. ISSN 1549-9618. E-ISSN 1549-9626
R&D Projects: GA MŠMT(CZ) LC06030; GA AV ČR(CZ) 1QS500040581; GA AV ČR(CZ) IAA400040802
Grant - others:GA ČR(CZ) GA203/09/1476
Program: GA
Institutional research plan: CEZ:AV0Z50040507; CEZ:AV0Z50040702
Keywords : DNA quadruplex * MD simulation * force fields
Subject RIV: BO - Biophysics
Impact factor: 4.804, year: 2009
Permanent Link: http://hdl.handle.net/11104/0175333 - 2.0126996 - BFU-R 20033079 RIV US eng J - Journal Article
Štefl, R. - Cheatham III, T. E. - Špačková, Naďa - Fadrná, E. - Berger, I. - Koča, J. - Šponer, Jiří
Formation pathways of a guanine-quadruplex DNA revealed by molecular dynamics and thermodynamic analysis of the substates.
Biophysical Journal. Roč. 85, č. 3 (2003), s. 1787-1804. ISSN 0006-3495. E-ISSN 1542-0086
R&D Projects: GA MŠMT LN00A016
Grant - others:National Science Foundation(US) CDA9601580; GA FRVŠ(CZ) G604; Wellcome Trust(GB) GR067507MF
Institutional research plan: CEZ:AV0Z5004920
Keywords : guanine quadruplex * quadruplex formation * molecular dynamics simulations
Subject RIV: BO - Biophysics
Impact factor: 4.463, year: 2003
Permanent Link: http://hdl.handle.net/11104/0025222 - 3.0104620 - BFU-R 20043002 RIV US eng J - Journal Article
Fadrná, E. - Špačková, Naďa - Štefl, R. - Koča, J. - Cheatham III, T. E. - Šponer, Jiří
Molecular dynamics simulations of guanine quadruplex loops: Advances and force field limitations.
[Simulace smyček guaninových kvadruplexů pomocí molekulové dynamiky: pokroky a omezení silových polí.]
Biophysical Journal. Roč. 87, č. 1 (2004), s. 227-242. ISSN 0006-3495. E-ISSN 1542-0086
R&D Projects: GA MŠMT LN00A016
Grant - others:Wellcome Trust(GB) GR067507MF
Institutional research plan: CEZ:AV0Z5004920
Keywords : quanine quadruplex * four-thymidine loop * locally enhanced sampling
Subject RIV: BO - Biophysics
Impact factor: 4.585, year: 2004
Permanent Link: http://hdl.handle.net/11104/0011886 - 4.0093336 - BFÚ 2008 RIV US eng J - Journal Article
Réblová, Kamila - Fadrná, E. - Sarzynska, J. - Kulinski, T. - Kulhánek, P. - Ennifar, E. - Koča, J. - Šponer, Jiří
Conformations of flanking bases in HIV-1 RNA DIS kissing complexes studied by molecular dynamics.
[Konformace volných bází v HIV-1 RNA DIS kissing loop komplexech studovaných molekulovou dynamikou.]
Biophysical Journal. Roč. 93, č. 11 (2007), s. 3932-3949. ISSN 0006-3495. E-ISSN 1542-0086
R&D Projects: GA MŠMT(CZ) LC06030; GA ČR(CZ) GA203/05/0009; GA ČR(CZ) GA203/05/0388; GA AV ČR(CZ) 1QS500040581
Institutional research plan: CEZ:AV0Z50040507; CEZ:AV0Z50040702
Keywords : molecular dynamics * RNA * virus
Subject RIV: BO - Biophysics
Impact factor: 4.627, year: 2007
Permanent Link: http://hdl.handle.net/11104/0153404