Bussi G - Search Results

1

Molecular Simulations to Investigate the Impact of N6-Methylation in RNA Recognition: Improving Accuracy and Precision of Binding Free Energy Prediction.

Piomponi V, Krepl M, Sponer J, Bussi G. Piomponi V, et al. Among authors: bussi g. J Phys Chem B. 2024 Sep 19;128(37):8896-8907. doi: 10.1021/acs.jpcb.4c03397. Epub 2024 Sep 6. J Phys Chem B. 2024. PMID: 39240243

2

Barnaba: software for analysis of nucleic acid structures and trajectories.

Bottaro S, Bussi G, Pinamonti G, Reißer S, Boomsma W, Lindorff-Larsen K. Bottaro S, et al. Among authors: bussi g. RNA. 2019 Feb;25(2):219-231. doi: 10.1261/rna.067678.118. Epub 2018 Nov 12. RNA. 2019. PMID: 30420522 Free PMC article.

3

Ligand-induced stabilization of the aptamer terminal helix in the add adenine riboswitch.

Di Palma F, Colizzi F, Bussi G. Di Palma F, et al. Among authors: bussi g. RNA. 2013 Nov;19(11):1517-24. doi: 10.1261/rna.040493.113. Epub 2013 Sep 19. RNA. 2013. PMID: 24051105 Free PMC article.

4

Bowl inversion of surface-adsorbed sumanene.

Jaafar R, Pignedoli CA, Bussi G, Aït-Mansour K, Groening O, Amaya T, Hirao T, Fasel R, Ruffieux P. Jaafar R, et al. Among authors: bussi g. J Am Chem Soc. 2014 Oct 1;136(39):13666-71. doi: 10.1021/ja504126z. Epub 2014 Sep 18. J Am Chem Soc. 2014. PMID: 25181621

5

Hairpins participating in folding of human telomeric sequence quadruplexes studied by standard and T-REMD simulations.

Stadlbauer P, Kührová P, Banáš P, Koča J, Bussi G, Trantírek L, Otyepka M, Šponer J. Stadlbauer P, et al. Among authors: bussi g. Nucleic Acids Res. 2015 Nov 16;43(20):9626-44. doi: 10.1093/nar/gkv994. Epub 2015 Oct 3. Nucleic Acids Res. 2015. PMID: 26433223 Free PMC article.

6

Computer Folding of RNA Tetraloops: Identification of Key Force Field Deficiencies.

Kührová P, Best RB, Bottaro S, Bussi G, Šponer J, Otyepka M, Banáš P. Kührová P, et al. Among authors: bussi g. J Chem Theory Comput. 2016 Sep 13;12(9):4534-48. doi: 10.1021/acs.jctc.6b00300. Epub 2016 Aug 4. J Chem Theory Comput. 2016. PMID: 27438572 Free PMC article.

7

Free Energy Landscape of GAGA and UUCG RNA Tetraloops.

Bottaro S, Banáš P, Šponer J, Bussi G. Bottaro S, et al. Among authors: bussi g. J Phys Chem Lett. 2016 Oct 20;7(20):4032-4038. doi: 10.1021/acs.jpclett.6b01905. Epub 2016 Sep 28. J Phys Chem Lett. 2016. PMID: 27661094

8

Folding of guanine quadruplex molecules-funnel-like mechanism or kinetic partitioning? An overview from MD simulation studies.

Šponer J, Bussi G, Stadlbauer P, Kührová P, Banáš P, Islam B, Haider S, Neidle S, Otyepka M. Šponer J, et al. Among authors: bussi g. Biochim Biophys Acta Gen Subj. 2017 May;1861(5 Pt B):1246-1263. doi: 10.1016/j.bbagen.2016.12.008. Epub 2016 Dec 13. Biochim Biophys Acta Gen Subj. 2017. PMID: 27979677 Free article. Review.

9

Exploring the Dynamics of Propeller Loops in Human Telomeric DNA Quadruplexes Using Atomistic Simulations.

Islam B, Stadlbauer P, Gil-Ley A, Pérez-Hernández G, Haider S, Neidle S, Bussi G, Banas P, Otyepka M, Sponer J. Islam B, et al. Among authors: bussi g. J Chem Theory Comput. 2017 Jun 13;13(6):2458-2480. doi: 10.1021/acs.jctc.7b00226. Epub 2017 May 18. J Chem Theory Comput. 2017. PMID: 28475322 Free PMC article.

10

Molecular Dynamics Simulations Reveal an Interplay between SHAPE Reagent Binding and RNA Flexibility.

Mlýnský V, Bussi G. Mlýnský V, et al. Among authors: bussi g. J Phys Chem Lett. 2018 Jan 18;9(2):313-318. doi: 10.1021/acs.jpclett.7b02921. Epub 2018 Jan 4. J Phys Chem Lett. 2018. PMID: 29265824 Free PMC article.

Save citations to file

Email citations

Send citations to clipboard

Add to Collections

Add to My Bibliography

Create a file for external citation management software

Your saved search

Your RSS Feed

My Custom Filters

Publication date

Text availability

Article attribute

Article type

Article Language

Species

Sex

Age

Other

117 results

Search Page

Filters