Vondrášek J - Search Results

1

A systematic method for analysing the protein hydration structure of T4 lysozyme.

Kysilka J, Vondrášek J. Kysilka J, et al. Among authors: vondrasek j. J Mol Recognit. 2013 Oct;26(10):479-87. doi: 10.1002/jmr.2290. J Mol Recognit. 2013. PMID: 23996490

2

Analysis of energy stabilization inside the hydrophobic core of rubredoxin.

Berka K, Hobza P, Vondrásek J. Berka K, et al. Among authors: vondrasek j. Chemphyschem. 2009 Feb 23;10(3):543-8. doi: 10.1002/cphc.200800401. Chemphyschem. 2009. PMID: 19170065

3

Towards a better understanding of the specificity of protein-protein interaction.

Kysilka J, Vondrášek J. Kysilka J, et al. Among authors: vondrasek j. J Mol Recognit. 2012 Nov;25(11):604-15. doi: 10.1002/jmr.2219. J Mol Recognit. 2012. PMID: 23108620

4

Unexpectedly strong energy stabilization inside the hydrophobic core of small protein rubredoxin mediated by aromatic residues: correlated ab initio quantum chemical calculations.

Vondrásek J, Bendová L, Klusák V, Hobza P. Vondrásek J, et al. J Am Chem Soc. 2005 Mar 2;127(8):2615-9. doi: 10.1021/ja044607h. J Am Chem Soc. 2005. PMID: 15725017

5

Performance of the DFT-D method, paired with the PCM implicit solvation model, for the computation of interaction energies of solvated complexes of biological interest.

Riley KE, Vondrásek J, Hobza P. Riley KE, et al. Among authors: vondrasek j. Phys Chem Chem Phys. 2007 Nov 7;9(41):5555-60. doi: 10.1039/b708089a. Epub 2007 Sep 5. Phys Chem Chem Phys. 2007. PMID: 17957311

6

Identifying stabilizing key residues in proteins using interresidue interaction energy matrix.

Bendová-Biedermannová L, Hobza P, Vondrásek J. Bendová-Biedermannová L, et al. Among authors: vondrasek j. Proteins. 2008 Jul;72(1):402-13. doi: 10.1002/prot.21938. Proteins. 2008. PMID: 18214960

7

Another role of proline: stabilization interactions in proteins and protein complexes concerning proline and tryptophane.

Biedermannova L, E Riley K, Berka K, Hobza P, Vondrasek J. Biedermannova L, et al. Among authors: vondrasek j. Phys Chem Chem Phys. 2008 Nov 14;10(42):6350-9. doi: 10.1039/b805087b. Epub 2008 Sep 11. Phys Chem Chem Phys. 2008. PMID: 18972023

8

Loss of dispersion energy changes the stability and folding/unfolding equilibrium of the Trp-cage protein.

Cerný J, Vondrásek J, Hobza P. Cerný J, et al. Among authors: vondrasek j. J Phys Chem B. 2009 Apr 23;113(16):5657-60. doi: 10.1021/jp9004746. J Phys Chem B. 2009. PMID: 19444987

9

Metadynamics as a tool for mapping the conformational and free-energy space of peptides--the alanine dipeptide case study.

Vymetal J, Vondrásek J. Vymetal J, et al. Among authors: vondrasek j. J Phys Chem B. 2010 Apr 29;114(16):5632-42. doi: 10.1021/jp100950w. J Phys Chem B. 2010. PMID: 20361773

10

Optimal definition of inter-residual contact in globular proteins based on pairwise interaction energy calculations, its robustness, and applications.

Fačkovec B, Vondrášek J. Fačkovec B, et al. Among authors: vondrasek j. J Phys Chem B. 2012 Oct 25;116(42):12651-60. doi: 10.1021/jp303088n. Epub 2012 Oct 16. J Phys Chem B. 2012. PMID: 22988914

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