Dr. Krzysztof Murzyn

Academic and professional appointments

Assistant Professor

Jagiellonian University, Faculty of Biochemistry, Biophysics, and Biotechnology, Department of Computational Biophysics and Bioinformatics, Kraków, Poland
from February 2004

Visiting Scientist

• University of Glasgow, Scotland, UK; Bioinformatics Research Centre; July/August 2008
• University of Virginia, Charlottesville, USA; Department of Molecular Physiology and Biological Physics; from February 2008 to June 2008
• Helsinki University of Technology, Lab. of Computational Engineering, Helsinki, Finland; July 2005

Research Assistant

Jagiellonian University, Faculty of Biotechnology, Department of Biophysics, Kraków, Poland
from February 2002 to January 2004

Ph.D. Student

Jagiellonian University, Faculty of Biology and Earth Science, Department of Biophysics, Kraków, Poland
from October 1997 to January 2002

Visiting Scientist

• Centre National de la Recherche Scientifique, Centre de Biophysique Moleculair, Orleans, France; from March 2000 to August 2000

M.Sc. Student

Jagiellonian University, Faculty of Chemistry, Kraków, Poland
from October 1992 to June 1997

Research Projects

• Dynamic structure of lipid bilayers

• Supramolecular structure of magainin pore as seen by molecular dynamics simulation

• nMoldyn: a program package for the calculation and analysis of neutron scattering spectra from MD simulations

• Cytochrome c

• Bicelles and micelles

• Computational genomics

Student supervision

Master theses

• Małgorzata Berg (BF) Magainin-2 amide in a model bacterial membrane (2011)

• Jarosław Surkont (BT) Squalamine in a model bacterial membrane (2011)

• Aleksandra Kos (B) All-atom model of the inner bacterial membrane. A molecular dynamics simulation study (2010)

• Elżbieta Pieniążek (BF) Przewidywanie biologicznej funkcji białka MCPIP1 metodami bioinformatycznymi (2009)

• Przemysław Porębski (BT) Structural and comparative analysis of dethiobiotin synthetase from Helicobacter pylori (2009), co-supervisor: Prof. Wladek Minor (University of Virginia, USA)

• Janusz Mordarski (BT) Eksploracja danych tekstowych zgromadzonych w bazie danych PubMed (2006)

Honours theses

• Konrad Zych (BT) (2009) Analiza porównawcza symulacji dynamiki molekularnej modelowych układów dwuwarstw lipidowych zawierających amid magaininy-2 sparametryzowanych w reprezentacji pełnoatomowej oraz reprezentacji atomu scalonego (2010)

• Mikołaj Rzepka (BT) Interfejs oprogramowania aplikacji (API) dla serwisu internetowego WebOfScience (2010)

• Andrzej Galiński (BT) BlockBuilder: program do tworzenia definicji cząsteczek i fragmentów cząsteczek na podstawie plików topologii Gromacs RTP (2009)

Recent conference attendance

Teaching

• Introduction to Programing in C and Python

• Bioinformatics and Foundamentals of Bioinformatics

• Applied Bioinformatics and Practical Bioinformatics

• Programing Python for Bioinformatics, 2013

Awards

• Fellowship Award, Foundation of Adam Krzyzanowski, 2006

• Team, Jagiellonian University Rector Award, 2004

• Jagiellonian University Rector Award, 2003

• Fellowship Award, Foundation for Polish Science, 2002

• Team, Polish Minister of Education and Sport, 2002

• Fellowship Award, Foundation for Polish Science, 2001

Selected Publications

1. K. Murzyn, T. Róg, W. Blicharski, M. Dutka, J. Pyka, S. Szytuła, W. Froncisz. 2006. Influence of the disulfide bond configuration on the dynamics of the spin label attached to cytochrome c. Proteins 62(4):1088-1100.

2. K. Murzyn, T. Róg, M. Pasenkiewicz-Gierula. 2005. Phosphatidylethanolamine-phosphatidylglycerol bilayer as a model of the inner bacterial membrane. Biophys J. 88(2):1-14.

3. T. Róg, K. Murzyn, K. Hinsen G. Kneller. 2003. nMoldyn: a program package for neutron scattering oriented analysis of molecular dynamics simulations. J. Comp. Chem. 24:657-667.

4. K. Murzyn, M. Pasenkiewicz-Gierula. 2003. Construction of a toroidal model for the magainin pore. J. Mol. Model. 9:217-224

5. K. Murzyn, T. Róg, G. Jezierski, K. Kitamura, M. Pasenkiewicz-Gierula. 2001. Effects of phospholipid unsaturation on the membrane/water interface: a molecular simulation study. Biophys. J. 81:170-183.