Publication Records

ADAM, Jan, Zdeněk KŘÍŽ, Martin PROKOP, Michaela WIMMEROVÁ and Jaroslav KOČA. In silico mutagenesis and docking studies of Pseudomonas aeruginosa lectin PA-IIL - predicting binding modes and energies. Journal of Chemical Information and Modeling. 2008, vol. 48, No 11, p. 2234-2242, 8 pp. ISSN 1549-9596.

ADAM, Jan, Zdeněk KŘÍŽ, Lenka MALINOVSKÁ, Emily LAMEIGNERE, Anne IMBERTY, Jaroslav KOČA and Michaela WIMMEROVÁ. Studying the binding properties of BclA lectin - experiment and modeling. In FEBS Journal. OXFORD: BLACKWELL PUBLISHING, 2008, p. 175-175. ISSN 1742-464X.

ADAM, Jan, Martina POKORNÁ, Zdeněk KŘÍŽ, Anne IMBERTY, Charles SABIN, Jaroslav KOČA and Michaela WIMMEROVÁ. Computational chemistry as a helpful tool for biochemist - structure-functional study and correlation en route to protein engineering. In Materials Structure, vol. 14, no. 1 (2007), 6th Discussions in Structural Molecular Biology. Prague: Czech and Slovak Crystallographic Association, 2007, 1 pp. ISSN 1211-5894.

ADAM, Jan, Martina POKORNÁ, Nikola KOSTLÁNOVÁ, Ondřej ŠULÁK, Zdeněk KŘÍŽ, Anne IMBERTY, Jaroslav KOČA and Michaela WIMMEROVÁ. Molecular modeling as a biochemist's best friend - structure-functional and computational analysis of lectin-saccharide interaction on the way to protein enginneering. In Cukrblik 2007 : Current Chemistry and Biochemistry of Saccharides. Prague: Institute of Chemical Technology, 2007, p. 6-6. ISBN 978-80-7080-006-5.

ADAM, Jan, Martina POKORNÁ, Charles SABIN, Martin PROKOP, Zdeněk KŘÍŽ, Anne IMBERTY, Jaroslav KOČA and Michaela WIMMEROVÁ. Molecular modeling in hands of protein engineers - the lectin-saccharide interaction study. In FEBS Journal 274 (suppl. 1), 32th FEBS Congress "Molecular Machines". Cambridge: Blackwell Publishing, 2007, p. 263-263. ISSN 1742-464X.

ADAM, Jan, Martina POKORNÁ, Martin PROKOP, Zdeněk KŘÍŽ, Anne IMBERTY, Jaroslav KOČA and Michaela WIMMEROVÁ. Mutagenesis of PA-IIL and related affinity changes - structure-functional, computational and thermodynamic study. In Young Scientist Forum 'Molecular Networks'. 2007.

ADAM, Jan, Martina POKORNÁ, Charles SABIN, Martin PROKOP, Zdeněk KŘÍŽ, Anne IMBERTY, Jaroslav KOČA and Michaela WIMMEROVÁ. Mutagenesis of PA-IIL and related affinity changes - molecular modeling in service of protein engineering (Mutagenesis of PA-IIL and related affinity changes - molecular modeling in service of protein engineering). In Konference Grantové Agentury České republiky - Strukturní biofyzika makromolekul II. Brno: Biofyzikální ústav AV ČR a Masarykova univerzita, 2007, p. 25.

ADAM, Jan, Martina POKORNÁ, Charles SABIN, Zdeněk KŘÍŽ, Anne IMBERTY, Jaroslav KOČA and Michaela WIMMEROVÁ. Protein Engineering and Molecular Modeling 'IN CAPSULE' - Computer-Assisted Prediction of SUgar-LEctin INteractions. Structure-functional and computational study of bacterial lectin PA-IIL (Protein Engineering and Molecular Modeling 'IN CAPSULE' - Computer-Assisted Prediction of SUgar-LEctin INteractions. Structure-functional and computational study of bacterial lectin PA-IIL). In International Congress of Young Chemists YoungChem 2007. Warsaw: Chemical Scientific Society Flogiston, 2007, p. 68. ISBN 978-83-61037-16-3.

ADAM, Jan, Martina POKORNÁ, Charles SABIN, Zdeněk KŘÍŽ, Anne IMBERTY, Michaela WIMMEROVÁ and Jaroslav KOČA. Structure as a key to function: protein engineering and molecular modeling of lectin-saccharide interactions. In Synchrotron Facilities for the Development of Science and Technology in Central and Eastern Europe. Brno: Biofyzikální ústav AV ČR, 2007, p. 8-9.

ADAM, Jan, Martina POKORNÁ, Charles SABIN, Zdeněk KŘÍŽ, Anne IMBERTY, Jaroslav KOČA and Michaela WIMMEROVÁ. Strukturně funkční studie afinitních změn v lektin sacharidových systémech: počítačová chemie ve službách proteinového inženýrství (Mutagenesis of PA-IIL and related affinity changes - molecular modeling in hands of protein engineers). In Chem. Listy 101, 425–465 (2007) - VII. Mezioborové setkání mladých biologů, biochemiků a chemiků. Praha: Česká společnost chemická, 2007, p. 427-427. ISSN 0009-2770.

KŘÍŽ, Zdeněk, Jan ADAM, Ondřej ŠULÁK, Michaela WIMMEROVÁ and Jaroslav KOČA. UNRAVELING THE PROBLEMS OF PROTEIN - SACCHARIDE INTERACTIONS VIA COMPUTATIONAL CHEMISTRY. Materials structure. Czech Republic: Czech and Slovak Crystallographic Associ, 2007, vol. 14, No 1, p. 38. ISSN 1211-5894.

ADAM, Jan, Martina POKORNÁ, Charles SABIN, Zdeněk KŘÍŽ, Anne IMBERTY, Jaroslav KOČA and Michaela WIMMEROVÁ. Utilizing Computational Chemistry for protein engineering - study of lectin-saccharide interactions. In European Biophysics Journal 36 (suppl. 1), 6th EBSA Biophysics Congress. London: Springer, 2007, p. 111-111. ISSN 0175-7571.

WIESNER, Jiří, Zdeněk KŘÍŽ, Kamil KUČA, Daniel JUN and Jaroslav KOČA. Počítačové modelování a simulace - nové technologie při vývoji prostředkůproti chemickým bojovým látkám (Computer modeling and simulations - the new technologies in the development of means againts chemical warfare agents). Voj. zdrav. listy. Hradec Králové: Univerzita obrany, 2005, roč. 74, 5/6, p. 171-177. ISSN 0372-7025.

ADAM, Jan, Zdeněk KŘÍŽ, Anne IMBERTY, Jaroslav KOCA and Michaela WIMMEROVÁ. The study of lectin-saccharide interactions by means of computational chemistry. In Modelling Interactions in Biomolecules II. Praha: Univerzita Karlova, Praha, 2005, p. 1.

KOČA, Jaroslav. Exploring multidimensional energy surfaces related to conformational search and molecular docking. In Modelling and Design of Molecular Materials Workshop. Wroclaw: University of Wroclaw, 2004, p. 10-10.

KOČA, Jaroslav, Zdeněk KŘÍŽ, Martin LUDIN and Anne IMBERTY. Pokroky v počítačovém modelování interakcí dvou a více molekul. Příklady z oblasti cyklodextrinu. (Progresses in computer modeling of the interaction of two and more molecules. Examples from chemistry of cyclodextrin molecules.). In Chemické listy. Praha: Česká společnost chemická, 2003, p. 1113-1114.

DAMBORSKÝ, Jiří, Jan KMUNÍČEK, Tomáš JEDLIČKA, Santos LUENGO, Federico GAGO, Angel R. ORTIZ and Rebecca C. WADE. Rational re-design of haloalkane dehalogenases guided by comparative binding energy analysis. In Enzyme Functionality: Design, Engineering and Screening. New York, USA: Marcel Decker, 2003, p. 79-96. Protein Structure.

BOSMA, Tjibbe, Jiří DAMBORSKÝ, Gerhard STUCKI and Dick JANSSEN. Biodegradation of 1,2,3-trichloropropane through directed evolution and heterologous expression of a haloalkane dehalogenase gene. Applied and Environmental Microbiology. 2002, vol. 68, No 7, p. 3582-3587. ISSN 1098-5336.