Laboratory for the study of interactions of biomacromolecules (LSIB)

Laboratory for the study of interactions of biomacromolecules (LSIB)


Research objectives

Targeted properties of small molecules:

Design and synthesis of new small molecules that non-covalently bind to DNA / RNA, determination of their affinity and mode of binding as well as DNA/RNA induced spectroscopic changes.

Recognition is manifested by difference in affinity and / or differences in spectroscopic response caused by binding of small molecule to targeted DNA / RNA.

Small molecules designed and synthesized are characterized by heterocyclic aromatic systems (usually DNA / RNA intercalators, such as pyrene, phenanthridine, etc.) equipped by various substituents that control selectivity.

Applicability of expertise in studies of non-covalent interactions of small molecules with biomacromolecules: 

Increasing number and complexity of methods which are applied for studies of interactions of small molecules with biologically important macromolecules mostly exceed research capabilities of a single scientist. Therefore, for an efficient research in this area research teams are essential, preferentially consisting of scientists with different education background (chemists, biologists, etc). A large number of research groups in Croatia as well as in the EU occasionally or continuously have a need to examine the interaction of their small molecules with biomacromolecules at the simplest level (small molecule + biomacromolecule in biologically relevant medium). Consequently, in the last 10 years group has published joined research results with 12 research groups.

Multidisciplinary research line:

Research of LSIB group is closely coordinated with groups that study in vitrobiological activity of small molecules based on direct or indirect damage cellular DNA or RNA within the Croatian National Program No 0982914 as well as through the formal collaboration on the Ruđer Bošković Institute (Dr. sc. M. Kralj, Division of Molecular Medicine). It should be stressed that results (information about small molecule-DNA/RNA interactions at the simplest level), more often than not save time and valuable material needed for biological testing and moreover frequently influence the choice of biological methods for study of detailed mechanisms of action. 

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Ivo Crnolatac

Senior assistant
+385 1 457 1326

Ivo Piantanida
dr. sc.

senior scientist
+385 1 457 1326

Marijana Radić Stojković

Research associate
+385 1 457 1326

Lidija-Marija Tumir
dr. sc.

Research associate
+385 1 457 1326

Croatian-German bilateral project

Principal Investigator: Ivo Piantanida

2012 – 2013: Croatian-German bilateral project with Prof. Frank Würthner, Julius-Maximilians-Universität Würzburg, Germany

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Croatian-Slovenian bilateral project

Principal Investigator: Ivo Piantanida

2012 – 2013:Croatian-Slovenian bilateral project with Prof. Jurij Lah, Univerza v Ljubljani, Fakulteta za kemijo in kemijsko tehnologijo, Slovenija

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Design, synthesis and research of interactions of small molecules with DNA, RNA and proteins

Principal Investigator: Ivo Piantanida

The project funded by Ministry of Science, education and sports, "Design, synthesis and research of interactions of small molecules with DNA, RNA and proteins" No. 098-0982914-2918 (PI: Ivo Piantanida)

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Fluorophore Modified Noble Metal Nanoparticles – New Materials For Bio- and Chemical Sensors

Principal Investigator: Ivo Piantanida

Bilateral scientific project co-funded by the Croatian Ministry of science, education and sports and The National Science Fund of Bulgaria, the duration of the project: 2010 - 2012; TK 09 0015, coordinator, Bulgarian side: Prof. Dr. Ilijana Timtcheva, Institute of Organic Chemistry with Centre of Phytochemistry, Bulgarian Academy of Sciences, Sofia, Bulgaria.

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CD-ORD spectrometer Jasco J-815

Circular Dichroism and Optical Rotational Dispersion Spectrometer (CD-ORD)

Spectrometer Jasco J-815 measures spectra of circular dichroism CD and optical rotational dichroism ORD, together with simultaneous measurement of several variants of UV/vis spectra.
During the measurement instrument is under flow of nitrogen.

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UV/vis spektrometar Varian Cari 100 Bio

Ultraviolet / visual spectrometer

UV / vis spectrometer Varian Cary 100 Bio records spectra in double beam and single beam mode.
Spectral range: 190 - 900 nm

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Selected papers 2008 - 2012:

-           T. H. Rehm, M. Radić Stojković, S. Rehm, M. Škugor, I. Piantanida, F. Würthner, “Interaction of Spermine-Alanine Functionalized Perylene Bisimide Dye Aggregates with ds-DNA/RNA Secondary Structure”,Chem. Sci., (2012), accepted.

-           L.-M. Tumir, I. Crnolatac, T. Deligeorgiev, A. Vasilev, S. Kaloyanova, M. Grabar Branilović, S. Tomić, I. Piantanida, “Kinetic differentiation between homo- and alternating AT-DNA by sterically restricted phosphonium dyes”,Chem., Eur. J., 18 (2012), 3859–3864.

-           J. Wu, Y. Zou, W. Sicking, I. Piantanida, T. Yi, C. Schmuck, “A Molecular Peptide Beacon for the Ratiometric Sensing of Nucleic Acids”J. Am. Chem. Soc. , 134 (2012), 1958–1961.

-           K. Klemm, M. Radić Stojković, G. Horvat, V. Tomišić, I. Piantanida, C. Schmuck; “Interactions of multicationic bis-guanidiniocarbonyl pyrrole receptors with double stranded nucleic acids: syntheses, binding studies and atomic force microscopy imaging”,Chem., Eur. J., 18 (2012) 1352–1363.

-           M. Radić Stojković, S. Miljanić, K. Mišković, Lj. Glavaš-Obrovac, I. Piantanida; “The phenanthridine biguanides efficiently differentiate between dGdC, dAdT and rArU sequences by two independent, sensitive spectroscopic methods”,Mol. BioSyst., 7 (2011) 1753–1765.

-           A. Sornosa-Ten, M. T. Albelda, J. C. Frías, E. García-España, J. M. Llinares, A. Budimir, I. Piantanida; “Acid–base properties of functionalised tripodal polyamines and their interaction with nucleotides and nucleic acids”,Org. Biomol. Chem., 8 (2010) 2567 – 2574.

-           L.-M. Tumir, M. Grabar, S. Tomić, I. Piantanida; “The interactions of bis-phenanthridinium – nucleobase conjugates with nucleotides: adenine conjugate recognizes UMP in aqueous medium”,Tetrahedron, 66 (2010) 2501–2513.

-           M. Radić Stojković, M. Marjanović, D. Pawlica, L. Dudek, J. Eilmes, M. Kralj, I. Piantanida; “Cationic side-chains control DNA/RNA binding properties and antiproliferative activity of dicationic dibenzotetraaza[14]annulene derivatives”,New J. Chem, 34 (2010) 500–507.

-           L. Hernandez-Folgado, D. Baretić, I. Piantanida, M. Marjanović, M. Kralj, T. Rehm, C. Schmuck; “Guanidiniocarbonyl-pyrrole-aryl derivatives: structure tuning for spectrophotometric recognition of specific DNA and RNA sequences and antiproliferative activity.”,Chem., Eur. J., 16 (2010), 3036-3056.

-           M. Hranjec, I. Piantanida, M. Kralj, L. Šuman, K. Pavelić, G. Karminski-Zamola; " Novel Amidino-Substituted Thienyl- and Furylvinylbenzimidazole: Derivatives and Their Photochemical Conversion into Corresponding Diazacyclopenta[c]fluorenes. Synthesis, Interactions with DNA and RNA, and Antitumor Evaluation. 4.";J. Med. Chem., 51 (2008) 4899–4910.

The full list of publications of the laboratory members from the CROSBI database:

I. Piantanida

L.-M. Tumir

M. Radić Stojković

I. Crnolatac

Highlights of the recent research results

The examples of the recognition of the specificities of secondary structures various DNA/RNA using small molecules and the recognition of the nucleobase or sequences of nucleobases as a part of the DNA/RNA molecule.

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