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The bis-phenanthridinium system flexibility and position of covalently bound uracil finely tunes the interaction with polynucleotides


Grabar Branilović, Marina; Tomić, Sanja; Tumir, Lidija-Marija; Piantanida, Ivo
The bis-phenanthridinium system flexibility and position of covalently bound uracil finely tunes the interaction with polynucleotides // Molecular biosystems, 9 (2013), 8; 2051-2062 doi:10.1039/C3MB25578F (međunarodna recenzija, članak, znanstveni)


Naslov
The bis-phenanthridinium system flexibility and position of covalently bound uracil finely tunes the interaction with polynucleotides

Autori
Grabar Branilović, Marina ; Tomić, Sanja ; Tumir, Lidija-Marija ; Piantanida, Ivo

Izvornik
Molecular biosystems (1742-206X) 9 (2013), 8; 2051-2062

Vrsta, podvrsta i kategorija rada
Radovi u časopisima, članak, znanstveni

Ključne riječi
Phenanthridinium; DNA; RNA; recognition

Sažetak
A series of structurally similar bis-phenanthridinium derivatives, some with uracil at different positions, revealed different interactions with various polynucleotides. The uniform binding of mononucleotides to all studied compounds by “cyclobisintercaland” binding type pointed that compound – polynucleotide interaction selectivity was the consequence of polynucleotide secondary structure and not direct nucleobase recognition. Although affinity and fluorimetric response of all studied compounds toward ds-DNA/RNA was similar, the thermal denaturation and ICD signal-based sensing was highly sensitive to polynucleotide basepair composition and secondary structure. In particular, for the specific poly rAH+- poly rAH+ double helix MD parameters are newly developed and used for analysis of its complexes. The highly sensitive orientation of phenanthridinium as well as the role of uracil substituent, both binding interactions finely tuned by the steric and binding properties of the DNA/RNA – ligand interaction site, offer novel structural information about binding and steric properties of particular DNA/RNA systems

Izvorni jezik
Engleski

Znanstvena područja
Fizika, Kemija



POVEZANOST RADA


Projekt / tema
098-0982914-2918 - Dizajn, sinteza i ispitivanje interakcija malih molekula s DNA, RNA i proteinima (Ivo Piantanida, )
098-1191344-2860 - Proučavanje biomakromolekula računalnim metodama i razvoj novih algoritama (Sanja Tomić, )

Ustanove
Institut "Ruđer Bošković", Zagreb

Časopis indeksira:


  • Current Contents Connect (CCC)
  • Web of Science Core Collection (WoSCC)
    • Science Citation Index Expanded (SCI-EXP)
    • SCI-EXP, SSCI i/ili A&HCI
  • Scopus
  • MEDLINE


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