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Specific and highly efficient condensation of GC and IC DNA by polyaza pyridinophane derivatives

Radić Stojković, Marijana; González-García, Jorge; Šupljika, Filip; Galiana-Rosello, Cristina; Guijarro, Lluís; Gazze, Salvatore A.; Francis, Lewis W.; Piantanida, Ivo; Garcia- Espana, Enrique (2017) Specific and highly efficient condensation of GC and IC DNA by polyaza pyridinophane derivatives. International journal of biological macromolecules, 109 . pp. 143-151. ISSN 0141-8130

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Two bis-polyaza pyridinophane derivatives and their monomeric reference compounds revealed strong interactions with ds-DNA and RNA. The bis-derivatives show a specific condensation of GC- and IC-DNA, which is almost two orders of magnitude more efficient than the well-known condensation agent spermine. The type of condensed DNA was identified as psi-DNA, characterized by the exceptionally strong CD signals. At variance to the almost silent AT(U) polynucleotides, these strong CD signals allow the determination of GC-condensates at nanomolar nucleobase concentrations. Detailed thermodynamic characterisation by ITC reveals significant differences between the DNA binding of the bis- derivative compounds (enthalpy driven) and that of spermine and of their monomeric counterparts (entropy driven). Atomic force microscopy confirmed GC-DNA compaction by the bis-derivatives and the formation of toroid- and rod-like structures responsible for the psi-type pattern in the CD spectra.

Item Type: Article
Additional Information: Financial supports from Croatian Science Foundation (grant No. 1477), from Ministry of Science, education and sports (Project No.098-0982914-2918), FP7-REGPOT-2012-2013-1, Grant Agreement Number 316289 - InnoMol are gratefully acknowledged. This work was financially supported by the Spanish MINECO, FEDER funds of the E.U. (Project CTQ2013-14892 and CONSOLIDER INGENIO 2010-CSD2010-00065), Generalitat Valenciana (PROMETEO II 2015-002) and Unidad de Excelencia MDM 2015-0538.
Uncontrolled Keywords: Pyridinophane compounds ; DNA/RNA binding ; GC-DNA condensation ; circular dichroism spectroscopy
Subjects: NATURAL SCIENCES > Chemistry
NATURAL SCIENCES > Chemistry > Analytic Chemistry
NATURAL SCIENCES > Chemistry > Organic Chemistry
Divisions: Division of Organic Chemistry and Biochemistry
Project titleProject leaderProject codeProject type
Višenamjensko očitavanje DNA / RNA sekundarne strukture molekularnim kemijskim senzorima-DNA/RNA-MolSenseIvo PiantanidaIP-2013-11-1477HRZZ
Depositing User: Marijana Radić Stojković
Date Deposited: 28 Nov 2019 14:21
DOI: 10.1016/j.ijbiomac.2017.11.156

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