The nature of the electronic excitations capturing centres in the DNA

Yashchuk, Valeriy M.; Kudrya, Vladislav Yu.; Losytskyy, Mykhaylo Yu.; Suga, Hiroaki; Ohulchanskyy, Tymish Y.

doi:10.1016/j.molliq.2006.03.020

Cited by 24 publications

(30 citation statements)

References 19 publications

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“…The absorption spectra of the oligoRNA and the additive sum of the absorption spectra of ribonucleotides are presented in Figure 3 (we take into account that the average quantities of ribonucleotides of the different types are approximately equal for this type of RNA). It is evident that the absorption spectra of RNA is very close to the additive sum of the absorption spectra of model compounds, as it was shown in our previous work [13], including DNA [1,12,14,15]. The similar situation is observed for oligoadenylate 2 0 5 0 A 3 and rAMP ( Fig.…”

Section: Methodssupporting

confidence: 87%

“…4) that models elementary fragment of 2 0 5 0 A 3 . The results presented above, as in the case with DNA [1,12,14,15], give the ground to consider that photons in poly-and Figure 3. The absorption spectra of oligoRNA (1) and the additive sum of the absorption spectra of ribonucleotides (2) in the ratio: rAMP-29%, rCMP-21%, rGMP-20%, and rUMP-30%.…”

Section: Methodsmentioning

confidence: 77%

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Optical Response of the Polynucleotides-Proteins Interaction

Yashchuk

Kudrya

Levchenko

et al. 2011

Molecular Crystals and Liquid Crystals

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The optical absorption, fluorescence, and phosphorescence spectra of RNAs and oligonucleotides of different origin, as well as their mixtures with human albumin are investigated. It is confirmed that the energy structures of DNA, RNA, and complex protein macromolecules are determined mainly by the individual properties of their p-electron systems. The positions of the RNA excited singlet and triplet energy levels obtained by authors' previous work are determined more precisely. It is shown that mainly adenine bases are traps for mobile triplet excitons in RNA (contrary to DNA, in which AT complexes are the triplet traps). The spectral manifestation of the RNA=oligonucleotides-albumin interaction is studied. It turns out that namely the phosphorescence spectra of these compounds due to their sharp structure at 4.2 K are the most suitable for the study of the RNA-albumin interaction. The phosphorescence spectra of albumin-2 0 5 0 A 3 solvents manifest the penetrative binding of 2 0 5 0 A 3 to an albumin macromolecule. The obtained data show that at least a weak non-penetrative binding of RNA to human albumin can exist.

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Section: Methodssupporting

confidence: 87%

Section: Methodsmentioning

confidence: 77%

Optical Response of the Polynucleotides-Proteins Interaction

Yashchuk

Kudrya

Levchenko

et al. 2011

Molecular Crystals and Liquid Crystals

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“…The difference between (-)PBS/ (+)PBS and dAMP phosphorescence spectra (the band at = 530 nm) is thought to be associated with an unknown center, possibly, G-complex or G-intermediate that dominates in the fluorescence. Thus, the main centers of triplet excitation capturing in (-)PBS and (+)PBS oligonucleotides are A-bases and some centers of an unknown nature (possibly, G-complexes or G-intermediates, but they are not AT-complexes observed by us in [3][4][5][6][7]). The "1-3-difference" band was obtained by the subtraction of the dAMP spectral band from the (-)PBS spectral band.…”

Section: Phosphorescencementioning

confidence: 99%

“…The first main goal of our investigations is the identification of the absorbing, fluorescent and phosphorescent centers in (-)PBS and (+)PBS. On the other hand, it is known [3][4][5][6][7] that the capturing centers of the triplet excitation in DNA are AT-sequences. Recently, we showed that this AT-complex is formed by neighbor A-and T-chromophores from the same strand (not from A-and T-complementary chromophores of the different strands) [5][6][7].…”

Section: Introductionmentioning

confidence: 99%

Spectral Properties of Single-Stranded Viral DNA Fragment

et al. 2018

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This article presented the results of investigations of the optical absorption (at 300 K) and steady-state and time-resolved luminescence (at 78 K) of (–)PBS and (+)PBS oligonucleotides. (–)PBS is the DNA form of the minus primer binding site (5′GTCCCTGTTCGGGCGCCA3′) of the human immunodeficiency virus type 1 (HIV-1)genome, and (+)PBS (3′CAGGGACAAGCCCGCGGT5′) is its complementary sequence [1]. The optical absorption spectra of (–)PBS and (+)PBS do not coincide with the correspondent equimolar sums of the spectra of nucleotides that are in their composition. The difference between them at 295 nm is related to the existence of some stable complex between bases (possibly, G-complexes). The fluorescence spectral bands of (–)PBS and (+)PBS are close to each other and to the band of oligonucleotide investigated by us in [2]. In our opinion, the (–)PBS and (+)PBS bands are connected possibly with the fluorescence of some complexes that are manifested in the absorption. The phosphorescence spectral bands of (–)PBS and (+)PBS are close to each other and to the band of dAMP (in the wavelength interval 370–470 nm). The difference between the (–)PBS/(+)PBS and dAMP phosphorescence spectra (at 530 nm) is associated with an unknown center (possibly, G-complexes). Thus, the main centers of the triplet excitation capturing in (–)PBS and (+)PBS are A-bases and centers of an unknown nature.

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“…The values of singlet and triplet energy levels of the nucleotides obtained by us in [28,29] are presented in Table 3. The comparison of these data with data given in Table 2 removes all doubts that even the triplet level of any nucleotide is situated much upper than the singlet level of any investigated dye.…”

Section: The First Excited Singlet and Triplet Levels Of Dyesmentioning

confidence: 99%

Optical Biomedical Diagnostics: Sensors with Optical Response Based on Two‐Photon Excited Luminescent Dyes for Biomolecules Detection

Yashchuk

Yarmoluk

Kudrya

et al. 2008

Advances in Optical Technologies

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The spectral properties of novel styryl dyes developed for the biomacromolecules (such as DNA) detection and imaging were investigated. The energy structures of dye molecules were examined. The spectral data prove that dyes aggregate and interact with DNA. The essential increase of the fluorescence intensity of dyes in the presence of DNA was observed. The photostability and phototoxic influence on the DNA of several styryl dyes were studied by analyzing absorption, fluorescence, and phosphorescence spectra of these dyes and dye-DNA systems. Changes of the optical density value of dye-DNA solutions caused by the irradiation were fixed in the DNA and dye absorption wavelength regions. Fluorescence emission of dye-DNA complexes upon two-photon excitation at wavelength 1064 nm with the 20-nanosecond pulsed YAG:Nd3+ laser and at 840 nm with the 90 famtosecond pulsed Ti:sapphire laser was registered. The values of two-photon absorption cross-sections of dye-DNA complexes were evaluated.

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The nature of the electronic excitations capturing centres in the DNA

Cited by 24 publications

References 19 publications

Optical Response of the Polynucleotides-Proteins Interaction

Optical Response of the Polynucleotides-Proteins Interaction

Spectral Properties of Single-Stranded Viral DNA Fragment

Optical Biomedical Diagnostics: Sensors with Optical Response Based on Two‐Photon Excited Luminescent Dyes for Biomolecules Detection

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