Contribution of the Resonance Raman Spectroscopy to the Identification of Z DNA

Jollès, Béatrice; Chinsky, L.; Laigle, Alain

doi:10.1080/07391102.1984.10507524

Cited by 29 publications

(21 citation statements)

References 26 publications

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“…Resonance Raman studies of chromophores with visible excitation are well known (1-3), but it is only recently that studies in the ultraviolet region (below 300 nm) have been made for a number of species (5-9) including nucleic acids (9)(10)(11)(12)(13)(14)(15)(16)(17). The resonance Raman excitation profiles of both fundamental and overtone vibrations of the nucleic acid bases have been studied in the region of the first absorption band near 260 nm (10)(11)(12)(13)(14)(15).…”

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confidence: 99%

“…Sci. USA 82 (1985) The importance of Raman spectroscopy as a structural tool in the determination of nucleic acid structure is well known (1-3, 9-17), and it has been shown recently that base vibrations that are resonance-enhanced in the first major absorption band are sensitive to the conformation of nucleic acids in solution (17). It is becoming increasingly evident that DNA conformation information can be obtained from the enhanced vibrations of the chromophoric aromatic portions of nucleic acids.…”

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confidence: 99%

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Ultraviolet resonance Raman excitation profiles of nucleic acid bases with excitation from 200 to 300 nanometers.

Kubasek

Hudson

Peticolas

1985

Proc. Natl. Acad. Sci. U.S.A.

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Raman spectra are presented for dilute aqueous solutions of the four ribonucleotides AMP, GMP, UMP, and CMP obtained with laser excitation at 299, 266, 253, 240, 229, 218, 209, and 200 nm. Distinct evidence of strong, selective resonance enhancement is obtained. Low-resolution excitation profiles have been constructed for the strongest bands by using the phosphate band at 994 cm-1 as an internal reference. The excitation spectra for many of the vibrational bands are dominated by a peak corresponding to the lowestenergy electronic transition near 260 nm. Smaller peaks are seen for higher-energy electronic transitions. For some modes, the resonance enhancement is dominated by the higher-energy transitions. It is clear from these new data that a full description of the resonance Raman profiles of the nucleic acids will have to include several excited electronic states. Two examples are given of cases where ionic species can be distinguished easily by using far-UV excitation, but these species are indistinguishable with 266-nm excitation. This demonstrates the utility of far-UV resonance Raman spectroscopy for obtaining structural information.The vibrational frequencies of a macromolecule are often dependent on specific conformation. Consequently, useful structural information about biological macromolecules can be obtained by using Raman or infrared spectroscopy. The Raman technique is well suited for studying biological molecules because it is applicable to aqueous solutions and does not damage the sample. Unfortunately the classical Raman effect is weak, making high sample concentrations necessary. Additional problems arise in the study of large molecules when the Raman spectrum becomes crowded with many bands from different vibrational modes that have similar frequencies. Many of these problems can be circumvented by taking advantage of the resonance effect in Raman spectroscopy. This technique involves generating Raman spectra with an excitation frequency that is in the region of an electronic absorption of the macromolecule.The intensity of Raman light scattered from an absorbing molecular chromophore changes considerably as the excitation wavelength of the incident light is varied over the range of the absorbing frequencies (1)(2)(3). This resonance effect can be appreciated when one examines the expression describing the intensity of the Raman scattered light. Clearly, when the excitation frequency co approaches the frequency of an electronic absorption, the denominator, E, -Eo -irF, (where E, is the energy of a vibronic level of the excited electronic state, Eo is the laser energy, and rF is the half-width of the vibronic level) becomes small and the intensity of Raman scattered light for a given vibrational mode approaches infinity. This enhancement permits drastic reductions in sample concentrations, often by several orders of magnitude. The particular excited electronic state that will give rise to resonance enhancement of particular vibrational frequencies depends on the vibrational overlap f...

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confidence: 99%

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confidence: 99%

Ultraviolet resonance Raman excitation profiles of nucleic acid bases with excitation from 200 to 300 nanometers.

Kubasek

Hudson

Peticolas

1985

Proc. Natl. Acad. Sci. U.S.A.

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“…Although the Z form marker bands are weaker than those shown in Miskovsky's paper (29), there is some indication of the presence of left-handed structure in the natural DNA We showed in another paper (30) it is possible to enhance selectively the Z form contribution in resonance Raman spectroscopy (RRS) with an excitation wavelength in the 280-300 nm region. Hence we made some measurements on the same DNA sample in using the 284 nm excitation wavelength.…”

Section: Introductionmentioning

confidence: 75%

“…Datachrom pulsed YAG and dye laser system. Details of the Raman setup and of the acquisition system have been described previously (30)(31)(32).…”

Section: Methodsmentioning

confidence: 99%

The Concentration Dependence of the Right to Left Conformational Transition in Natural DNA Identified by Raman Spectroscopy

Miškovský

Chinsky²,

Laigle³

et al. 1989

Journal of Biomolecular Structure and Dynamics

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The classical and resonance Raman spectra of DNA from Chicken Erythrocytes have been obtained for different DNA concentrations in solution with low and high ionic strengths. The classical Raman spectra of 30 mg/ml DNA solutions were measured in varying the sodium chloride concentration from 0.1 to 4.5 M NaCl. An increase in the salt content of the solution leads to spectral changes in the 600-700 cm-1 region, indicating a C2' endo/anti to C3' endo/syn conformational transition of the purine residues. Other changes around 840 cm-1, due to the antisymmetrical stretching vibration of the PO2 group, are also detected: they were characteristic for the B----Z transition in model systems such as poly(dG-dC).poly(dG-dC). The resonance Raman spectra of low (1 mg/ml) and high (30 mg/ml) concentrated DNA solutions were obtained with low (0.1 M) and high (4.5 M) NaCl contents, in using a 284 nm excitation wavelength. No change was observed in the intensities and band positions in the low and high salt solutions of low concentrated DNA. Thus it is assumed that the DNA structure remains unchanged whatever the salt concentration for low concentrated DNA. In contrast, great modifications of the intensities and positions of some lines were found in the spectra of high DNA concentration solution when the NaCl content is increased up to 4.5 M: these changes resemble to some extent those observed in the study of B----Z transition of several polynucleotide model compounds. It is assumed that the right-handed to left-handed conformational transition may occur in certain sections of natural DNA, likely containing alternating purine-pyrimidine sequences, when the DNA concentration is sufficiently important.

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“…Some experiments' results indicated that the irradiation could result in destabilizing the DNA structure and decreasing the initial level of DNA lesions. 9,10 Because the DNA has an intricate helical and three-dimensional structure that keeps the DNA stabilization, [11][12][13] the course of the structure of DNA broken by irradiation is complicated and vague.…”

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Characteristic Variation of α-Fetoprotein DNA Nanometer-Range Irradiated by Iodine-125

Cheng

Huang²,

Li³

et al. 2013

Cancer Biotherapy and Radiopharmaceuticals

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To obtain the characteristic variation of structure and functional groups of a-fetoprotein (AFP) DNA irradiated by iodine-125( 125 I), the AFP antisense oligonucleotide labeled with various radioactivity dose 125 I was mixed with the AFP DNA in a simulated polymerase chain reaction temperature condition. After the mixtures were irradiated by the 125 I from 2 to 72 hours, the mutation of the biogenic conformation and functional groups of the irradiated DNA were investigated using laser Raman spectroscopy. The shifted peak and the decreased intensity of the characteristic Raman spectra were found, which demonstrated that the structure of the phosphodiester linkage was broke, the pyridine and purine bases in DNA emerged and damaged. The model of gene conformation changed from form B to form C spectrum after the nanometer-range irradiation with 125 I from 2 to 24 hours. The damage of local pyridine and purine bases gradually increased along with the accumulation of irradiation, and the bases and ribosome were finally dissociated and stacked.

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Contribution of the Resonance Raman Spectroscopy to the Identification of Z DNA

Cited by 29 publications

References 26 publications

Ultraviolet resonance Raman excitation profiles of nucleic acid bases with excitation from 200 to 300 nanometers.

Ultraviolet resonance Raman excitation profiles of nucleic acid bases with excitation from 200 to 300 nanometers.

The Concentration Dependence of the Right to Left Conformational Transition in Natural DNA Identified by Raman Spectroscopy

Characteristic Variation of α-Fetoprotein DNA Nanometer-Range Irradiated by Iodine-125

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