Recognition of base pairs by polar peptides in double stranded DNA

Laigle, Alain; Chinsky, L.; Turpin, Pierre‐Yves

doi:10.1093/nar/10.5.1707

Cited by 29 publications

(20 citation statements)

References 28 publications

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“…DNA 1 mg/ml obtained with a 284 nm excitation wavelength ( Figure 3A and B, for low and high salt, respectively) are similar to those of Calf thymus-and Salmon sperm DNA previously obtained in the 280-300 nm range (30,31,(49)(50)(51). The main lines may be assigned to the different nucleic base vibrations according to our previous studies (30,31,47,(49)(50)(51) and to the spectra obtained on mononucleotides excited with the 284 nm excitation wavelength (Figure 4). Figure 5B).…”

Section: Resonance Raman Spectroscopy (Rrs)supporting

confidence: 84%

“…A line located at 1250 em -I (low salt) and assigned to thymine (50) and cytosine vibrations (30), shifts to 1261 cm-1 (high salt) and its intensity increases, while two shoulders appear at 1240 and 1190 em -I. Comparable modifications have been observed in the RRS spectrum of poly( dG-dC) · poly( dG-dC) during the B-Z transition (30).…”

Section: Resonance Raman Spectroscopy (Rrs)mentioning

confidence: 78%

“…A 1336 em -!line, involving essentially an adenine vibration (50), is shifted to 1322 em -I in increasing the salt content. A similar shift (from 1342 to 1328 em -I) was observed upon B-z transition in the classical Raman spectrum (16) ofpoly(dAdC) · poly( dG-dT).…”

Section: Resonance Raman Spectroscopy (Rrs)mentioning

confidence: 94%

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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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Section: Resonance Raman Spectroscopy (Rrs)supporting

confidence: 84%

Section: Resonance Raman Spectroscopy (Rrs)mentioning

confidence: 78%

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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 Raman signal is measured in a photon counting system (ORTEC) equipped with a parallel BDC digital output and the spectra are recorded step by step in a CBM Commodor laboratory computer. It is then possible to proceed to a numerical treatment of the data, such as smoothing by the Savitsky-Golay method (15) or fast Fourier transform (16) or normalization using the 3400 cm-1 water band as internal standard. The accuracy of the determination of the band positions is 3 em -1 • For both excitations the mean power of the incident UV beam is of the order of a few milliwatts (1 to 3 mW).…”

Section: Methodsmentioning

confidence: 99%

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

Jollès

Chinsky

Laigle

1984

Journal of Biomolecular Structure and Dynamics

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Poly(dG-dC).poly(dG-dC) at low salt concentration (0.1 M NaCl) and at high salt concentration (4.5 M NaCl) has been studied by Raman resonance spectroscopy using two excitation wavelengths: 257 nm and 295 nm. As resonance enhances the intensity of the lines in a proportion corresponding to the square of the molar absorption coefficient, the intensities of the lines with 295 nm wavelength excitation are enhanced about sevenfold during the B to Z transition. With 257 nm excitation wavelength the 1580 cm-1 line of guanosine is greatly enhanced in the Z form whereas with 295 nm excitation several lines are sensitive to the modifications of the conformation: the guanine band around 650 cm-1 and at 1193 cm-1 and the bands of the cytosines at 780 cm-1, 1242 cm-1 and 1268 cm-1. By comparison with the U.V. resonance Raman spectra of DNA, we conclude that resonance Raman spectroscopy allows one to characterize the B to Z transition from one line with 257 nm excitation wavelength and from three lines with 295 nm excitation. The conjoined study of these four lines should permit to observe a few base pairs being in Z form in a DNA.

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“…The contribution of cytosine was very weak at any excitation in the region of 240-300 nm due to its small Raman cross-sections as compared with other nucleotides [14]. The intensities of the thymine bands were found to be reduced markedly due to a stacking induced hypochromism within double-stranded helixes [15,16]. A tentative assignment of the oligonucleotide bands is shown in Fig.…”

Section: General Description Of the Uv Rr Spectra Of Oligonucleotidesmentioning

confidence: 92%

DNA topoisomerase I changes the mode of interaction between camptothecin drugs and DNA as probed by UV‐resonance Raman spectroscopy

et al. 1996

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Pronounced differences of interactions of camptothecin (CPT) and its derivative 7-ethyl-10-[4-(1-piperidino)-lpiperidino]carbonyloxycamptothecin (CPTll), inhibitors of DNA topoisomerase I, with oligonucleotides were found using UV resonance Raman spectroscopy. 30-mer oligonucleotides were derived from the sequences of the topoisomerase I-induced and CPT-enhanced cleavage sites in SV40 DNA. CPT induces well-defined alterations of the oligo structure, whereas CPTll interacts with oligonucleotides more weakly and in another manner than CPT. Formation of cleavable ternary complexes between CPTll, topoisomerase I and oligonucleotides causes CPTll to interact with oligonucleotides in the same fashion as was found for its parent compound CPT, and enhances this interaction as compared to CPT-oligonucleotide complexes. The data present evidence of molecular interactions of CPTll with both other partners (topoisomerase I and oligonucleotide) of the ternary cleavable complex at the oligonucleotide-enzyme interface.

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Recognition of base pairs by polar peptides in double stranded DNA

Cited by 29 publications

References 28 publications

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

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

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

DNA topoisomerase I changes the mode of interaction between camptothecin drugs and DNA as probed by UV‐resonance Raman spectroscopy

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