Optical Rotatory Dispersion and Circular Dichroism of Nucleic Acids

Yang, Jen Tsi; Samejima, Tatsuya

doi:10.1016/s0079-6603(08)60770-9

Cited by 114 publications

(52 citation statements)

References 176 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…These results seem inconsistent with the notion that Raman and CD measure identical aspects of RNA conformation. However, the observations are self consistent if the CD results are interpreted as suggested by Yang and Samejima (17). They argue that a constant value of e265 indicates that the number of bases in a stacked conformation is constant, and that a red shift of the 265 cm-1 peak implies that the hydrogen bonds between base pairs have been broken.…”

Section: Results I) Raman Detects Unfoldingsupporting

confidence: 72%

Escherichia coli ribosome unfolding in low Mg²⁺solutions observed by laser Raman spectroscopy and electron microscopy

et al. 1981

View full text Add to dashboard Cite

Ribosomes unfolded by the removal of Mg2+ at 25 C were studied by Raman spectroscopy and electron microscopy. Raman spectra showed a reduction in the 813 cm-l phosphodiester signal of 30S and 50S ribosomes compared to intact ribosomes, suggesting that a fraction of the ribose moieties had shifted from the 3' endo (ordered) to the 3' exo (disordered) conformation.The maximum diameters of unfolded 30S and 50S ribosomes, judged by electron microscopy, were 1.8 and 2.5-fold greater, respectively, than those of intact ribosomes. Most unfolded 30S ribosomes had three distinct structural domains and appeared "Y-shaped"; whereas most unfolded 50S ribosomes had four distinct domains and appeared "X-shaped". When ribosomes were partially unfolded (by brief exposure to 0.04 mM Mg2+ or EDTA), several possible intermediates in the unfolding process were observed.Both the shapes of particles and their Raman spectra reached the same final state in 0.04 mM Mg2+, where more than 50% of the rRNA phosphates are discharged by Mg2+, as in 10 mM EDTA, where less than 1% are discharged.

show abstract

Section: Results I) Raman Detects Unfoldingsupporting

confidence: 72%

Escherichia coli ribosome unfolding in low Mg²⁺solutions observed by laser Raman spectroscopy and electron microscopy

et al. 1981

View full text Add to dashboard Cite

show abstract

“…In particular, the negative CD band around 298 nm present in the RNA duplex was more shallow and shifted to ϳ308 nm in the D18: PBS spectrum (Fig. 4, insets), which is indicative of a shift toward B-form conformation (69). Thus, the CD spectrum observed with the D18:PBS duplex suggests that the lack of dependence on template length in the extension assays ( Fig.…”

Section: Effect Of Rna Template Length On (ϫ) Ssdna Synthesismentioning

confidence: 87%

“…4). Both a decrease and a slight shift in the maximum of the D18:PBS spectrum compared with that of R18:PBS suggested that the hybrid duplex, although maintaining an overall A-form conformation, had characteristics that are shifted somewhat toward B-form (69). In particular, the negative CD band around 298 nm present in the RNA duplex was more shallow and shifted to ϳ308 nm in the D18: PBS spectrum (Fig.…”

Section: Effect Of Rna Template Length On (ϫ) Ssdna Synthesismentioning

confidence: 96%

Efficient Initiation of HIV-1 Reverse Transcriptionin Vitro

Iwatani¹,

Rosen²,

Guo³

et al. 2003

Journal of Biological Chemistry

View full text Add to dashboard Cite

show abstract

“…Thus, the ORD spectra of the complexes reported here show that, while the magnitude of the extremum at longest wavelength varies considerably, the rotation is negative in every case. In contrast, the great majority of polynucleotides, and their base-paired complexes, show positive rotation in this region [34].…”

Section: Generul Observations On the Complexesmentioning

confidence: 94%

“…common to all the monomer complexes of poly(A) so far characterized, is the ncgative sign of their longest wavelength ORD extremum. With few exceptions, the monomer complexes of other polynuclcotides [14,16], and polynucleotide structures in general [34], are dextrorotatory at long wavelcngths. Most probably, the negative dispersion of the poly (A) .…”

Section: Conipurison Witli Oiher Poljnucleotide Monomer Complexesmentioning

confidence: 99%

Complexes of Poly(adenylic Acid) with Complementary Monomers

Davies¹

1976

Eur J Biochem

View full text Add to dashboard Cite

The interaction of a number of potentially complementary monomers with poly(A) has been investigated by equilibrium dialysis, optical rotatory dispersion and ultraviolet absorption measurements. Experiments were conducted at pH 7.0, 0.15 M Na+, where poly(A) exists as a random coil with some degree of base‐stacking, and at pH 6.0, 0.15 M Na+, where poly(A) adopts the protonated double‐helical acid form structure below 15°C. Binding isotherms show that, at 3.5°C, poly(A) forms a 1: 1 complex with xanthine at pH 6, and a 2: 1 complex at pH 7, while oxoformycin forms a 1: 1 complex with poly(A) at both pH 6 and pH 7. Poly(A) forms a complex, tentatively assigned 1:1 stoichiometry, with 8‐azaxanthine at pH 6, but no complexing occurs at pH 7. The complexes have been characterized by their optical rotatory dispersion and ultraviolet spectra, their thermal stabilities, and their rates of formation at low temperature. All the complexes are laevorotatory at long wavelengths (< 300 nm) and undergo highly co‐operative helix‐coil transitions. Usually, complex formation at low temperature is a slow process requiring many hours for completion. The complexes of poly(A) with 3‐methylxanthine have been reinvestigated and shown to under‐go normal helix‐coil transitions; the anomalous melting behaviour noted previously [Biopolymers, 10, 21–33 (1971)] has been explained. From a comparison of optical rotatory dispersion spectra, it is concluded that the poly(A) complexes of xanthine and 3‐methylxanthine have similar structures, which are quite different from the structures of the corresponding complexes with 7‐methylxanthine. The structures and properties of the poly(A) · monomer complexes are discussed, and compared with those of other polynucleotide ‐ monomer complexes. No significant interaction was observed between poly(A) and hypoxanthine, allopurinol, 6,8‐dihydroxypurine, 1‐methylxanthine, 9‐methylxanthine, theophylline, theobromine or 3,9‐dimethylxanthine.

show abstract

Optical Rotatory Dispersion and Circular Dichroism of Nucleic Acids

Cited by 114 publications

References 176 publications

Escherichia coli ribosome unfolding in low Mg²⁺solutions observed by laser Raman spectroscopy and electron microscopy

Escherichia coli ribosome unfolding in low Mg²⁺solutions observed by laser Raman spectroscopy and electron microscopy

Efficient Initiation of HIV-1 Reverse Transcriptionin Vitro

Complexes of Poly(adenylic Acid) with Complementary Monomers

Contact Info

Product

Resources

About

Optical Rotatory Dispersion and Circular Dichroism of Nucleic Acids

Cited by 114 publications

References 176 publications

Escherichia coli ribosome unfolding in low Mg2+solutions observed by laser Raman spectroscopy and electron microscopy

Escherichia coli ribosome unfolding in low Mg2+solutions observed by laser Raman spectroscopy and electron microscopy

Efficient Initiation of HIV-1 Reverse Transcriptionin Vitro

Complexes of Poly(adenylic Acid) with Complementary Monomers

Contact Info

Product

Resources

About

Escherichia coli ribosome unfolding in low Mg²⁺solutions observed by laser Raman spectroscopy and electron microscopy

Escherichia coli ribosome unfolding in low Mg²⁺solutions observed by laser Raman spectroscopy and electron microscopy