Infrared linear dichroism of oriented DNA-ligand complexes prepared with the wet-spinning method

Fritzsche, H.; Rupprecht, A.; Richter, M.

doi:10.1093/nar/12.23.9165

Cited by 20 publications

(14 citation statements)

References 32 publications

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“…This is indicated by farily high values of 9 0 p 0 at reduced RH, usually measured at 76% RH. As reported previously, the netropsinDNAcomplex is almost completely in the B form at76% RH if the inputratio(drug/ DNA base pair) is 0.2 (8). This result, however, holds for CT-DNA (42% GC).…”

Section: Resultssupporting

confidence: 54%

“…Oriented films ofNaDNA were obtained by the wetspinning technique as described elsewhere (8,15,16). Details of the measurement and of the quantitative determination ofB-and A-DNA in a mixture ofboth conformations were given elsewhere (7 ,8,1 0) and will not be repeated in detail here.…”

Section: Methodsmentioning

confidence: 99%

“…We have shown elsewhere that infrared linear dichroism is a suitable technique to monitor the B-A transition and to determine the fraction ofB and A form, respectively, in mixtures ofboth DNA conformations (6)(7)(8). The DNA complexes of several drugs, mostly potential antitumor drugs, have been studied by infrared and found to be locked into the B form.…”

Section: Introductionmentioning

confidence: 99%

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Modulation of the B-A Transition of DNA by Potential Antitumor Antibiotics. Influence of the Base Composition of DNA

Fritzsche¹,

Rupprecht²

1990

Journal of Biomolecular Structure and Dynamics

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The B-A transition of DNA in oriented films of DNA-drug complexes is more or less restricted as a consequence of drug binding as revealed by infrared linear dichroism. A fraction of DNA is irreversibly locked into the B form. This behavior is described by the number of DNA base pairs "frozen" in the B form by one drug molecule. This quantity is dependent on the DNA sequence the drug is attached to. In this paper, drug complexes of oriented films of NaDNA with a GC content of 42% from calf thymus and a GC-rich DNA from Micrococcus lysodeikticus were compared. The restriction of the B-A transition of DNA complexes with two intercalating antibiotics, aclacinomycin A and violamycin BI, is not severely influenced by the base composition of DNA. By contrast, the strong groove binding oligopeptide antibiotics netropsin and distamycin A are much less effective to restrict the B-A transition of GC-rich DNA than of AT-rich DNA. This finding is in agreement with previous results by other methods which support a model based upon a strong preference of AT clusters by these two non-intercalating drugs.

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Section: Resultssupporting

confidence: 54%

Section: Methodsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Modulation of the B-A Transition of DNA by Potential Antitumor Antibiotics. Influence of the Base Composition of DNA

Fritzsche¹,

Rupprecht²

1990

Journal of Biomolecular Structure and Dynamics

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“…Infrared (IR) linear dichroism studies have shown the potency of several drugs to suppress the B-A transition of DNA stretches much longer than the binding site of the drug on DNA (13)(14)(15)(16)(17). Depending on the relative drug concentration, a substantial fraction of DNA was shown to lose its conformational flexibility and to remain in the B form even at RHs below 75 %.…”

Section: Introductionmentioning

confidence: 99%

The formation of A-DNA in NaDNA films is suppressed by netropsin

Fritzsche¹,

Brandes

Rupprecht

et al. 1992

Nucl Acids Res

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Oriented films of NaDNA complexed with netropsin were studied with deuterium nuclear magnetic resonance (2H NMR), X-ray diffraction and ultraviolet (UV) linear dichroism to obtain information about the influence of netropsin on the structural arrangement of the DNA bases and on the B-A transition. The results of these studies clearly demonstrate a strong suppression of the formation of A-DNA at relative humidities (RHs) down to about 50%. The suppression was complete in the NaDNA-netropsin complex studied with 2H NMR which had a netropsin input ratio, r, of 0.22 drug/base pair. The sample used for UV linear dichroism had a similar input ratio while the X-ray diffraction samples had input ratios between 0.033 and 0.39 drug/base pair. Together, the results of these studies are in agreement with previous infrared (IR) linear dichroism studies of the conformation of the sugar-phosphate backbone in NaDNA-netropsin complexes, which showed that the B-A transition is suppressed for r-values down to approximately 0.1 drug/base pair (Fritzsche, H., Rupprecht, A. and Richter, M., Nucleic Acids Res. 12 (1984) 9165-9177).

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“…The related non-intercalating compound netropsin exhibits a similar behavior ("freezing" of the B conformation, Fritzsche et a1. 43,44). However, pentamidine, with its bulkier, more flexible, and longer aliphatic chain ( -O(CH2)50 -), positioned closely at the surface of the groove, is not able to suppress the B + C transition of the host duplex.…”

Section: Discussionmentioning

confidence: 99%

Comparative study of berenil– and pentamidine–poly‐nucleotide complexes using UV/VIS and FTIR spectroscopy

Schmitz

Hübner

1995

Biospectroscopy

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SYNOPSISFourier-transform infrared (FTIR) spectroscopy was applied to investigate the conformational aspects of the synthetic polynucleotides poly d(AT), poly(dA) . poly(dT), poly(dA) . poly(dT)*poly(dT) upon binding of berenil and pentamidine. Measurements were performed in D 2 0 to elucidate the hydrogen bonding system in the adducts. It could be demonstrated that intermolecular H-bonds were formed between the minor groove binders berenil or pentamidine and the polynucleotides. The drug-nucleotide interaction is followed by weak conformational distortions of the alternating polynucleotide poly d(AT), whereas such an effect is negligible in the poly(dA).poly(dT) complexes. The binding of berenil or pentamidine into the minor groove of the triple-stranded polynucleotide poly(dA) .poly(dT)*poly(dT) did not induce a dissociation of the third strand [poly(dT)] from the helical major groove. However, thermal denaturation profiles obtained by UV/VIS spectroscopy revealed a destabilization of the triplex due to the ligation of the drug molecules. This effect was accompanied by a "decreased binding density" in the triple helix compared with the poly(dA) .poly(dT) duplex. In contrast, both doublehelical polynucleotides were stabilized by the minor groove binders. The influence of pentamidine on the helical stability was smaller. Utilizing the attenuated total reflection (ATR) technique, conformational transitions of the double helices induced by variation of the water content in the films were monitored. The addition of berenil was followed by a suppression of these transitions, whereas for pentamidine no similar effects were observed.

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Infrared linear dichroism of oriented DNA-ligand complexes prepared with the wet-spinning method

Cited by 20 publications

References 32 publications

Modulation of the B-A Transition of DNA by Potential Antitumor Antibiotics. Influence of the Base Composition of DNA

Modulation of the B-A Transition of DNA by Potential Antitumor Antibiotics. Influence of the Base Composition of DNA

The formation of A-DNA in NaDNA films is suppressed by netropsin

Comparative study of berenil– and pentamidine–poly‐nucleotide complexes using UV/VIS and FTIR spectroscopy

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