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In order to exclude the possibility of self association in the concentration range of the fluorescence studies (0.1-3 mM, a dilution experiment by UV and fluorescence spectroscopy in the buffer/7, v/v) DMSO mixture was carried out with 4, 9, 10 and a 9/10 mixture (30:1) as models. The results showed that at ligand concentrations below 5×10 -6 M all the ligands are monomers
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63
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The interstrand nOes suggested that sugar-oligoamides each present a certain percentage of hairpin conformation in the free state, and TR-NOESY also suggested hairpin structures in the bound state
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The interstrand nOes suggested that sugar-oligoamides each present a certain percentage of hairpin conformation in the free state, and TR-NOESY also suggested hairpin structures in the bound state.
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65
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Under these conditions the sugar-oligoamide fluorescence quantum yield is at least ≈100% of its value in phosphate buffer solution. The refractive index of the aqueous buffer solution containing 7% (v/v) DMSO was therefore measured and the refractive index ratio was taken into account to determine the quantum yield for compound 4 and the models 1-3, 9-10.
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Under these conditions the sugar-oligoamide fluorescence quantum yield is at least ≈100% of its value in phosphate buffer solution. The refractive index of the aqueous buffer solution containing 7% (v/v) DMSO was therefore measured and the refractive index ratio was taken into account to determine the quantum yield for compound 4 and the models 1-3, 9-10.
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53749091889
-
-
-5 M concentration range. No chemical shift differences were detected, suggesting no aggregation behaviour.
-
-5 M concentration range. No chemical shift differences were detected, suggesting no aggregation behaviour.
-
-
-
-
72
-
-
53749084186
-
-
[49]
-
[49]
-
-
-
-
73
-
-
17844390111
-
-
This enhancement of the fluorescence intensity has previously been used to quantify the interaction of other DNA binders. J. B. Chaires, Methods in enzymology, Academic Press, San Diego, USA, 2001
-
This enhancement of the fluorescence intensity has previously been used to quantify the interaction of other DNA binders. J. B. Chaires, Methods in enzymology, Academic Press, San Diego, USA, 2001.
-
-
-
-
74
-
-
53749104854
-
-
-3 M for ml-DNA].
-
-3 M for ml-DNA].
-
-
-
-
75
-
-
53749089659
-
-
-1.
-
-1.
-
-
-
-
76
-
-
0030888470
-
-
a values of the sugar-oligoamides are due to differences in the nature of the saccharide residue and not to cooperative binding, Hill plots for all the sugar oligoamide-poly(dA-dT) complexes were determined, and no cooperativity was found in any case (nH = 1); a) M. J. Jezewska, W. Bujalowski, Biophys. Chem. 1997, 64, 253-269;
-
a values of the sugar-oligoamides are due to differences in the nature of the saccharide residue and not to cooperative binding, Hill plots for all the sugar oligoamide-poly(dA-dT) complexes were determined, and no cooperativity was found in any case (nH = 1); a) M. J. Jezewska, W. Bujalowski, Biophys. Chem. 1997, 64, 253-269;
-
-
-
-
77
-
-
0032728864
-
-
b) R. S. Cantor, Biophys. J. 1999, 77, 2643-2647;
-
(1999)
Biophys. J
, vol.77
, pp. 2643-2647
-
-
Cantor, R.S.1
-
79
-
-
0842349053
-
-
d) K. Matsuura, M. Hibino, T. Ikeda, Y. Yamada, K. Kobayashi, Chem. Eur. J. 2004, 10, 352-359;
-
(2004)
Chem. Eur. J
, vol.10
, pp. 352-359
-
-
Matsuura, K.1
Hibino, M.2
Ikeda, T.3
Yamada, Y.4
Kobayashi, K.5
-
80
-
-
33644632662
-
-
see Figure S23 Supporting Information
-
e) W. Bujalowski, Chem. Rev. 2006, 106, 556-606 (see Figure S23 in the Supporting Information).
-
(2006)
Chem. Rev
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, pp. 556-606
-
-
Bujalowski, W.1
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83
-
-
0021109035
-
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G. Manzini, M. L. Barcellona, M. Avitabile, F. Quadrifoglio, Nucleic Acids Res. 1983, 11, 8861-8876.
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(1983)
Nucleic Acids Res
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, pp. 8861-8876
-
-
Manzini, G.1
Barcellona, M.L.2
Avitabile, M.3
Quadrifoglio, F.4
-
84
-
-
53749090032
-
-
Comparisons are made with Ka values measured under conditions similar to ours: T = 20-27°C, pH = 7.0-7.4, [NaCl] < 0.1 M.
-
Comparisons are made with Ka values measured under conditions similar to ours: T = 20-27°C, pH = 7.0-7.4, [NaCl] < 0.1 M.
-
-
-
-
87
-
-
0024296533
-
-
M. Teng, N. Usman, C. A. Frederick, A. H. J. Wang, Nucleic Acids Res. 1988, 16, 2671-2690.
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(1988)
Nucleic Acids Res
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, pp. 2671-2690
-
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Teng, M.1
Usman, N.2
Frederick, C.A.3
Wang, A.H.J.4
-
88
-
-
53749090301
-
-
This has been extensively studied; refs.[14,77-79
-
This has been extensively studied; refs.[14,77-79]
-
-
-
-
91
-
-
84989711064
-
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S. Dhami, A. J. Demello, G. Rumbles, S. M. Bishop, D. Phillips, A. Beeby, Photochem. Photobiol. 1995, 61, 341-346.
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Dhami, S.1
Demello, A.J.2
Rumbles, G.3
Bishop, S.M.4
Phillips, D.5
Beeby, A.6
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92
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0036999853
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M. Gopal, M. S. Shahabuddin, S. R. Inamdar, Proceedings of the Indian Academy of Sciences - Chemical Sciences 2002, 114, 687-696.
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Gopal, M.1
Shahabuddin, M.S.2
Inamdar, S.R.3
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0014966634
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J. E. Larson, R. D. Wells, R. C. Grant, B. E. Shortle, C. R. Cantor, J. Mol. Biol. 1970, 54, 465-497.
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