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Melting of a DNA helix terminus within the active site of a DNA polymerase
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0029085240
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The nucleotide analog 2-aminopurine as a spectroscopic probe of nucleotide incorporation by the Klenow fragment of Escherichia coli polymerase I and bacteriophage T4 DNA polymerase
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Frey MW, Sowers LC, Millar DP, Benkovic SJ: The nucleotide analog 2-aminopurine as a spectroscopic probe of nucleotide incorporation by the Klenow fragment of Escherichia coli polymerase I and bacteriophage T4 DNA polymerase. Biochemistry 1995, 34:9185-9192.
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0028224662
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A fluorescence-based assay for monitoring helicase activity
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Raney KD, Sowers LC, Millar DP, Benkovic SJ: A fluorescence-based assay for monitoring helicase activity Proc Natl Acad Sci USA 1994, 91:6644-6648.
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Proc Natl Acad Sci USA
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Raney, K.D.1
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Base stacking and unstacking as determined from a DNA decamer containing a fluorescent base
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0029118594
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Incorporation of a fluorescent guanosine analog into oligonucleotides and its application to a real time assay for the HIV-1 integrase 3′-processing reaction
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Synthesis and characterisation of fluorescent oligonucleotides. Effect of internal labelling on protein recognition
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Fluorescent d(CGCGAATTCGCG): Characterization of major groove polarity and study of minor groove interactions through a major groove semantophore conjugate
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Barawkar DA, Ganesh KN: Fluorescent d(CGCGAATTCGCG): characterization of major groove polarity and study of minor groove interactions through a major groove semantophore conjugate. Nucleic Acids Res 1995, 23:159-164. The first determination of the dielectric constant of the major groove of DNA, using the fluorescence emission properties of a dansyl probe attached to deoxyuridine. The resulting value is intermediate between the dielectric constant of the minor groove and that of bulk water.
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Barawkar, D.A.1
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Internal fluorescent probes for studying irregular and metastable DNA structures
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Carver TE, Millar DP: Internal fluorescent probes for studying irregular and metastable DNA structures. Proc SPIE - Int Soc Opt Eng 1994, 2137:469-474.
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Millar, D.P.2
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0025790430
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Interaction of DNA with the Klenow fragment of DNA polymerase I studied by time-resolved fluorescence spectroscopy
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Guest CR, Hochstrasser RA, Dupuy CG, Allen DJ, Benkovic SJ, Millar DP: Interaction of DNA with the Klenow fragment of DNA polymerase I studied by time-resolved fluorescence spectroscopy. Biochemistry 1991, 30:8759-8770.
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Millar, D.P.6
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17
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0028827717
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Interaction between the Escherichia coli regulatory protein TyrR and DNA: A fluorescence footprinting study
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Bailey M, Hagmar P, Millar DP, Davidson BE, Tong G, Haralambidis J, Sawyer WH: Interaction between the Escherichia coli regulatory protein TyrR and DNA: a fluorescence footprinting study. Biochemistry 1995, 34:15802-15812. Fluorescein attached to C-5 of deoxyuridine is used to probe contacts between DNA and the TyrR repressor protein. Steady-state and time-resolved fluorescence data indicate that the TyrR hexamer, but not the TyrR dimer, affects regions of DNA that lie outside the recognition sequence.
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0028075950
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Proofreading DNA: Recognition of aberrant DNA termini by the Klenow fragment of DNA polymerase I
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Carver TE, Hochstrasser RA, Millar DP: Proofreading DNA: recognition of aberrant DNA termini by the Klenow fragment of DNA polymerase I. Proc Natl Acad Sci USA 1994, 91:10670-10674.
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Proc Natl Acad Sci USA
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Observing the helical geometry of double-stranded DNA in solution by fluorescence resonance energy transfer
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Confirmation of strand orientation in parallel-stranded and antiparallel-stranded DNA duplexes by fluorescence resonance energy transfer & pyrene excimer fluorescence
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Fluorescence energy transfer shows that the four-way DNA junction is a right-handed cross of antiparallel molecules
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Fluorescence resonance energy transfer analysis of the structure of the four-way DNA junction
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The solution structure of the four-way DNA junction at low-salt conditions: A fluorescence resonance energy transfer analysis
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Clegg RM, Murchie AIH, Lilley DMJ: The solution structure of the four-way DNA junction at low-salt conditions: a fluorescence resonance energy transfer analysis. Biophys J 1994, 66:99-109. FRET is used to show that the four arms of an HJ are arranged in an unstacked, extended configuration under low salt conditions. This study underscores the importance of divalent cations in the folding and stabilization of the 'stacked-X' structure formed under physiological conditions.
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Clegg, R.M.1
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A three-dimensional model for the hammerhead ribozyme based on fluorescence measurements
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Tuschl T, Gohlke C, Jovin TM, Westhof E, Eckstein F: A three-dimensional model for the hammerhead ribozyme based on fluorescence measurements. Science 1994, 266:785-790. The global conformation of the hammerhead ribozyme is deduced from FRET measurements of a series of doubly labeled RNA molecules. This paper and [33••] represent the first applications of FRET to RNA.
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Science
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Tuschl, T.1
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Distance distribution in a dye-linked oligonucleotide determined by time-resolved fluorescence energy transfer
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Hochstrasser RA, Chen S-M, Millar DP: Distance distribution in a dye-linked oligonucleotide determined by time-resolved fluorescence energy transfer. Biophys Chem 1992, 45:133-141.
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Hochstrasser, R.A.1
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Donor-acceptor distance distributions in a double-labeled fluorescent oligonucleotide both as single strand and in duplexes
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Conformational distributions of a four-way DNA junction revealed by time-resolved fluorescence resonance energy transfer
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Eis PS, Millar DP: Conformational distributions of a four-way DNA junction revealed by time-resolved fluorescence resonance energy transfer. Biochemistry 1993, 32:13852-13860.
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Biochemistry
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Eis, P.S.1
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Kinking of DNA and RNA helices by bulged nucleotides observed by fluorescence resonance energy transfer
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Gohlke C, Murchie AIH, Lilley DMJ, Clegg RM: Kinking of DNA and RNA helices by bulged nucleotides observed by fluorescence resonance energy transfer. Proc Natl Acad Sci USA 1994, 91:11660-11664. FRET is used to estimate the extent of axial kinking of DNA and RNA helices resulting from the insertion of unpaired adenines into one strand. The dependence of axial kinking on bulge size is determined.
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Proc Natl Acad Sci USA
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Murchie, A.I.H.2
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Conformational flexibility of three-way DNA junctions containing unpaired nucleotides
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Yang M, Millar DP: Conformational flexibility of three-way DNA junctions containing unpaired nucleotides. Biochemistry 1996, in press. Time-resolved FRET measurements are reported for three-way DNA junctions, with and without added bases at the branch point of the junction. The results show that one of the three helices has high mobility in the bulged junctions, depending upon the identity of the unpaired bases.
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Biochemistry
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0028558883
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Direct measurement of thermodynamic and kinetic parameters of DNA triple helix formation by fluorescence spectroscopy
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Yang M, Ghosh SS, Millar DP: Direct measurement of thermodynamic and kinetic parameters of DNA triple helix formation by fluorescence spectroscopy. Biochemistry 1994, 33:15329-15337.
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Biochemistry
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Yang, M.1
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Fluorescence energy transfer between two triple helix-forming oligonucleotides bound to duplex DNA
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Mergny J-L, Garestier T, Rougée M, Lebedev AV, Chassignol M, Thuong NT, Hélène C: Fluorescence energy transfer between two triple helix-forming oligonucleotides bound to duplex DNA. Biochemistry 1994, 33:15321-15328.
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38
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0028043309
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Real time kinetics of restriction endonuclease cleavage monitored by fluorescence resonance energy transfer
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Ghosh SS, Eis PS, Blumeyer K, Fearon K, Millar DP: Real time kinetics of restriction endonuclease cleavage monitored by fluorescence resonance energy transfer. Nucleic Acids Res 1994, 23:3155-3159.
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Nucleic Acids Res
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Ghosh, S.S.1
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