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Volumn 292, Issue 1, 1999, Pages 75-86

Structure of branched DNA molecules: Gel retardation and atomic force microscopy studies

Author keywords

Atomic force microscopy; Bending; Electrophoresis; Heteroduplex DNA; Isomers

Indexed keywords

DNA; HETERODUPLEX;

EID: 0033543665     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.1999.3043     Document Type: Article
Times cited : (40)

References (43)
  • 1
    • 0028211009 scopus 로고
    • PCR amplification of up to 35-kb DNA with high fidelity and high yield from λ bacteriophage templates
    • Barnes W. M. PCR amplification of up to 35-kb DNA with high fidelity and high yield from λ bacteriophage templates. Proc. Natl Acad. Sci. USA. 91:1994;2216-2220.
    • (1994) Proc. Natl Acad. Sci. USA , vol.91 , pp. 2216-2220
    • Barnes, W.M.1
  • 2
  • 3
    • 0026587142 scopus 로고
    • A theoretical method to predict DNA permutation gel electrophoresis from the sequence
    • Boffelli D., De Santis P., Palleschi A., Risuleo G., Savino M. A theoretical method to predict DNA permutation gel electrophoresis from the sequence. FEBS Letters. 300:1992;175-178.
    • (1992) FEBS Letters , vol.300 , pp. 175-178
    • Boffelli, D.1    De Santis, P.2    Palleschi, A.3    Risuleo, G.4    Savino, M.5
  • 4
    • 77957219598 scopus 로고
    • Evidence for opposite groove-directed curvature of GGGCCC and AAAAA sequence elements
    • Brukner I., Dlakic M., Savic A., Susic S., Pongor S., Suck D. Evidence for opposite groove-directed curvature of GGGCCC and AAAAA sequence elements. Nucl. Acids Res. 21:1993;1025-1029.
    • (1993) Nucl. Acids Res. , vol.21 , pp. 1025-1029
    • Brukner, I.1    Dlakic, M.2    Savic, A.3    Susic, S.4    Pongor, S.5    Suck, D.6
  • 5
    • 0028230588 scopus 로고
    • Physiological concentration of magnesium ions induces a strong macroscopic curvature in GGGCCC-containing DNA
    • Brukner I., Susic S., Dlakic M., Savic A., Pongor S. Physiological concentration of magnesium ions induces a strong macroscopic curvature in GGGCCC-containing DNA. J. Mol. Biol. 236:1994;26-32.
    • (1994) J. Mol. Biol. , vol.236 , pp. 26-32
    • Brukner, I.1    Susic, S.2    Dlakic, M.3    Savic, A.4    Pongor, S.5
  • 6
    • 0032559372 scopus 로고    scopus 로고
    • CTG repeats associated with human genetic disease are inherently flexible
    • Chastain P. D., Sinden R. R. CTG repeats associated with human genetic disease are inherently flexible. J. Mol. Biol. 275:1998;405-411.
    • (1998) J. Mol. Biol. , vol.275 , pp. 405-411
    • Chastain, P.D.1    Sinden, R.R.2
  • 8
    • 0032530597 scopus 로고    scopus 로고
    • Unconventional helical phasing of repetitive DNA motifs reveals their relative bending contributions
    • Dlakic M., Harrington R. E. Unconventional helical phasing of repetitive DNA motifs reveals their relative bending contributions. Nucl. Acids Res. 26:1998;4274-4279.
    • (1998) Nucl. Acids Res. , vol.26 , pp. 4274-4279
    • Dlakic, M.1    Harrington, R.E.2
  • 9
    • 0025248057 scopus 로고
    • The three-way DNA junction is a Y-shaped molecule in which there is no helix-helix stacking
    • Duckett D. R., Lilley D. M. The three-way DNA junction is a Y-shaped molecule in which there is no helix-helix stacking. EMBO J. 9:1990;1659-1664.
    • (1990) EMBO J. , vol.9 , pp. 1659-1664
    • Duckett, D.R.1    Lilley, D.M.2
  • 11
    • 0022418377 scopus 로고
    • Sequence dependence of the curvature of DNA: A test of the phasing hypothesis
    • Hagerman P. J. Sequence dependence of the curvature of DNA: a test of the phasing hypothesis. Biochemistry. 24:1985;7033-7037.
    • (1985) Biochemistry , vol.24 , pp. 7033-7037
    • Hagerman, P.J.1
  • 12
    • 0001690587 scopus 로고
    • Deletions of bases in one strand of duplex DNA, in contrast to single-base mismatches, produce highly kinked molecules: Possible relevance to the folding of single-stranded nucleic acids
    • Hsieh C. H., Griffith J. D. Deletions of bases in one strand of duplex DNA, in contrast to single-base mismatches, produce highly kinked molecules: possible relevance to the folding of single-stranded nucleic acids. Proc. Natl Acad. Sci. USA. 86:1989;4833-4837.
    • (1989) Proc. Natl Acad. Sci. USA , vol.86 , pp. 4833-4837
    • Hsieh, C.H.1    Griffith, J.D.2
  • 14
    • 0022477409 scopus 로고
    • DNA bending at adenine-thymine tracts
    • Koo H. S., Wu H. M., Crothers D. M. DNA bending at adenine-thymine tracts. Nature. 320:1986;501-506.
    • (1986) Nature , vol.320 , pp. 501-506
    • Koo, H.S.1    Wu, H.M.2    Crothers, D.M.3
  • 15
    • 0029111762 scopus 로고
    • Kinking of DNA and RNA by base bulges
    • Lilley D. M. J. Kinking of DNA and RNA by base bulges. Proc. Natl Acad. Sci. USA. 92:1995;7140-7142.
    • (1995) Proc. Natl Acad. Sci. USA , vol.92 , pp. 7140-7142
    • Lilley, D.M.J.1
  • 16
    • 0027486238 scopus 로고
    • The structure of branched DNA species
    • Lilley D. M. J., Clegg R. M. The structure of branched DNA species. Quart. Rev. Biophys. 26:1993;131-175.
    • (1993) Quart. Rev. Biophys. , vol.26 , pp. 131-175
    • Lilley, D.M.J.1    Clegg, R.M.2
  • 17
    • 0025862101 scopus 로고
    • Effect of sequence on the structure of three-arm DNA junctions
    • Lu M., Guo Q., Kallenbach N. R. Effect of sequence on the structure of three-arm DNA junctions. Biochemistry. 30:1991;5815-5820.
    • (1991) Biochemistry , vol.30 , pp. 5815-5820
    • Lu, M.1    Guo, Q.2    Kallenbach, N.R.3
  • 18
    • 0038450969 scopus 로고    scopus 로고
    • DAN, RNA and nucleoprotein complexes immobilized on AP-mica and imaged with AFM
    • R. Colton, A. Engel, J. Frommer, H. Gaub, A. Gewrith, R. Guckenberger, J. Rable, W. Heckl, & B. Parkinson. New York: J. Wiley
    • Lyubchenko Y. L., Lindsay S. M. DAN, RNA and nucleoprotein complexes immobilized on AP-mica and imaged with AFM. Colton R., Engel A., Frommer J., Gaub H., Gewrith A., Guckenberger R., Rable J., Heckl W., Parkinson B. Procedures in Scanning Probe Microscopy. 1998;493-496 J. Wiley, New York.
    • (1998) Procedures in Scanning Probe Microscopy , pp. 493-496
    • Lyubchenko, Y.L.1    Lindsay, S.M.2
  • 22
    • 0030737538 scopus 로고    scopus 로고
    • Trinucleotide repeats associated with human disease
    • Mitas M. Trinucleotide repeats associated with human disease. Nucl. Acids Res. 25:1997;2245-2253.
    • (1997) Nucl. Acids Res. , vol.25 , pp. 2245-2253
    • Mitas, M.1
  • 23
    • 0029982348 scopus 로고    scopus 로고
    • Analysis and suppression of DNA polymerase pauses associated with a trinucleotide consensus
    • Mytelka D. S., Chamberlin M. J. Analysis and suppression of DNA polymerase pauses associated with a trinucleotide consensus. Nucl. Acids Res. 24:1996;2774-2781.
    • (1996) Nucl. Acids Res. , vol.24 , pp. 2774-2781
    • Mytelka, D.S.1    Chamberlin, M.J.2
  • 24
    • 0027317556 scopus 로고
    • Influence of fluctuations on DNA curvature. A comparison of flexible and static wedge models of intrinsically bent DNA
    • Olson W. K., Marky N. L., Jernigan R. L., Zhurkin V. B. Influence of fluctuations on DNA curvature. A comparison of flexible and static wedge models of intrinsically bent DNA. J. Mol. Biol. 232:1993;530-554.
    • (1993) J. Mol. Biol. , vol.232 , pp. 530-554
    • Olson, W.K.1    Marky, N.L.2    Jernigan, R.L.3    Zhurkin, V.B.4
  • 25
    • 0029883805 scopus 로고    scopus 로고
    • Alternative structures in duplex DNA formed within the trinucleotide repeats of the myotonic dystrophy and fragile X loci
    • Pearson C. E., Sinden R. R. Alternative structures in duplex DNA formed within the trinucleotide repeats of the myotonic dystrophy and fragile X loci. Biochemistry. 35:1996;5041-5053.
    • (1996) Biochemistry , vol.35 , pp. 5041-5053
    • Pearson, C.E.1    Sinden, R.R.2
  • 26
    • 0032102835 scopus 로고    scopus 로고
    • Trinucleotide repeat DNA structures: Dynamic mutations from dynamic DNA
    • Pearson C. E., Sinden R. R. Trinucleotide repeat DNA structures: dynamic mutations from dynamic DNA. Curr. Opin. Struct. Biol. 8:1998;321-330.
    • (1998) Curr. Opin. Struct. Biol. , vol.8 , pp. 321-330
    • Pearson, C.E.1    Sinden, R.R.2
  • 28
    • 0032479186 scopus 로고    scopus 로고
    • Polymer chain statistics and conformational analysis of DNA molecules with bends or sections of different flexibility
    • Rivetti C., Walker C., Bustamante C. Polymer chain statistics and conformational analysis of DNA molecules with bends or sections of different flexibility. J. Mol. Biol. 280:1998;41-59.
    • (1998) J. Mol. Biol. , vol.280 , pp. 41-59
    • Rivetti, C.1    Walker, C.2    Bustamante, C.3
  • 34
    • 0021139847 scopus 로고
    • Cruciform transitions in DNA
    • Sinden R. R., Pettijohn D. E. Cruciform transitions in DNA. J. Biol. Chem. 259:1984;6593-6600.
    • (1984) J. Biol. Chem. , vol.259 , pp. 6593-6600
    • Sinden, R.R.1    Pettijohn, D.E.2
  • 35
    • 0027014233 scopus 로고
    • DNA structure, mutations, and human genetic disease
    • Sinden R. R., Wells R. D. DNA structure, mutations, and human genetic disease. Curr. Opin. Biotechnol. 3:1992;612-622.
    • (1992) Curr. Opin. Biotechnol. , vol.3 , pp. 612-622
    • Sinden, R.R.1    Wells, R.D.2
  • 37
    • 0030815232 scopus 로고    scopus 로고
    • Global structure of three-way DNA junctions with and without additional unpaired bases: A fluorescence resonance energy transfer analysis
    • Stuhmeier F., Welch J. B., Murchie A. I. H., Lilley D. M. J., Clegg R. M. Global structure of three-way DNA junctions with and without additional unpaired bases: a fluorescence resonance energy transfer analysis. Biochemistry. 36:1997;13530-13538.
    • (1997) Biochemistry , vol.36 , pp. 13530-13538
    • Stuhmeier, F.1    Welch, J.B.2    Murchie, A.I.H.3    Lilley, D.M.J.4    Clegg, R.M.5
  • 39
    • 0025802093 scopus 로고
    • Effects of bulge composition and flanking sequence on the kinking of DNA by bulged bases
    • Wang Y. H., Griffith J. Effects of bulge composition and flanking sequence on the kinking of DNA by bulged bases. Biochemistry. 30:1991;1358-1363.
    • (1991) Biochemistry , vol.30 , pp. 1358-1363
    • Wang, Y.H.1    Griffith, J.2
  • 41
    • 0029896548 scopus 로고    scopus 로고
    • Conformational flexibility of three-way junctions containing unpaired nucleotides
    • Yang M., Millar D. P. Conformational flexibility of three-way junctions containing unpaired nucleotides. Biochemistry. 35:1996;7959-7967.
    • (1996) Biochemistry , vol.35 , pp. 7959-7967
    • Yang, M.1    Millar, D.P.2
  • 42
    • 0023889654 scopus 로고
    • Effect of base composition at the center of inverted repeated DNA sequences on cruciform transitions in DNA
    • Zheng G., Sinden R. R. Effect of base composition at the center of inverted repeated DNA sequences on cruciform transitions in DNA. J. Biol. Chem. 263:1988;5356-5361.
    • (1988) J. Biol. Chem. , vol.263 , pp. 5356-5361
    • Zheng, G.1    Sinden, R.R.2
  • 43
    • 0027270324 scopus 로고
    • Conformation and thermodynamics of DNA "necks". Models for three-arm branch formation in a duplex
    • Zhong M., Kallenbach N. R. Conformation and thermodynamics of DNA "necks". Models for three-arm branch formation in a duplex. J. Mol. Biol. 230:1993;766-778.
    • (1993) J. Mol. Biol. , vol.230 , pp. 766-778
    • Zhong, M.1    Kallenbach, N.R.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.