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Volumn 423, Issue 6936, 2003, Pages 145-150

The structure of DNA in the nucleosome core

Author keywords

[No Author keywords available]

Indexed keywords

CHROMOSOMES; CONFORMATIONS; CRYSTAL STRUCTURE; PROTEINS;

EID: 0037992395     PISSN: 00280836     EISSN: None     Source Type: Journal    
DOI: 10.1038/nature01595     Document Type: Article
Times cited : (1007)

References (40)
  • 1
    • 0003903126 scopus 로고
    • ed. Rich, A., Springer, New York
    • van Holde, K. E. in Chromatin (ed. Rich, A.) (Springer, New York, 1988).
    • (1988) Chromatin
    • Van Holde, K.E.1
  • 2
    • 0033529565 scopus 로고    scopus 로고
    • Twenty-five years of the nucleosome, fundamental particle of the eukaryote chromosome
    • Kornberg, R. D. & Lorch, Y. Twenty-five years of the nucleosome, fundamental particle of the eukaryote chromosome. Cell 98, 285-294 (1999).
    • (1999) Cell , vol.98 , pp. 285-294
    • Kornberg, R.D.1    Lorch, Y.2
  • 4
    • 0025930248 scopus 로고
    • Nucleosome positioning: Occurrence, mechanisms, and functional consequences
    • Simpson, R. T. Nucleosome positioning: Occurrence, mechanisms, and functional consequences. Prog. Nucleic Acid Res. Mol. Biol. 40, 143-184 (1991).
    • (1991) Prog. Nucleic Acid Res. Mol. Biol. , vol.40 , pp. 143-184
    • Simpson, R.T.1
  • 6
    • 0033604609 scopus 로고    scopus 로고
    • Chromosomal landscape of nucleosome-dependent gene expression and silencing in yeast
    • Wyrick, J. J. et al. Chromosomal landscape of nucleosome-dependent gene expression and silencing in yeast. Nature 402, 418-421 (1999).
    • (1999) Nature , vol.402 , pp. 418-421
    • Wyrick, J.J.1
  • 7
    • 1842411320 scopus 로고    scopus 로고
    • Crystal structure of the nucleosome core particle at 2.8 Å resolution
    • Luger, K., Maeder, A. W., Richmond, R. K., Sargent, D. F. & Richmond, T. J. Crystal structure of the nucleosome core particle at 2.8 Å resolution. Nature 389, 251-260 (1997).
    • (1997) Nature , vol.389 , pp. 251-260
    • Luger, K.1    Maeder, A.W.2    Richmond, R.K.3    Sargent, D.F.4    Richmond, T.J.5
  • 8
    • 0026696624 scopus 로고
    • Nucleosomes, DNA-binding proteins, and DNA sequence modulate retroviral integration target site selection
    • Pryciak, P. M. & Varmus, H. E. Nucleosomes, DNA-binding proteins, and DNA sequence modulate retroviral integration target site selection. Cell 69, 769-780 (1992).
    • (1992) Cell , vol.69 , pp. 769-780
    • Pryciak, P.M.1    Varmus, H.E.2
  • 9
    • 0026727120 scopus 로고
    • Chromatin structure and transcription
    • Kornberg, R. D. & Lorch, Y. Chromatin structure and transcription. Annu. Rev. Cell Biol. 8, 563-587 (1992).
    • (1992) Annu. Rev. Cell Biol. , vol.8 , pp. 563-587
    • Kornberg, R.D.1    Lorch, Y.2
  • 10
    • 0025799783 scopus 로고
    • Nucleosomes are positioned with base pair precision adjacent to the alpha 2 operator in Saccharomyces cerevisiae
    • Shimizu, M., Roth, S. Y., Szent-Gyorgyi, C. & Simpson, R. T. Nucleosomes are positioned with base pair precision adjacent to the alpha 2 operator in Saccharomyces cerevisiae. EMBO J. 10, 3033-3041 (1991).
    • (1991) EMBO J. , vol.10 , pp. 3033-3041
    • Shimizu, M.1    Roth, S.Y.2    Szent-Gyorgyi, C.3    Simpson, R.T.4
  • 11
    • 0032559424 scopus 로고    scopus 로고
    • Positioning and stability of nucleosomes on MMTV 3 LTR sequences
    • Flaus, A. & Richmond, T. I. Positioning and stability of nucleosomes on MMTV 3 LTR sequences. J. Mol. Biol. 275, 427-441 (1998).
    • (1998) J. Mol. Biol. , vol.275 , pp. 427-441
    • Flaus, A.1    Richmond, T.I.2
  • 12
    • 0026642219 scopus 로고
    • Mobile nucleosomes - A general behaviour
    • Meersseman, G., Pennings, S. & Bradbury, E. M. Mobile nucleosomes - a general behaviour. EMBO J. 11, 2951-2959 (1992).
    • (1992) EMBO J. , vol.11 , pp. 2951-2959
    • Meersseman, G.1    Pennings, S.2    Bradbury, E.M.3
  • 13
    • 0028791330 scopus 로고
    • Mechanism of protein access to specific DNA sequences in chromatin: A dynamic equilibrium model for gene regulation
    • Polach, K. J. & Widom, J. Mechanism of protein access to specific DNA sequences in chromatin: A dynamic equilibrium model for gene regulation. J. Mol. Biol. 254, 130-149 (1995).
    • (1995) J. Mol. Biol. , vol.254 , pp. 130-149
    • Polach, K.J.1    Widom, J.2
  • 14
    • 0031451329 scopus 로고    scopus 로고
    • Mechanism of transcription through the nucleosome by eukaryotic RNA polymerase
    • Studitsky, V. M., Kassavetis, G. A., Geiduschek, E. P. & Falsenfeld, G. Mechanism of transcription through the nucleosome by eukaryotic RNA polymerase. Science 278, 1960-1963 (1997).
    • (1997) Science , vol.278 , pp. 1960-1963
    • Studitsky, V.M.1    Kassavetis, G.A.2    Geiduschek, E.P.3    Falsenfeld, G.4
  • 15
    • 0036056999 scopus 로고    scopus 로고
    • The in vivo functions of ATP-dependent chromatin-remodelling factors
    • Tsukiyama, T. The in vivo functions of ATP-dependent chromatin-remodelling factors. Nature Rev. Mol. Cell Biol. 3, 422-429 (2002).
    • (2002) Nature Rev. Mol. Cell Biol. , vol.3 , pp. 422-429
    • Tsukiyama, T.1
  • 16
    • 0022914418 scopus 로고
    • Principles of sequence-dependent flexure of DNA
    • Calladine, C. R. & Drew, H. R. Principles of sequence-dependent flexure of DNA. J. Mol. Biol. 192, 907-918 (1986).
    • (1986) J. Mol. Biol. , vol.192 , pp. 907-918
    • Calladine, C.R.1    Drew, H.R.2
  • 17
    • 0036307707 scopus 로고    scopus 로고
    • Solvent mediated interactions in the structure of the nucleosome core particle at 1.9 Å resolution
    • Davey, C. A., Sargent, D. F., Luger, K., Maeder, A. W. & Richmond, T. J. Solvent mediated interactions in the structure of the nucleosome core particle at 1.9 Å resolution. J. Mol. Biol. 319, 1097-1113 (2002).
    • (2002) J. Mol. Biol. , vol.319 , pp. 1097-1113
    • Davey, C.A.1    Sargent, D.F.2    Luger, K.3    Maeder, A.W.4    Richmond, T.J.5
  • 18
    • 0037143629 scopus 로고    scopus 로고
    • DNA-dependent divalent cation binding in the nucleosome core particle
    • Davey, C. A. & Richmond, T. J. DNA-dependent divalent cation binding in the nucleosome core particle. Proc. Natl Acad. Sci. USA 99, 11169-11175 (2002).
    • (2002) Proc. Natl. Acad. Sci. USA , vol.99 , pp. 11169-11175
    • Davey, C.A.1    Richmond, T.J.2
  • 19
    • 0016850069 scopus 로고
    • Kinky helix
    • Crick, F. H. C. & Klug, A. Kinky helix. Nature 255, 530-533 (1975).
    • (1975) Nature , vol.255 , pp. 530-533
    • Crick, F.H.C.1    Klug, A.2
  • 20
    • 3142518260 scopus 로고    scopus 로고
    • Conformational characteristics of DNA: Empirical classifications and a hypothesis for the conformational behaviour of dinucleotide steps
    • El Hassan, M. A. & Calladine, C. R. Conformational characteristics of DNA: Empirical classifications and a hypothesis for the conformational behaviour of dinucleotide steps. Phil. Trans. R. Soc. Lond. A 355, 43-100 (1997).
    • (1997) Phil. Trans. R. Soc. Lond. A , vol.355 , pp. 43-100
    • El Hassan, M.A.1    Calladine, C.R.2
  • 21
    • 0024058085 scopus 로고
    • The definition of generalised helicoidal parameters and of axis curvature for irregular nucleic acids
    • Lavery, R. & Sklenar, H. The definition of generalised helicoidal parameters and of axis curvature for irregular nucleic acids. J. Biomol. Struct. Dynam. 6, 63-91 (1988).
    • (1988) J. Biomol. Struct. Dynam. , vol.6 , pp. 63-91
    • Lavery, R.1    Sklenar, H.2
  • 22
    • 0029006896 scopus 로고
    • Analysis of local helix bending in crystal structures of DNA oligonucleotides and DNA-protein complexes
    • Young, M. A., Ravishanker, G., Beveridge, D. L. & Berman, H. M. Analysis of local helix bending in crystal structures of DNA oligonucleotides and DNA-protein complexes. Biophys. J. 68, 2454-2468 (1995).
    • (1995) Biophys. J. , vol.68 , pp. 2454-2468
    • Young, M.A.1    Ravishanker, G.2    Beveridge, D.L.3    Berman, H.M.4
  • 23
    • 0030005131 scopus 로고    scopus 로고
    • Simulating DNA at low resolution
    • Olson, W. K. Simulating DNA at low resolution. Curr. Opin. Struct. Biol. 6, 242-256 (1996).
    • (1996) Curr. Opin. Struct. Biol. , vol.6 , pp. 242-256
    • Olson, W.K.1
  • 24
    • 0032522139 scopus 로고    scopus 로고
    • DNA bending: The prevalence of kinkiness and the virtues of normality
    • Dickerson, R. E. DNA bending: The prevalence of kinkiness and the virtues of normality. Nucleic Acids Res. 26, 1906-1926 (1998).
    • (1998) Nucleic Acids Res. , vol.26 , pp. 1906-1926
    • Dickerson, R.E.1
  • 25
    • 0028624664 scopus 로고
    • Bending and curvature calculations in B-DNA
    • Goodsell, D. S. & Dickerson, R. E. Bending and curvature calculations in B-DNA. Nucleic Acids Res. 22, 5497-5503 (1994).
    • (1994) Nucleic Acids Res. , vol.22 , pp. 5497-5503
    • Goodsell, D.S.1    Dickerson, R.E.2
  • 26
    • 0032544507 scopus 로고    scopus 로고
    • Two distinct modes of protein-induced bending in DNA
    • El Hassan, M. A. & Calladine, C. R. Two distinct modes of protein-induced bending in DNA. J. Mol. Biol. 282, 331-343 (1998).
    • (1998) J. Mol. Biol. , vol.282 , pp. 331-343
    • El Hassan, M.A.1    Calladine, C.R.2
  • 27
    • 0034823069 scopus 로고    scopus 로고
    • Sequence-structure relationships in DNA oligomers: A computational approach
    • Packer, M. J. & Hunter, C. A. Sequence-structure relationships in DNA oligomers: A computational approach. J. Am. Chem. Soc. 123, 7399-7406 (2001).
    • (2001) J. Am. Chem. Soc. , vol.123 , pp. 7399-7406
    • Packer, M.J.1    Hunter, C.A.2
  • 28
    • 0025966606 scopus 로고
    • Analysis of local helix geometry in three B-DNA decamers and eight dodecamers
    • Yanagi, K., Prive, G. G. & Dickerson, R. E. Analysis of local helix geometry in three B-DNA decamers and eight dodecamers. J. Mol. Biol. 217, 201-214 (1991).
    • (1991) J. Mol. Biol. , vol.217 , pp. 201-214
    • Yanagi, K.1    Prive, G.G.2    Dickerson, R.E.3
  • 29
    • 0025144957 scopus 로고
    • Effects of DNA sequence and histone-histone interactions on nucleosome placement
    • Shrader, T. E. & Crothers, D. M. Effects of DNA sequence and histone-histone interactions on nucleosome placement. J. Mol. Biol. 216, 69-84 (1990).
    • (1990) J. Mol. Biol. , vol.216 , pp. 69-84
    • Shrader, T.E.1    Crothers, D.M.2
  • 30
    • 0033548524 scopus 로고    scopus 로고
    • Dual role of DNA intrinsic curvature and flexibility in determining nucleosome stability
    • Anselmi, C., Bocchinfuso, G., De Santis, P., Savino, M. & Scipioni, A. Dual role of DNA intrinsic curvature and flexibility in determining nucleosome stability. J. Mol. Biol. 286, 1293-1301 (1999).
    • (1999) J. Mol. Biol. , vol.286 , pp. 1293-1301
    • Anselmi, C.1    Bocchinfuso, G.2    De Santis, P.3    Savino, M.4    Scipioni, A.5
  • 31
    • 2542609960 scopus 로고    scopus 로고
    • Helix bending as a factor in protein/DNA recognition
    • Dickerson, R. E. & Chiu, T. K. Helix bending as a factor in protein/DNA recognition. Biopolymers 44, 361-403 (1997).
    • (1997) Biopolymers , vol.44 , pp. 361-403
    • Dickerson, R.E.1    Chiu, T.K.2
  • 32
    • 0032540859 scopus 로고    scopus 로고
    • Sequence-dependent DNA structure: The role of the sugar-phosphate backbone
    • Packer, M. J. & Hunter, C. A. Sequence-dependent DNA structure: The role of the sugar-phosphate backbone. J. Mol. Biol. 280, 407-420 (1998).
    • (1998) J. Mol. Biol. , vol.280 , pp. 407-420
    • Packer, M.J.1    Hunter, C.A.2
  • 33
    • 0020359857 scopus 로고
    • Reversible bending and helix geometry in a B-DNA dodecamer: CGCGAATTBrCGCG
    • Fratini, A. V., Kopka, M. L., Drew, H. R. & Dickerson, R. E. Reversible bending and helix geometry in a B-DNA dodecamer: CGCGAATTBrCGCG. J. Biol. Chem. 257, 14686-14707 (1982).
    • (1982) J. Biol. Chem. , vol.257 , pp. 14686-14707
    • Fratini, A.V.1    Kopka, M.L.2    Drew, H.R.3    Dickerson, R.E.4
  • 34
    • 0032530555 scopus 로고    scopus 로고
    • DNA sequence-dependent deformability deduced from protein-DNA crystal complexes
    • Olson, W. K., Gorin, A. A., Lu, X. J., Hock, L. M. & Zhurkin, V. B. DNA sequence-dependent deformability deduced from protein-DNA crystal complexes. Proc. Natl Acad. Sci. USA 95, 11163-11168 (1998).
    • (1998) Proc. Natl. Acad. Sci. USA , vol.95 , pp. 11163-11168
    • Olson, W.K.1    Gorin, A.A.2    Lu, X.J.3    Hock, L.M.4    Zhurkin, V.B.5
  • 35
    • 0023657337 scopus 로고
    • The bending of DNA in nucleosomes and its wider implications
    • Travers, A. A. & Klug, A. The bending of DNA in nucleosomes and its wider implications. Phil. Trans. R. Soc. Lond. B 317, 537-561 (1987).
    • (1987) Phil. Trans. R. Soc. Lond. B , vol.317 , pp. 537-561
    • Travers, A.A.1    Klug, A.2
  • 37
    • 0035704707 scopus 로고    scopus 로고
    • Role of DNA sequence in nucleosome stability and dynamics
    • Widom, J. Role of DNA sequence in nucleosome stability and dynamics. Q. Rev. Biophys. 34, 269-324 (2001).
    • (2001) Q. Rev. Biophys. , vol.34 , pp. 269-324
    • Widom, J.1
  • 38
    • 0024292379 scopus 로고
    • Chromatin reconstitution on small DNA rings II. DNA supercoiling on the nucleosome
    • Zivanovic, Y., Goulet, I., Revet, B., Le Bret, M. & Prunell, A. Chromatin reconstitution on small DNA rings II. DNA supercoiling on the nucleosome. J. Mol. Biol. 200, 267-290 (1988).
    • (1988) J. Mol. Biol. , vol.200 , pp. 267-290
    • Zivanovic, Y.1    Goulet, I.2    Revet, B.3    Le Bret, M.4    Prunell, A.5
  • 39
    • 0019878241 scopus 로고
    • The helical periodicity of DNA on the nucleosome
    • Klug, A. & Lutter, L. C. The helical periodicity of DNA on the nucleosome. Nucleic Acids Res. 9, 4267-4283 (1981).
    • (1981) Nucleic Acids Res. , vol.9 , pp. 4267-4283
    • Klug, A.1    Lutter, L.C.2
  • 40
    • 0001346238 scopus 로고
    • Least-squares refinement of the crystal and molecular structures of DNA and RNA from x-ray data and standard bond lengths and angles
    • Arnott, S., Dover, S. D. & Wonacott, A. J. Least-squares refinement of the crystal and molecular structures of DNA and RNA from X-ray data and standard bond lengths and angles. Acta Crystallogr. B 25, 2192-2206 (1969).
    • (1969) Acta Crystallogr. B , vol.25 , pp. 2192-2206
    • Arnott, S.1    Dover, S.D.2    Wonacott, A.J.3


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