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Volumn 344, Issue 1, 2004, Pages 47-58

Theory of nucleosome corkscrew sliding in the presence of synthetic DNA ligands

Author keywords

DNA ligands; nucleosome; RNA polymerase

Indexed keywords

LIGAND; RNA POLYMERASE; SYNTHETIC DNA;

EID: 7044220398     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jmb.2004.09.027     Document Type: Article
Times cited : (34)

References (32)
  • 1
    • 1842411320 scopus 로고    scopus 로고
    • Crystal structure of the nucleosome core particle at 2.8 Å resolution
    • K. Luger, A.W. Mäder, R.K. Richmond, D.F. Sargent, and T.J. Richmond Crystal structure of the nucleosome core particle at 2.8 Å resolution Nature 389 1997 251 260
    • (1997) Nature , vol.389 , pp. 251-260
    • Luger, K.1    Mäder, A.W.2    Richmond, R.K.3    Sargent, D.F.4    Richmond, T.J.5
  • 2
    • 0031707751 scopus 로고    scopus 로고
    • Alteration of nucleosome structure as a mechanism of transcriptional regulation
    • J.L. Workman, and R.E. Kingston Alteration of nucleosome structure as a mechanism of transcriptional regulation Annu. Rev. Biochem. 67 1998 545 579
    • (1998) Annu. Rev. Biochem. , vol.67 , pp. 545-579
    • Workman, J.L.1    Kingston, R.E.2
  • 3
    • 0028791330 scopus 로고
    • Mechanism of protein access to specific DNA sequences in chromatin: A dynamic equilibrium model for gene regulation
    • K.J. Polach, and J. Widom Mechanism of protein access to specific DNA sequences in chromatin: a dynamic equilibrium model for gene regulation J. Mol. Biol. 254 1995 130 149
    • (1995) J. Mol. Biol. , vol.254 , pp. 130-149
    • Polach, K.J.1    Widom, J.2
  • 4
    • 0034598944 scopus 로고    scopus 로고
    • Sequence and position dependence of the equilibrium accessibility of nucleosomal DNA target sites
    • J.D. Anderson, and J. Widom Sequence and position dependence of the equilibrium accessibility of nucleosomal DNA target sites J. Mol. Biol. 296 2000 979 987
    • (2000) J. Mol. Biol. , vol.296 , pp. 979-987
    • Anderson, J.D.1    Widom, J.2
  • 5
  • 6
    • 0026642219 scopus 로고
    • Mobile nucleosomes-a general behavior
    • G. Meersseman, S. Pennings, and E.M. Bradbury Mobile nucleosomes-a general behavior EMBO J. 11 1992 2951 2959
    • (1992) EMBO J. , vol.11 , pp. 2951-2959
    • Meersseman, G.1    Pennings, S.2    Bradbury, E.M.3
  • 7
    • 0028130301 scopus 로고
    • Linker histones H1 and H5 prevent the mobility of positioned nucleosomes
    • S. Pennings, G. Meersseman, and E.M. Bradbury Linker histones H1 and H5 prevent the mobility of positioned nucleosomes Proc. Natl Acad. Sci. USA 91 1994 10275 10279
    • (1994) Proc. Natl Acad. Sci. USA , vol.91 , pp. 10275-10279
    • Pennings, S.1    Meersseman, G.2    Bradbury, E.M.3
  • 8
    • 0032559424 scopus 로고    scopus 로고
    • Positioning and stability of nucleosomes on MMTV 3′LTR sequences
    • A. Flaus, and T.J. Richmond Positioning and stability of nucleosomes on MMTV 3′LTR sequences J. Mol. Biol. 275 1998 427 441
    • (1998) J. Mol. Biol. , vol.275 , pp. 427-441
    • Flaus, A.1    Richmond, T.J.2
  • 9
    • 0033529565 scopus 로고    scopus 로고
    • Twenty-five years of the nucleosome, fundamental particle of the eukaryote chromosome
    • R.D. Kornberg, and Y. Lorch Twenty-five years of the nucleosome, fundamental particle of the eukaryote chromosome Cell 98 1999 285 294
    • (1999) Cell , vol.98 , pp. 285-294
    • Kornberg, R.D.1    Lorch, Y.2
  • 10
    • 0037119967 scopus 로고    scopus 로고
    • Nucleosome sliding: Facts and fiction
    • P.B. Becker Nucleosome sliding: facts and fiction EMBO J. 21 2002 4749 4753
    • (2002) EMBO J. , vol.21 , pp. 4749-4753
    • Becker, P.B.1
  • 12
    • 0037388372 scopus 로고    scopus 로고
    • Mechanisms for nucleosome mobilization
    • A. Flaus, and T. Owen-Hughes Mechanisms for nucleosome mobilization Biopolymers 68 2003 563 578
    • (2003) Biopolymers , vol.68 , pp. 563-578
    • Flaus, A.1    Owen-Hughes, T.2
  • 13
    • 0035820523 scopus 로고    scopus 로고
    • Polymer reptation and nucleosome repositioning
    • [Erratum: (2002) Phys. Rev. Letters, 88, 129902].
    • Schiessel, H., Widom, J., Bruinsma, R. F. & Gelbart, W. M. (2001). Polymer reptation and nucleosome repositioning. [Erratum: (2002) Phys. Rev. Letters, 88, 129902]. Phys. Rev. Letters, 86, 4414-4417.
    • (2001) Phys. Rev. Letters , vol.86 , pp. 4414-4417
    • Schiessel, H.1    Widom, J.2    Bruinsma, R.F.3    Gelbart, W.M.4
  • 14
    • 0038298709 scopus 로고    scopus 로고
    • Nucleosome repositioning via loop formation
    • I. Kulić, and H. Schiessel Nucleosome repositioning via loop formation Biophys. J. 84 2003 3197 3211
    • (2003) Biophys. J. , vol.84 , pp. 3197-3211
    • Kulić, I.1    Schiessel, H.2
  • 15
    • 0242677113 scopus 로고    scopus 로고
    • Chromatin dynamics: Nucleosomes go mobile through twist defects
    • I. Kulić, and H. Schiessel Chromatin dynamics: nucleosomes go mobile through twist defects Phys. Rev. Letters 91 2003 148103
    • (2003) Phys. Rev. Letters , vol.91 , pp. 148103
    • Kulić, I.1    Schiessel, H.2
  • 16
    • 0033869101 scopus 로고    scopus 로고
    • A theoretical model for the prediction of sequence-dependent nucleosome thermodynamic stability
    • C. Anselmi, G. Bocchinfuso, P. De Santis, M. Savino, and A. Scipioni A theoretical model for the prediction of sequence-dependent nucleosome thermodynamic stability Biophys. J. 79 2000 601 613
    • (2000) Biophys. J. , vol.79 , pp. 601-613
    • Anselmi, C.1    Bocchinfuso, G.2    De Santis, P.3    Savino, M.4    Scipioni, A.5
  • 17
    • 0037134772 scopus 로고    scopus 로고
    • Nucleosome organization on Kluyveromyces lactis centromeric DNAs
    • S. Mattei, B. Sampaolese, P. De Santis, and M. Savino Nucleosome organization on Kluyveromyces lactis centromeric DNAs Biophys. Chem. 97 2002 173 187
    • (2002) Biophys. Chem. , vol.97 , pp. 173-187
    • Mattei, S.1    Sampaolese, B.2    De Santis, P.3    Savino, M.4
  • 20
    • 0028125847 scopus 로고
    • A histone octamer can step around a transcribing polymerase without leaving the template
    • V.M. Studitsky, D.J. Clark, and G. Felsenfeld A histone octamer can step around a transcribing polymerase without leaving the template Cell 76 1994 371 382
    • (1994) Cell , vol.76 , pp. 371-382
    • Studitsky, V.M.1    Clark, D.J.2    Felsenfeld, G.3
  • 21
    • 0028850059 scopus 로고
    • Overcoming a nucleosomal barrier to transcription
    • V.M. Studitsky, D.J. Clark, and G. Felsenfeld Overcoming a nucleosomal barrier to transcription Cell 83 1995 19 27
    • (1995) Cell , vol.83 , pp. 19-27
    • Studitsky, V.M.1    Clark, D.J.2    Felsenfeld, G.3
  • 22
    • 0031451329 scopus 로고    scopus 로고
    • Mechanism of transcription through the nucleosome by eukaryotic RNA polymerase
    • V.M. Studitsky, C.A. Kassavetis, E.P. Geiduschek, and G. Felsenfeld Mechanism of transcription through the nucleosome by eukaryotic RNA polymerase Science 278 1997 1960 1963
    • (1997) Science , vol.278 , pp. 1960-1963
    • Studitsky, V.M.1    Kassavetis, C.A.2    Geiduschek, E.P.3    Felsenfeld, G.4
  • 23
    • 0033197561 scopus 로고    scopus 로고
    • The nature of the nucleosomal barrier to transcription: Direct observation of paused intermediates by electron cryomicroscopy
    • J. Bednar, V.M. Studitsky, S.A. Gregoryev, G. Felsenfeld, and C.L. Woodcock The nature of the nucleosomal barrier to transcription: direct observation of paused intermediates by electron cryomicroscopy Mol. Cell 4 1999 377 386
    • (1999) Mol. Cell , vol.4 , pp. 377-386
    • Bednar, J.1    Studitsky, V.M.2    Gregoryev, S.A.3    Felsenfeld, G.4    Woodcock, C.L.5
  • 24
    • 0347193736 scopus 로고
    • Reaction-rate theory: Fifty years after Kramers
    • P. Hänggi, P. Talkner, and M. Borkovec Reaction-rate theory: fifty years after Kramers Rev. Mod. Phys. 62 1990 251 341
    • (1990) Rev. Mod. Phys. , vol.62 , pp. 251-341
    • Hänggi, P.1    Talkner, P.2    Borkovec, M.3
  • 26
    • 0142127778 scopus 로고    scopus 로고
    • Motion of RNA polymerase along DNA: A stochastic model
    • F. Jülicher, and R. Bruinsma Motion of RNA polymerase along DNA: a stochastic model Biophys. J. 74 1998 1169 1185
    • (1998) Biophys. J. , vol.74 , pp. 1169-1185
    • Jülicher, F.1    Bruinsma, R.2
  • 29
    • 0036203807 scopus 로고    scopus 로고
    • Nucleosome remodeling induced by RNA polymerase II: Loss of the H2A/H2B dimer during transcription
    • M.L. Kireeva, W. Walter, V. Tchernajenko, V. Bondarenko, M. Kashlev, and V.M. Studitsky Nucleosome remodeling induced by RNA polymerase II: loss of the H2A/H2B dimer during transcription Mol. Cell 9 2002 541 552
    • (2002) Mol. Cell , vol.9 , pp. 541-552
    • Kireeva, M.L.1    Walter, W.2    Tchernajenko, V.3    Bondarenko, V.4    Kashlev, M.5    Studitsky, V.M.6
  • 30
    • 0029993533 scopus 로고    scopus 로고
    • Nucleosome transcription studied in a real time synchronius system: Test of the lexosome model and direct measurement of effects due to histone octamer
    • R.U. Protacio, and J. Widom Nucleosome transcription studied in a real time synchronius system: test of the lexosome model and direct measurement of effects due to histone octamer J. Mol. Biol. 256 1996 458 472
    • (1996) J. Mol. Biol. , vol.256 , pp. 458-472
    • Protacio, R.U.1    Widom, J.2
  • 31
    • 0029007043 scopus 로고
    • Fate of linear and supercoiled multinucleosomic templates during transcription
    • B. ten Heggeler-Bodier, C. Schild-Poulter, S. Chapel, and W. Wahli Fate of linear and supercoiled multinucleosomic templates during transcription EMBO J. 14 1995 2561 2569
    • (1995) EMBO J. , vol.14 , pp. 2561-2569
    • Ten Heggeler-Bodier, B.1    Schild-Poulter, C.2    Chapel, S.3    Wahli, W.4
  • 32
    • 0034674153 scopus 로고    scopus 로고
    • An immuno-electron microscopical analysis of transcribing multinucleosomal templates: What happens to the histones?
    • B. ten Heggeler-Bodier, S. Muller, M. Monestier, and W. Wahli An immuno-electron microscopical analysis of transcribing multinucleosomal templates: what happens to the histones? J. Mol. Biol. 299 2000 853 858
    • (2000) J. Mol. Biol. , vol.299 , pp. 853-858
    • Ten Heggeler-Bodier, B.1    Muller, S.2    Monestier, M.3    Wahli, W.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.