메뉴 건너뛰기




Volumn 90, Issue 12, 2006, Pages 4305-4316

Computer modeling demonstrates that electrostatic attraction of nucleosomal DNA is mediated by histone tails

Author keywords

[No Author keywords available]

Indexed keywords

DNA; HISTONE; MAGNESIUM CHLORIDE;

EID: 33744800781     PISSN: 00063495     EISSN: None     Source Type: Journal    
DOI: 10.1529/biophysj.105.080226     Document Type: Article
Times cited : (62)

References (74)
  • 1
    • 1842411320 scopus 로고    scopus 로고
    • Crystal structure of the nucleosome core particle at 2.8 Å resolution
    • Luger, K., A. W. Mader, R. K. Richmond, D. F. Sargent, and T. J. Richmond. 1997. Crystal structure of the nucleosome core particle at 2.8 Å resolution. Nature. 389:251-260.
    • (1997) Nature , vol.389 , pp. 251-260
    • Luger, K.1    Mader, A.W.2    Richmond, R.K.3    Sargent, D.F.4    Richmond, T.J.5
  • 2
    • 0036307707 scopus 로고    scopus 로고
    • Solvent mediated interactions in the structure of nucleosome core particle at 1.9 Å resolution
    • Davey, C. A., D. F. Sargent, K. Luger, A. W. Maeder, and T. J. Richmond. 2002. Solvent mediated interactions in the structure of nucleosome core particle at 1.9 Å resolution. J. Mol. Biol. 319:1097-1113.
    • (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
  • 3
    • 0035313770 scopus 로고    scopus 로고
    • Higher-order structure of chromatin and chromosomes
    • Woodcock, C. L., and S. Dimitrov. 2001. Higher-order structure of chromatin and chromosomes. Curr. Opin. Genet. Dev. 11:130-135.
    • (2001) Curr. Opin. Genet. Dev. , vol.11 , pp. 130-135
    • Woodcock, C.L.1    Dimitrov, S.2
  • 4
    • 0036089388 scopus 로고    scopus 로고
    • Conformational dynamics of the chromatin fiber in solution: Determinants, mechanisms, and functions
    • Hansen, J. C. 2002. Conformational dynamics of the chromatin fiber in solution: determinants, mechanisms, and functions. Annu. Rev. Biophys. Biomol. Struct. 31:361-392.
    • (2002) Annu. Rev. Biophys. Biomol. Struct. , vol.31 , pp. 361-392
    • Hansen, J.C.1
  • 5
    • 17044365726 scopus 로고    scopus 로고
    • Nucleosome and chromatin fiber dynamics
    • Luger, K., and J. C. Hansen. 2005. Nucleosome and chromatin fiber dynamics. Curr. Opin. Struct. Biol. 15:188-196.
    • (2005) Curr. Opin. Struct. Biol. , vol.15 , pp. 188-196
    • Luger, K.1    Hansen, J.C.2
  • 6
  • 7
    • 0037072601 scopus 로고    scopus 로고
    • Chromatin higher order folding: Wrapping up transcription
    • Horn, P. J., and C. L. Peterson. 2002. Chromatin higher order folding: wrapping up transcription. Science. 297:1824-1827.
    • (2002) Science , vol.297 , pp. 1824-1827
    • Horn, P.J.1    Peterson, C.L.2
  • 9
    • 0037384851 scopus 로고    scopus 로고
    • The nonessential H2A N-terminal tail can function as an essential charge patch on the H2A.Z variant N-terminal tail
    • Ren, Q., and M. A. Gorovsky. 2003. The nonessential H2A N-terminal tail can function as an essential charge patch on the H2A.Z variant N-terminal tail. Mol. Cell. Biol. 23:2778-2789.
    • (2003) Mol. Cell. Biol. , vol.23 , pp. 2778-2789
    • Ren, Q.1    Gorovsky, M.A.2
  • 10
    • 0003903126 scopus 로고
    • Springer-Verlag, New York
    • van Holde, K. E. 1989. Chromatin. Springer-Verlag, New York.
    • (1989) Chromatin
    • Van Holde, K.E.1
  • 11
    • 0025327471 scopus 로고
    • Electrostatic mechanism of chromatin folding
    • Clark, D. J., and T. Kimura. 1990. Electrostatic mechanism of chromatin folding. J. Mol. Biol. 211:883-896.
    • (1990) J. Mol. Biol. , vol.211 , pp. 883-896
    • Clark, D.J.1    Kimura, T.2
  • 12
    • 0029780079 scopus 로고    scopus 로고
    • What determine the folding of the chromatin fiber?
    • van Holde, K., and I. Zlatanova. 1996. What determine the folding of the chromatin fiber? Proc. Natl. Acad. Sci. USA. 93:10548-10555.
    • (1996) Proc. Natl. Acad. Sci. USA , vol.93 , pp. 10548-10555
    • Van Holde, K.1    Zlatanova, I.2
  • 13
    • 25844484588 scopus 로고    scopus 로고
    • Salt-dependent intra- and inter-nucleosomal interactions of the H3 tail domain in a model oligonucleosomal array
    • Zheng, C., X. Lu, J. C. Hansen, and J. J. Hayes. 2005. Salt-dependent intra- and inter-nucleosomal interactions of the H3 tail domain in a model oligonucleosomal array. J. Biol. Chem. 280:33552-33557.
    • (2005) J. Biol. Chem. , vol.280 , pp. 33552-33557
    • Zheng, C.1    Lu, X.2    Hansen, J.C.3    Hayes, J.J.4
  • 14
    • 26644471508 scopus 로고    scopus 로고
    • The core histone N-terminal tail domains function independently and additively during salt-dependent oligomerization of nuclesomal arrays
    • Gordon, F., K. Luger, and J. C. Hansen. 2005. The core histone N-terminal tail domains function independently and additively during salt-dependent oligomerization of nuclesomal arrays. J. Biol. Chem. 280:33701-33706.
    • (2005) J. Biol. Chem. , vol.280 , pp. 33701-33706
    • Gordon, F.1    Luger, K.2    Hansen, J.C.3
  • 16
    • 0036221883 scopus 로고    scopus 로고
    • Salt-induced conformation and interaction changes of nucleosome core particles
    • Mangenot, S., A. Leforestier, P. Vachette, D. Durand, and F. Livolant. 2002. Salt-induced conformation and interaction changes of nucleosome core particles. Biophys. J. 82:345-356.
    • (2002) Biophys. J. , vol.82 , pp. 345-356
    • Mangenot, S.1    Leforestier, A.2    Vachette, P.3    Durand, D.4    Livolant, F.5
  • 17
    • 1942502793 scopus 로고    scopus 로고
    • Role of histone tails in the conformation and interaction of nucleosome core particles
    • Bertin, A., A. Leforestier, D. Durand, and F. Livolant. 2004. Role of histone tails in the conformation and interaction of nucleosome core particles. Biochemistry. 43:4773-4780.
    • (2004) Biochemistry , vol.43 , pp. 4773-4780
    • Bertin, A.1    Leforestier, A.2    Durand, D.3    Livolant, F.4
  • 18
    • 0036525256 scopus 로고    scopus 로고
    • Interactions between isolated nucleosome core particles. A tail bridging effect?
    • Mangenot, S., E. Raspaud, C. Tribet, L. Belloni, and F. Livolant. 2002. Interactions between isolated nucleosome core particles. A tail bridging effect? Eur. Phys. J. E. 7:221-231.
    • (2002) Eur. Phys. J. E. , vol.7 , pp. 221-231
    • Mangenot, S.1    Raspaud, E.2    Tribet, C.3    Belloni, L.4    Livolant, F.5
  • 19
    • 0018803816 scopus 로고
    • Counterion-induced condensation of deoxyribonucleic acid. A light-scattering study
    • Wilsons, R. W., and V. A. Bloomfield. 1979. Counterion-induced condensation of deoxyribonucleic acid. A light-scattering study. Biochemistry. 18:2192-2196.
    • (1979) Biochemistry , vol.18 , pp. 2192-2196
    • Wilsons, R.W.1    Bloomfield, V.A.2
  • 21
    • 0000104144 scopus 로고    scopus 로고
    • Electrostatically induced polyelectrolyte association of rod like virus particles
    • Lyubartsev, A. P., J. X. Tang, P. A. Janmey, and L. Nordenskiöld. 1998. Electrostatically induced polyelectrolyte association of rod like virus particles. Phys. Rev. Lett. 81:5465-5468.
    • (1998) Phys. Rev. Lett. , vol.81 , pp. 5465-5468
    • Lyubartsev, A.P.1    Tang, J.X.2    Janmey, P.A.3    Nordenskiöld, L.4
  • 22
    • 0036280656 scopus 로고    scopus 로고
    • Metal ion-induced lateral aggregation of filamentous viruses fd and M13
    • Tang, J. X., P. A. Janmey, A. P. Lyubartsev, and L. Nordenskiöld. 2002. Metal ion-induced lateral aggregation of filamentous viruses fd and M13. Biophys. J. 83:566-581.
    • (2002) Biophys. J. , vol.83 , pp. 566-581
    • Tang, J.X.1    Janmey, P.A.2    Lyubartsev, A.P.3    Nordenskiöld, L.4
  • 23
    • 0041306048 scopus 로고    scopus 로고
    • Like-charge attraction between polyelectrolytes induced by counterion charge density waves
    • Angelini, T. E., H. Liang, W. Wriggers, and G. C. L. Wong. 2003. Like-charge attraction between polyelectrolytes induced by counterion charge density waves. Proc. Natl. Acad. Sci. USA. 100:8634-8637.
    • (2003) Proc. Natl. Acad. Sci. USA , vol.100 , pp. 8634-8637
    • Angelini, T.E.1    Liang, H.2    Wriggers, W.3    Wong, G.C.L.4
  • 24
    • 12844260994 scopus 로고    scopus 로고
    • Probing counterion modulation repulsion and attraction berween nucleic acid duplexes in solution
    • Bai, Y., R. Das, I. S. Millett, D. Herschlag, and S. Doniach. 2005. Probing counterion modulation repulsion and attraction berween nucleic acid duplexes in solution. Proc. Natl. Acad. Sci. USA. 102:1035-1040.
    • (2005) Proc. Natl. Acad. Sci. USA , vol.102 , pp. 1035-1040
    • Bai, Y.1    Das, R.2    Millett, I.S.3    Herschlag, D.4    Doniach, S.5
  • 25
    • 33645091351 scopus 로고
    • Monte Carlo simulation study of ion distribution and osmotic pressure in hexagonally oriented DNA
    • Lyubartsev, A. P., and L. Nordenskiöld. 1995. Monte Carlo simulation study of ion distribution and osmotic pressure in hexagonally oriented DNA. J. Phys. Chem. 99:10373-10382.
    • (1995) J. Phys. Chem. , vol.99 , pp. 10373-10382
    • Lyubartsev, A.P.1    Nordenskiöld, L.2
  • 27
    • 0031236968 scopus 로고    scopus 로고
    • Effect of counterion valence and polymer charge density on the pair potential of two polyions
    • Ray, J., and G. S. Manning. 1997. Effect of counterion valence and polymer charge density on the pair potential of two polyions. Macromolecules. 30:5739-5744.
    • (1997) Macromolecules , vol.30 , pp. 5739-5744
    • Ray, J.1    Manning, G.S.2
  • 30
    • 0025699197 scopus 로고
    • Interaction of charged surfaces with grafted polyelectrolytes: A Poisson-Boltzmann and Monte Carlo study
    • Miklavic, S. J., C. E. Woodward, B. Jönsson, and T. Åkesson. 1990. Interaction of charged surfaces with grafted polyelectrolytes: a Poisson-Boltzmann and Monte Carlo study. Macromolecules. 23:4149-4157.
    • (1990) Macromolecules , vol.23 , pp. 4149-4157
    • Miklavic, S.J.1    Woodward, C.E.2    Jönsson, B.3    Åkesson, T.4
  • 31
    • 20644462131 scopus 로고    scopus 로고
    • Charged colloidal solutions with short flexible counterions
    • Rescic, J., and P. Linse. 2000. Charged colloidal solutions with short flexible counterions. J. Phys. Chem. B. 104:7852-7857.
    • (2000) J. Phys. Chem. B. , vol.104 , pp. 7852-7857
    • Rescic, J.1    Linse, P.2
  • 32
    • 6444241513 scopus 로고    scopus 로고
    • Polyelectrolyte-mediated bridging interactions
    • Podgornik, R. 2004. Polyelectrolyte-mediated bridging interactions. J. Polym. Sci. [B]. 42:3539-3556.
    • (2004) J. Polym. Sci. [B]. , vol.42 , pp. 3539-3556
    • Podgornik, R.1
  • 33
    • 0034614436 scopus 로고    scopus 로고
    • Pulling chromatin fibers: Computer simulations of direct physical micromanipulations
    • Katritch, V., C. Bustamante, and W. K. Olson. 2000. Pulling chromatin fibers: computer simulations of direct physical micromanipulations. J. Mol. Biol. 295:29-40.
    • (2000) J. Mol. Biol. , vol.295 , pp. 29-40
    • Katritch, V.1    Bustamante, C.2    Olson, W.K.3
  • 34
    • 0031967830 scopus 로고    scopus 로고
    • Modeling chain folding in protein-constrained circular DNA
    • Martino, J. A., and W. K. Olson. 1998. Modeling chain folding in protein-constrained circular DNA. Biophys. J. 74:2491-2500.
    • (1998) Biophys. J. , vol.74 , pp. 2491-2500
    • Martino, J.A.1    Olson, W.K.2
  • 35
    • 0033566724 scopus 로고    scopus 로고
    • Influence of nucleosome structure on the three-dimensional folding of idealized minichromosomes
    • Martino, J. A., V. Katritch, and W. K. Olson. 1999. Influence of nucleosome structure on the three-dimensional folding of idealized minichromosomes. Struct. Fold. Des. 7:1009-1022.
    • (1999) Struct. Fold. Des. , vol.7 , pp. 1009-1022
    • Martino, J.A.1    Katritch, V.2    Olson, W.K.3
  • 36
    • 0035093560 scopus 로고    scopus 로고
    • Computational modeling predicts the structure and dynamics of chromatin fiber
    • Beard, D. A., and T. Schlick. 2001. Computational modeling predicts the structure and dynamics of chromatin fiber. Structure. 9:105-114.
    • (2001) Structure , vol.9 , pp. 105-114
    • Beard, D.A.1    Schlick, T.2
  • 37
    • 0036099317 scopus 로고    scopus 로고
    • Computer simulation of the 30-nanometer chromatin fiber
    • Wademann, G., and J. Langowski. 2002. Computer simulation of the 30-nanometer chromatin fiber. Biophys. J. 82:2847-2859.
    • (2002) Biophys. J. , vol.82 , pp. 2847-2859
    • Wademann, G.1    Langowski, J.2
  • 38
    • 0035156429 scopus 로고    scopus 로고
    • Modeling salt-mediated electrostatics of macromolecules: The discrete surface charge optimization algorithm and its application to the nucleosome
    • Beard, D. A., and T. Schlick. 2001. Modeling salt-mediated electrostatics of macromolecules: the discrete surface charge optimization algorithm and its application to the nucleosome. Biopolymers. 58:106-115.
    • (2001) Biopolymers , vol.58 , pp. 106-115
    • Beard, D.A.1    Schlick, T.2
  • 39
    • 0042940030 scopus 로고    scopus 로고
    • Constructing irregular surfaces to enclose macromolecular complexes for mesoscale modeling using the discrete surface charge optimization (DiSCO) algorithm
    • Zhang, Q., D. A. Beard, and T. Schlick. 2003. Constructing irregular surfaces to enclose macromolecular complexes for mesoscale modeling using the discrete surface charge optimization (DiSCO) algorithm. J .Comput .Chem. 24:2063-2074.
    • (2003) J.Comput.Chem. , vol.24 , pp. 2063-2074
    • Zhang, Q.1    Beard, D.A.2    Schlick, T.3
  • 40
    • 20444377701 scopus 로고    scopus 로고
    • Electrostatic mechanism of nucleosomal array folding revealed by computer simulation
    • Sun, J., Q. Zhang, and T. Schlick. 2005. Electrostatic mechanism of nucleosomal array folding revealed by computer simulation. Proc. Natl. Acad. Sci. USA. 102:8180-8185.
    • (2005) Proc. Natl. Acad. Sci. USA , vol.102 , pp. 8180-8185
    • Sun, J.1    Zhang, Q.2    Schlick, T.3
  • 41
    • 0032558998 scopus 로고    scopus 로고
    • Structure and function of the core histone N-termini: More than meets the eye
    • Hansen, J. C., C. Tse, and A. P. Wolffe. 1998. Structure and function of the core histone N-termini: more than meets the eye. Biochemistry. 37:17637-17641.
    • (1998) Biochemistry , vol.37 , pp. 17637-17641
    • Hansen, J.C.1    Tse, C.2    Wolffe, A.P.3
  • 42
    • 0000116412 scopus 로고    scopus 로고
    • Osmotic and activity coefficient from effective potentials for hydrated ions
    • Lyubartsev, A. P., and A. Laaksonen. 1997. Osmotic and activity coefficient from effective potentials for hydrated ions. Phys.Rev.E. 55:5689-5696.
    • (1997) Phys.Rev.E. , vol.55 , pp. 5689-5696
    • Lyubartsev, A.P.1    Laaksonen, A.2
  • 43
    • 0028016368 scopus 로고
    • Ion-pair potentials-of-mean-force in water
    • Pratt, L. R., G. Hummer, and A. E. Garcia. 1994. Ion-pair potentials-of-mean-force in water. Biophys. Chem. 51:147-165.
    • (1994) Biophys. Chem. , vol.51 , pp. 147-165
    • Pratt, L.R.1    Hummer, G.2    Garcia, A.E.3
  • 45
    • 36449001060 scopus 로고
    • Ionic distribution around simple DNA models. I. Cylindrically averaged properties
    • Montoro, J. C. G., and J. L. F. Abascal. 1995. Ionic distribution around simple DNA models. I. Cylindrically averaged properties. J. Chem. Phys. 103:8273-8284.
    • (1995) J. Chem. Phys. , vol.103 , pp. 8273-8284
    • Montoro, J.C.G.1    Abascal, J.L.F.2
  • 46
    • 0033080794 scopus 로고    scopus 로고
    • Chromatin disruption and modification
    • Wolffe, A. P., and J. J. Hayes. 1999. Chromatin disruption and modification. Nucleic Acids Res. 27:711-720.
    • (1999) Nucleic Acids Res. , vol.27 , pp. 711-720
    • Wolffe, A.P.1    Hayes, J.J.2
  • 47
    • 36449003554 scopus 로고
    • Constant pressure molecular dynamics algorithms
    • Martyna, G. J., D. J. Tobias, and M. L. Klein. 1994. Constant pressure molecular dynamics algorithms. J. Chem. Phys. 101:4177-4189.
    • (1994) J. Chem. Phys. , vol.101 , pp. 4177-4189
    • Martyna, G.J.1    Tobias, D.J.2    Klein, M.L.3
  • 48
    • 36449001994 scopus 로고
    • The nature of flexible linear polyelectrolytes in salt free solution: A molecular dynamics study
    • Stevens, M. J., and K. Kreker. 1995. The nature of flexible linear polyelectrolytes in salt free solution: a molecular dynamics study. J. Chem. Phys. 103:1669-1690.
    • (1995) J. Chem. Phys. , vol.103 , pp. 1669-1690
    • Stevens, M.J.1    Kreker, K.2
  • 49
    • 0035366609 scopus 로고    scopus 로고
    • End effects of strongly charged polyelectrolytes: A molecular dynamics study
    • Limbach, H. J., and C. Holm. 2001. End effects of strongly charged polyelectrolytes: a molecular dynamics study. J. Chem. Phys. 114:9674-9682.
    • (2001) J. Chem. Phys. , vol.114 , pp. 9674-9682
    • Limbach, H.J.1    Holm, C.2
  • 50
    • 11044233935 scopus 로고    scopus 로고
    • Coarse grained simulations of lipid bilayers
    • Stevens, M. J. 2004. Coarse grained simulations of lipid bilayers. J. Chem. Phys. 121:11942-11948.
    • (2004) J. Chem. Phys. , vol.121 , pp. 11942-11948
    • Stevens, M.J.1
  • 51
    • 27944495588 scopus 로고    scopus 로고
    • Multiscale modeling of lipids and lipid bilayers
    • Lyubartsev, A. P. 2005. Multiscale modeling of lipids and lipid bilayers. Eur. Biophys. J. 35:53-61.
    • (2005) Eur. Biophys. J. , vol.35 , pp. 53-61
    • Lyubartsev, A.P.1
  • 52
    • 0242352409 scopus 로고    scopus 로고
    • Counting nucleosomes in living cells with a combination of fluorescent correlation spectroscopy and confocal imaging
    • Weidemann, T., M. Wachsmuth, T. Knoch, G. Muller, W. Waldeck, and J. Langowski. 2003. Counting nucleosomes in living cells with a combination of fluorescent correlation spectroscopy and confocal imaging. J. Mol. Biol. 334:229-240.
    • (2003) J. Mol. Biol. , vol.334 , pp. 229-240
    • Weidemann, T.1    Wachsmuth, M.2    Knoch, T.3    Muller, G.4    Waldeck, W.5    Langowski, J.6
  • 53
    • 0348244547 scopus 로고    scopus 로고
    • All-atom empirical force field for nucleic acids: I. Parameter optimization based on small molecule and condensed phase macromolecular target data
    • Foloppe, N., and A. D. MacKerell. 2000. All-atom empirical force field for nucleic acids: I. Parameter optimization based on small molecule and condensed phase macromolecular target data. J.Comput. Chem. 21:86-104.
    • (2000) J.Comput. Chem. , vol.21 , pp. 86-104
    • Foloppe, N.1    MacKerell, A.D.2
  • 54
    • 0000214231 scopus 로고    scopus 로고
    • All-atom empirical force field for nucleic acids: II. Application to molecular dynamics simulations of DNA and RNA in solution
    • MacKerell, A. D., and N. Banavali. 2000. All-atom empirical force field for nucleic acids: II. Application to molecular dynamics simulations of DNA and RNA in solution. J.Comput. Chem. 21:105-120.
    • (2000) J.Comput. Chem. , vol.21 , pp. 105-120
    • MacKerell, A.D.1    Banavali, N.2
  • 55
    • 0001251663 scopus 로고
    • Molecular-dynamics study of atomic motions in water
    • Toukan, K., and A. Rahman. 1985. Molecular-dynamics study of atomic motions in water. Phys. Rev. B. 31:2643-2648.
    • (1985) Phys. Rev. B. , vol.31 , pp. 2643-2648
    • Toukan, K.1    Rahman, A.2
  • 56
    • 0000333851 scopus 로고
    • Computer simulations of aqueous electrolyte solutions
    • Heinzinger, K. 1985. Computer simulations of aqueous electrolyte solutions. Physica B. 131:196-216.
    • (1985) Physica B. , vol.131 , pp. 196-216
    • Heinzinger, K.1
  • 57
    • 0034206682 scopus 로고    scopus 로고
    • M.DynaMix: A scalable portable parallel MD simulation package for arbitrary molecular mixtures
    • Lyubartsev, A. P., and A. Laaksonen. 2000. M.DynaMix: a scalable portable parallel MD simulation package for arbitrary molecular mixtures. Comput. Phys. Commun. 128:565-589.
    • (2000) Comput. Phys. Commun. , vol.128 , pp. 565-589
    • Lyubartsev, A.P.1    Laaksonen, A.2
  • 58
    • 0035906709 scopus 로고    scopus 로고
    • Spermine: An "invisible" component in the crystals of B-DNA. A grand canonical Monte Carlo and molecular dynamics simulation study
    • Korolev, N., A. P. Lyubartsev, L. Nordenskiöld, and A. Laaksonen. 2001. Spermine: an "invisible" component in the crystals of B-DNA. A grand canonical Monte Carlo and molecular dynamics simulation study. J. Mol. Biol. 308:907-917.
    • (2001) J. Mol. Biol. , vol.308 , pp. 907-917
    • Korolev, N.1    Lyubartsev, A.P.2    Nordenskiöld, L.3    Laaksonen, A.4
  • 59
    • 0344011142 scopus 로고    scopus 로고
    • A molecular dynamics simulation study of oriented DNA with polyamine and sodium counterions: Diffusion and averaged binding of water and cations
    • Korolev, N., A. P. Lyubartsev, A. Laaksonen, and L. Nordenskiöld. 2003. A molecular dynamics simulation study of oriented DNA with polyamine and sodium counterions: diffusion and averaged binding of water and cations. Nucleic Acids Res. 31:5971-5981.
    • (2003) Nucleic Acids Res. , vol.31 , pp. 5971-5981
    • Korolev, N.1    Lyubartsev, A.P.2    Laaksonen, A.3    Nordenskiöld, L.4
  • 60
    • 33646650705 scopus 로고
    • Reversible multiple time scale molecular-dynamics
    • Tuckerman, M., B. Berne, and G. J. Martyna. 1992. Reversible multiple time scale molecular-dynamics. J. Chem. Phys. 97:1990-2001.
    • (1992) J. Chem. Phys. , vol.97 , pp. 1990-2001
    • Tuckerman, M.1    Berne, B.2    Martyna, G.J.3
  • 61
    • 0028184697 scopus 로고
    • Measuring the geometry of DNA grooves
    • Stofer, E., and R. Lavery. 1994. Measuring the geometry of DNA grooves. Biopolymers. 34:337-346.
    • (1994) Biopolymers , vol.34 , pp. 337-346
    • Stofer, E.1    Lavery, R.2
  • 62
    • 0036106375 scopus 로고    scopus 로고
    • On the competition between water, sodium ions, and spermine in binding to DNA. A molecular dynamics computer simulation study
    • Korolev, N., A. P. Lyubartsev, A. Laaksonen, and L. Nordenskiöld. 2002. On the competition between water, sodium ions, and spermine in binding to DNA. A molecular dynamics computer simulation study. Biophys. J. 82:2860-2875.
    • (2002) Biophys. J. , vol.82 , pp. 2860-2875
    • Korolev, N.1    Lyubartsev, A.P.2    Laaksonen, A.3    Nordenskiöld, L.4
  • 63
    • 1842683168 scopus 로고    scopus 로고
    • Molecular dynamics simulation study of oriented polyamine- And Na-DNA: Sequence specific interactions and effects on DNA structure
    • Korolev, N., A. P. Lyubartsev, A. Laaksonen, and L. Nordenskiöld. 2004. Molecular dynamics simulation study of oriented polyamine- and Na-DNA: Sequence specific interactions and effects on DNA structure. Biopolymers. 73:542-555.
    • (2004) Biopolymers , vol.73 , pp. 542-555
    • Korolev, N.1    Lyubartsev, A.P.2    Laaksonen, A.3    Nordenskiöld, L.4
  • 64
    • 11244319427 scopus 로고    scopus 로고
    • A molecular dynamics simulation study of polyamine- and sodium-DNA. Interplay between polyamine binding and DNA structure
    • Korolev, N., A. P. Lyubartsev, A. Laaksonen, and L. Nordenskiöld. 2004. A molecular dynamics simulation study of polyamine- and sodium-DNA. Interplay between polyamine binding and DNA structure. Eur. Biophys. J. 33:671-682.
    • (2004) Eur. Biophys. J. , vol.33 , pp. 671-682
    • Korolev, N.1    Lyubartsev, A.P.2    Laaksonen, A.3    Nordenskiöld, L.4
  • 65
    • 4043179941 scopus 로고    scopus 로고
    • DNA and its counterions: A molecular dynamics study
    • Varnai, P., and K. Zakrzewska. 2004. DNA and its counterions: a molecular dynamics study. Nucleic Acids Res. 32:4269-4280.
    • (2004) Nucleic Acids Res. , vol.32 , pp. 4269-4280
    • Varnai, P.1    Zakrzewska, K.2
  • 67
    • 0034802485 scopus 로고    scopus 로고
    • Influence of the dynamic positions of cations on the structure of the DNA minor groove: Sequence-dependent effects
    • Hamelberg, D., L. D. Williams, and W. D. Wilson. 2001. Influence of the dynamic positions of cations on the structure of the DNA minor groove: sequence-dependent effects. J. Am. Chem. Soc. 123:7745-7755.
    • (2001) J. Am. Chem. Soc. , vol.123 , pp. 7745-7755
    • Hamelberg, D.1    Williams, L.D.2    Wilson, W.D.3
  • 68
    • 0022982049 scopus 로고
    • Natural abundance carbon-13 nuclear magnetic resonance studies of histone and DNA dynamics in nucleosome cores
    • Hilliard, P. R., R. M. Smith, and R. L. Rill. 1986. Natural abundance carbon-13 nuclear magnetic resonance studies of histone and DNA dynamics in nucleosome cores. J. Biol. Chem. 261:5992-5998.
    • (1986) J. Biol. Chem. , vol.261 , pp. 5992-5998
    • Hilliard, P.R.1    Smith, R.M.2    Rill, R.L.3
  • 69
    • 0024338215 scopus 로고
    • Mobile histone tails in nucleosomes. Assignment of mobile segments and investigations of their role in chromatin folding
    • Smith, R. M., and R. L. Rill. 1989. Mobile histone tails in nucleosomes. Assignment of mobile segments and investigations of their role in chromatin folding. J. Biol. Chem. 264:10574-10581.
    • (1989) J. Biol. Chem. , vol.264 , pp. 10574-10581
    • Smith, R.M.1    Rill, R.L.2
  • 70
    • 77953603315 scopus 로고
    • Interaction between parallel rodlike macroions
    • Oosawa, F. 1968. Interaction between parallel rodlike macroions. Biopolymers. 6:1633-1647.
    • (1968) Biopolymers , vol.6 , pp. 1633-1647
    • Oosawa, F.1
  • 71
    • 0037436410 scopus 로고    scopus 로고
    • Chromatin fiber folding: Requirement for the histone H4 N-terminal tail
    • Dorigo, B., T. Schalch, K. Bystricky, and T. J. Richmond. 2003. Chromatin fiber folding: requirement for the histone H4 N-terminal tail. J. Mol. Biol. 327:85-96.
    • (2003) J. Mol. Biol. , vol.327 , pp. 85-96
    • Dorigo, B.1    Schalch, T.2    Bystricky, K.3    Richmond, T.J.4
  • 72
    • 30544442681 scopus 로고    scopus 로고
    • Controlled DNA compaction within chromatin: The tail-bridging effect
    • Muhlbacher, F., C. Holm, and H. Schiessel. 2006. Controlled DNA compaction within chromatin: the tail-bridging effect. Europhys. Lett. 73:135-141.
    • (2006) Europhys. Lett. , vol.73 , pp. 135-141
    • Muhlbacher, F.1    Holm, C.2    Schiessel, H.3
  • 73
    • 21844436803 scopus 로고    scopus 로고
    • X-ray structure of a tetranucleosome and its implications for the chromatin fibre
    • Schalch, T., S. Duda, D. F. Sargent, and T. J. Richmond. 2005. X-ray structure of a tetranucleosome and its implications for the chromatin fibre. Nature. 436:138-141.
    • (2005) Nature , vol.436 , pp. 138-141
    • Schalch, T.1    Duda, S.2    Sargent, D.F.3    Richmond, T.J.4
  • 74
    • 13644265136 scopus 로고    scopus 로고
    • Structural investigations of DNA-polycation complexes
    • DeRouchey, J., R. R. Netz, and J. Rädler. 2005. Structural investigations of DNA-polycation complexes. Eur. Phys. J. E. 16:17-28.
    • (2005) Eur. Phys. J. E. , vol.16 , pp. 17-28
    • DeRouchey, J.1    Netz, R.R.2    Rädler, J.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.