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Volumn 84, Issue 1, 2003, Pages 419-431

Sequence-dependent DNA condensation and the electrostatic zipper

Author keywords

[No Author keywords available]

Indexed keywords

CATION; DNA; DOUBLE STRANDED DNA; NICKEL;

EID: 0037216828     PISSN: 00063495     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0006-3495(03)74862-0     Document Type: Article
Times cited : (63)

References (56)
  • 3
    • 0030740939 scopus 로고    scopus 로고
    • AFM analysis of DNA-protamine complexes bound to mica
    • Allen, M. J., E. M. Bradbury, and R. Balhorn. 1997. AFM analysis of DNA-protamine complexes bound to mica. Nucleic Acids Res. 25:2221-2226.
    • (1997) Nucleic Acids Res. , vol.25 , pp. 2221-2226
    • Allen, M.J.1    Bradbury, E.M.2    Balhorn, R.3
  • 4
    • 0002180879 scopus 로고    scopus 로고
    • Simple model for attraction between like-charged polyions
    • Arenzon, J. J., J. F. Stilck, and Y. Levin. 1999. Simple model for attraction between like-charged polyions. European Physical Journal B. 12:79-82.
    • (1999) European Physical Journal B , vol.12 , pp. 79-82
    • Arenzon, J.J.1    Stilck, J.F.2    Levin, Y.3
  • 5
    • 0025066887 scopus 로고
    • Condensation of DNA by trivalent cations. 1. Effects of DNA length and topology on the size and shape of condensed particles
    • Arscott, P. G., A. Z. Li, and V. A. Bloomfield. 1990. Condensation of DNA by trivalent cations. 1. Effects of DNA length and topology on the size and shape of condensed particles. Biopolymers. 30:619-630.
    • (1990) Biopolymers , vol.30 , pp. 619-630
    • Arscott, P.G.1    Li, A.Z.2    Bloomfield, V.A.3
  • 6
    • 0012530305 scopus 로고    scopus 로고
    • Theory of polyelectrolyte solutions
    • Barrat, J. L., and J. F. Joanny. 1996. Theory of polyelectrolyte solutions. Adv. Chem. Phys. 94:1-66.
    • (1996) Adv. Chem. Phys. , vol.94 , pp. 1-66
    • Barrat, J.L.1    Joanny, J.F.2
  • 7
    • 0019544304 scopus 로고
    • Effects of methylation on a synthetic polynucleotide: The B-Z transition in poly(dG-m5dC), poly(dG-m5dC)
    • Behe, M., and G. Felsenfeld. 1981. Effects of methylation on a synthetic polynucleotide: The B-Z transition in poly(dG-m5dC), poly(dG-m5dC). Proc. Natl. Acad. Sci. USA. 78:1619-1623.
    • (1981) Proc. Natl. Acad. Sci. USA , vol.78 , pp. 1619-1623
    • Behe, M.1    Felsenfeld, G.2
  • 9
    • 0034597794 scopus 로고    scopus 로고
    • Telomere states and cell fates
    • Blackburn, E. H. 2000. Telomere states and cell fates. Nature. 408:53-56.
    • (2000) Nature , vol.408 , pp. 53-56
    • Blackburn, E.H.1
  • 10
    • 0032539538 scopus 로고    scopus 로고
    • Monomolecular collapse of plasmid DNA into stable virus-like particles
    • Blessing, T., J. S. Remy, and J. P. Behr. 1998. Monomolecular collapse of plasmid DNA into stable virus-like particles. Proc. Natl. Acad. Sci. USA. 95:1427-1431.
    • (1998) Proc. Natl. Acad. Sci. USA , vol.95 , pp. 1427-1431
    • Blessing, T.1    Remy, J.S.2    Behr, J.P.3
  • 11
    • 0026253815 scopus 로고
    • Condensation of DNA by multivalent cations: Considerations on mechanism
    • Bloomfield, V. A. 1991. Condensation of DNA by multivalent cations: Considerations on mechanism. Biopolymers. 31:1471-1481.
    • (1991) Biopolymers , vol.31 , pp. 1471-1481
    • Bloomfield, V.A.1
  • 13
    • 0027365639 scopus 로고
    • Raman spectroscopy of DNA-metal complexes. I. Interactions and conformational effects of the divalent cations: Mg, Ca, Sr, Ba, Mn, Co, Ni, Cu, Pd, and Cd
    • Duguid, J., V. A. Bloomfield, J. Benevides, and G. J. Thomas, Jr. 1993. Raman spectroscopy of DNA-metal complexes. I. Interactions and conformational effects of the divalent cations: Mg, Ca, Sr, Ba, Mn, Co, Ni, Cu, Pd, and Cd. Biophys. J. 65:1916-1928.
    • (1993) Biophys. J. , vol.65 , pp. 1916-1928
    • Duguid, J.1    Bloomfield, V.A.2    Benevides, J.3    Thomas G.J., Jr.4
  • 14
    • 0028867365 scopus 로고
    • Raman spectroscopy of DNA-metal complexes. II. The thermal denaturation of DNA in the presence of Sr/sup 2+/, Ba/sup 2+/, Mg/sup 2+/, Ca/sup 2+/, Mn/sup 2+/, Co/sup 2+/, Ni/sup 2+/, and Cd/sup 2+
    • Duguid, J. G., V. A. Bloomfield, J. M. Benevides, and G. J. Thomas, Jr. 1995. Raman spectroscopy of DNA-metal complexes. II. The thermal denaturation of DNA in the presence of Sr/sup 2+/, Ba/sup 2+/, Mg/sup 2+/, Ca/sup 2+/, Mn/sup 2+/, Co/sup 2+/, Ni/sup 2+/, and Cd/sup 2+. Biophys. J. 69:2623-2641.
    • (1995) Biophys. J. , vol.69 , pp. 2623-2641
    • Duguid, J.G.1    Bloomfield, V.A.2    Benevides, J.M.3    Thomas G.J., Jr.4
  • 16
    • 0032500350 scopus 로고    scopus 로고
    • Early intermediates in spermidine-induced DNA condensation on the surface of mica
    • Fang, Y., and J. H. Hoh. 1998. Early intermediates in spermidine-induced DNA condensation on the surface of mica. J. Am. Chem. Soc. 120:8903-8909.
    • (1998) J. Am. Chem. Soc. , vol.120 , pp. 8903-8909
    • Fang, Y.1    Hoh, J.H.2
  • 17
    • 0032846225 scopus 로고    scopus 로고
    • Cationic silanes stabilize intermediates in DNA condensation
    • Fang, Y., and J. H. Hoh. 1999. Cationic silanes stabilize intermediates in DNA condensation. FEBS Lett. 459:173-176.
    • (1999) FEBS Lett. , vol.459 , pp. 173-176
    • Fang, Y.1    Hoh, J.H.2
  • 20
    • 0023058994 scopus 로고
    • Visualization of the bent helix in kinetoplast DNA by electron microscopy
    • Griffith, J., M. Bleyman, C. A. Rauch, P. A. Kitchin, and P. T. Englund. 1986. Visualization of the bent helix in kinetoplast DNA by electron microscopy. Cell. 46:717-724.
    • (1986) Cell , vol.46 , pp. 717-724
    • Griffith, J.1    Bleyman, M.2    Rauch, C.A.3    Kitchin, P.A.4    Englund, P.T.5
  • 22
    • 0343619499 scopus 로고    scopus 로고
    • A unified theory of the B-Z transition of DNA in high and low concentrations of multivalent ions
    • Gueron, M., J. P. Demaret, and M. Filoche. 2000. A unified theory of the B-Z transition of DNA in high and low concentrations of multivalent ions. Biophys. J. 78:1070-1083.
    • (2000) Biophys. J. , vol.78 , pp. 1070-1083
    • Gueron, M.1    Demaret, J.P.2    Filoche, M.3
  • 23
    • 0000888701 scopus 로고    scopus 로고
    • Counterion-mediated attraction between two like-charged rods
    • Ha, B. Y., and A. J. Liu. 1997. Counterion-mediated attraction between two like-charged rods. Phys. Rev. Lett. 79:1289-1292.
    • (1997) Phys. Rev. Lett. , vol.79 , pp. 1289-1292
    • Ha, B.Y.1    Liu, A.J.2
  • 24
    • 12244281131 scopus 로고    scopus 로고
    • Physical questions posed by DNA condensation
    • T. Radeva, editor. Marcel Dekker, New York
    • Ha, B. Y., and A. J. Liu, 2001. Physical questions posed by DNA condensation. In Physical Chemistry of Polyelectrolytes. T. Radeva, editor. Marcel Dekker, New York. 163-180.
    • (2001) Physical Chemistry of Polyelectrolytes , pp. 163-180
    • Ha, B.Y.1    Liu, A.J.2
  • 25
    • 0035418738 scopus 로고    scopus 로고
    • Osmotic properties of DNA: Critical evaluation of counterion condensation theory
    • Hansen, P. L., R. Podgomik, and V. A. Parsegian. 2001. Osmotic properties of DNA: Critical evaluation of counterion condensation theory. Physical Review E. 64:021907.
    • (2001) Physical Review E , vol.64 , pp. 021907
    • Hansen, P.L.1    Podgomik, R.2    Parsegian, V.A.3
  • 26
    • 0034743149 scopus 로고    scopus 로고
    • Surface biology of DNA by atomic force microscopy
    • Hansma, H. G. 2001. Surface biology of DNA by atomic force microscopy. Annu. Rev. Phys. Chem. 52:71-92.
    • (2001) Annu. Rev. Phys. Chem. , vol.52 , pp. 71-92
    • Hansma, H.G.1
  • 27
    • 0027964620 scopus 로고
    • Bending and straightening of DNA induced by the same ligand: Characterization with the atomic force microscope
    • Hansma, H. G., K. A. Browne, M. Bezanilla, and T. C. Bruice. 1994. Bending and straightening of DNA induced by the same ligand: Characterization with the atomic force microscope. Biochemistry. 33:8436-8441.
    • (1994) Biochemistry , vol.33 , pp. 8436-8441
    • Hansma, H.G.1    Browne, K.A.2    Bezanilla, M.3    Bruice, T.C.4
  • 28
    • 0029863919 scopus 로고    scopus 로고
    • DNA binding to mica correlates with cationic radius: Assay by atomic force microscopy
    • Hansma, H. G., and D. E. Laney. 1996. DNA binding to mica correlates with cationic radius: Assay by atomic force microscopy. Biophys. J. 70:1933-1939.
    • (1996) Biophys. J. , vol.70 , pp. 1933-1939
    • Hansma, H.G.1    Laney, D.E.2
  • 29
    • 0031414731 scopus 로고    scopus 로고
    • Z-DNA crystallography
    • Ho, P. S., and B. H. M. Mooers. 1997. Z-DNA crystallography. Biopolymers. 44:65-90.
    • (1997) Biopolymers , vol.44 , pp. 65-90
    • Ho, P.S.1    Mooers, B.H.M.2
  • 30
    • 0014219348 scopus 로고
    • Some factors affecting electron microscopic length of deoxyribonucleic acid
    • Inman, R. B. 1967. Some factors affecting electron microscopic length of deoxyribonucleic acid. J. Mol. Biol. 25:209-216.
    • (1967) J. Mol. Biol. , vol.25 , pp. 209-216
    • Inman, R.B.1
  • 31
    • 0034651716 scopus 로고    scopus 로고
    • Hydration effects of Ni(2+) binding to synthetic polynucleotides with regularly alternating purine-pyrimidine sequences
    • Kankia, B. I. 2000. Hydration effects of Ni(2+) binding to synthetic polynucleotides with regularly alternating purine-pyrimidine sequences. Nucleic Acids Res. 28:911-916.
    • (2000) Nucleic Acids Res. , vol.28 , pp. 911-916
    • Kankia, B.I.1
  • 33
    • 0012571607 scopus 로고
    • Heat-induced DNA aggregation in the presence of divalent metal salts
    • R, Sarma and M. Sarma, editors. Adenine Press, New York
    • Knoll, D., M. Fried, and V. Bloomfield. 1988. Heat-induced DNA aggregation in the presence of divalent metal salts. In DNA and Its Drug Complexes. R, Sarma and M. Sarma, editors. Adenine Press, New York. 123-145.
    • (1988) DNA and Its Drug Complexes , pp. 123-145
    • Knoll, D.1    Fried, M.2    Bloomfield, V.3
  • 34
    • 0001258148 scopus 로고    scopus 로고
    • Theory of interaction between helical molecules
    • Kornyshev, A. A., and S. Leikin. 1997. Theory of interaction between helical molecules. J. Chem. Phys. 107:3656-3674.
    • (1997) J. Chem. Phys. , vol.107 , pp. 3656-3674
    • Kornyshev, A.A.1    Leikin, S.2
  • 35
    • 0032506008 scopus 로고    scopus 로고
    • Electrostatic interaction between helical macromolecules in dense aggregates: An impetus for DNA poly-and meso-morphism
    • Kornyshev, A. A., and S. Leikin. 1998a. Electrostatic interaction between helical macromolecules in dense aggregates: An impetus for DNA poly-and meso-morphism. Proc. Natl. Acad. Sci. USA. 95:13579-13584.
    • (1998) Proc. Natl. Acad. Sci. USA , vol.95 , pp. 13579-13584
    • Kornyshev, A.A.1    Leikin, S.2
  • 36
    • 0031751240 scopus 로고    scopus 로고
    • Symmetry laws for interaction between helical macromolecules
    • Kornyshev, A. A., and S. Leikin. 1998b. Symmetry laws for interaction between helical macromolecules. Biophys. J. 75:2513-2519.
    • (1998) Biophys. J. , vol.75 , pp. 2513-2519
    • Kornyshev, A.A.1    Leikin, S.2
  • 37
    • 18144376538 scopus 로고    scopus 로고
    • Electrostatic zipper motif for DNA aggregation
    • Kornyshev, A. A., and S. Leikin. 1999. Electrostatic zipper motif for DNA aggregation. Phys. Rev. Lett. 82:4138-4141.
    • (1999) Phys. Rev. Lett. , vol.82 , pp. 4138-4141
    • Kornyshev, A.A.1    Leikin, S.2
  • 38
    • 0000564128 scopus 로고
    • Characterization of DNA condensates induced by poly(ethylene oxide) and polylysine
    • Laemmli, U. K. 1975. Characterization of DNA condensates induced by poly(ethylene oxide) and polylysine. Proc. Natl. Acad. Sci. USA. 72:4288-4292.
    • (1975) Proc. Natl. Acad. Sci. USA , vol.72 , pp. 4288-4292
    • Laemmli, U.K.1
  • 39
    • 0034642565 scopus 로고    scopus 로고
    • Telomeres: A tale of ends
    • Lundblad, V. 2000. Telomeres: A tale of ends. Nature. 403:149,151.
    • (2000) Nature , vol.403 , pp. 149
    • Lundblad, V.1
  • 40
    • 0028920599 scopus 로고
    • Condensation of plasmids enhanced by Z-DNA conformation of d(CG)n inserts
    • Ma, C., L. Sun, and V. A. Bloomfield. 1995. Condensation of plasmids enhanced by Z-DNA conformation of d(CG)n inserts. Biochemistry. 34:3521-3528.
    • (1995) Biochemistry , vol.34 , pp. 3521-3528
    • Ma, C.1    Sun, L.2    Bloomfield, V.A.3
  • 41
    • 0017895903 scopus 로고
    • Molecular theory of polyelectrolyte solutions with applications to electrostatic properties of polynucleotides
    • Manning, G. S. 1978. Molecular theory of polyelectrolyte solutions with applications to electrostatic properties of polynucleotides. Q. Rev. Biophys. 11:179-246.
    • (1978) Q. Rev. Biophys. , vol.11 , pp. 179-246
    • Manning, G.S.1
  • 43
    • 0020485720 scopus 로고
    • Two aspects of DNA polymorphism and microheterogeneity: Molecular electrostatic potential and steric accessibility
    • Pullman, B., R. Lavery, and A. Pullman. 1982. Two aspects of DNA polymorphism and microheterogeneity: Molecular electrostatic potential and steric accessibility. Eur. J. Biochem. 124:229-238.
    • (1982) Eur. J. Biochem. , vol.124 , pp. 229-238
    • Pullman, B.1    Lavery, R.2    Pullman, A.3
  • 44
    • 0026608715 scopus 로고
    • Direct measurement of temperature-dependent solvation forces between DNA double helices
    • Rau, D., and V. Parsegian. 1992. Direct measurement of temperature-dependent solvation forces between DNA double helices. Biophys. J. 61:260-271.
    • (1992) Biophys. J. , vol.61 , pp. 260-271
    • Rau, D.1    Parsegian, V.2
  • 45
    • 0345055328 scopus 로고    scopus 로고
    • DNA bending by small, mobile multivalent cations
    • Rouzina, I., and V. A. Bloomfield. 1998. DNA bending by small, mobile multivalent cations. Biophys. J. 74:3152-3164.
    • (1998) Biophys. J. , vol.74 , pp. 3152-3164
    • Rouzina, I.1    Bloomfield, V.A.2
  • 47
    • 0031934006 scopus 로고    scopus 로고
    • Insertion of telomere repeat sequence decreases plasmid DNA condensation by cobalt (III) hexaammine
    • Schnell, J. R., J. Berman, and V. A. Bloomfield. 1998. Insertion of telomere repeat sequence decreases plasmid DNA condensation by cobalt (III) hexaammine. Biophys. J. 74:1484-1491.
    • (1998) Biophys. J. , vol.74 , pp. 1484-1491
    • Schnell, J.R.1    Berman, J.2    Bloomfield, V.A.3
  • 48
    • 0034237843 scopus 로고    scopus 로고
    • Dynamical intermediates in the collapse of semiflexible polymers in poor solvents
    • Schnurr, B., F. C. MacKintosh, and D. R. M. Williams. 2000. Dynamical intermediates in the collapse of semiflexible polymers in poor solvents. Europhysics Lett. 51:279-285.
    • (2000) Europhysics Lett. , vol.51 , pp. 279-285
    • Schnurr, B.1    MacKintosh, F.C.2    Williams, D.R.M.3
  • 49
    • 0027215932 scopus 로고
    • Spectrophotometric and kinetic studies of the binding of Ni2+, Co2+, and Mg2+ to poly(Dg-Dc).poly(Dg-Dc). Determination of the stoichiometry of the Ni2+-induced B → Z transition
    • Schoenknecht, T., and H. Diebler. 1993. Spectrophotometric and kinetic studies of the binding of Ni2+, Co2+, and Mg2+ to poly(Dg-Dc).poly(Dg-Dc). Determination of the stoichiometry of the Ni2+-induced B → Z transition. J. Inorg. Biochem. 50:283-298.
    • (1993) J. Inorg. Biochem. , vol.50 , pp. 283-298
    • Schoenknecht, T.1    Diebler, H.2
  • 50
    • 0034679064 scopus 로고    scopus 로고
    • Nucleation of DNA condensation by static loops: Formation of DNA toroids with reduced dimensions
    • Shen, M. R., K. H. Downing, R. Balhom, and N. V. Hud. 2000. Nucleation of DNA condensation by static loops: Formation of DNA toroids with reduced dimensions. J. Am. Chem. Soc. 122:4833-4834.
    • (2000) J. Am. Chem. Soc. , vol.122 , pp. 4833-4834
    • Shen, M.R.1    Downing, K.H.2    Balhom, R.3    Hud, N.V.4
  • 51
    • 18344392110 scopus 로고    scopus 로고
    • Wigner crystal model of counterion induced bundle formation of rodlike polyelectrolytes
    • Shklovskii, B. I. 1999. Wigner crystal model of counterion induced bundle formation of rodlike polyelectrolytes. Phys. Rev. Lett. 82:3268-3271.
    • (1999) Phys. Rev. Lett. , vol.82 , pp. 3268-3271
    • Shklovskii, B.I.1
  • 52
    • 0023662801 scopus 로고
    • B-Z DNA conformational transition in 1:1 electrolytes: Dependence upon counterion size
    • Soumpasis, D., M. Robert-Nicoud, and T. Jovin. 1987. B-Z DNA conformational transition in 1:1 electrolytes: Dependence upon counterion size. FEBS Lett. 213:341-344.
    • (1987) FEBS Lett. , vol.213 , pp. 341-344
    • Soumpasis, D.1    Robert-Nicoud, M.2    Jovin, T.3
  • 53
    • 0022434010 scopus 로고
    • Toroidal condensation of Z DNA and identification of an intermediate in the B to Z transition of poly(dG-m5dC) X poly(dG-m5dC)
    • Thomas, T. J., and V. A. Bloomfield. 1985. Toroidal condensation of Z DNA and identification of an intermediate in the B to Z transition of poly(dG-m5dC) X poly(dG-m5dC). Biochemistry. 24:713-719.
    • (1985) Biochemistry , vol.24 , pp. 713-719
    • Thomas, T.J.1    Bloomfield, V.A.2
  • 54
    • 0842338715 scopus 로고
    • Mn2+ and other transition metals at low concentration induce the fight-to-left helical transformation of poly[d(G-C)]
    • van de Sande, J. H., L. P. McIntosh, and T. M. Jovin. 1982. Mn2+ and other transition metals at low concentration induce the fight-to-left helical transformation of poly[d(G-C)]. EMBO J. 1:777-782.
    • (1982) EMBO J. , vol.1 , pp. 777-782
    • Van de Sande, J.H.1    McIntosh, L.P.2    Jovin, T.M.3
  • 55
    • 0019570637 scopus 로고
    • Interaction of Mn2+ with DNA as studied by proton-relaxation enhancement of solvent water
    • Van Steenwinkel, R., F. Campagnari, and M. Merlini. 1981. Interaction of Mn2+ with DNA as studied by proton-relaxation enhancement of solvent water. Biopolymers. 20:915-923.
    • (1981) Biopolymers , vol.20 , pp. 915-923
    • Van Steenwinkel, R.1    Campagnari, F.2    Merlini, M.3
  • 56
    • 0016229794 scopus 로고
    • Conformation and reactivity of DNA. IV. Base binding ability of transition metal ions to native DNA and effect on helix conformation with special reference to DNA-Zn(II) complex
    • Zimmer, C., G. Luck, and H. Tfiebel. 1974. Conformation and reactivity of DNA. IV. Base binding ability of transition metal ions to native DNA and effect on helix conformation with special reference to DNA-Zn(II) complex. Biopolymers. 13:425-453.
    • (1974) Biopolymers , vol.13 , pp. 425-453
    • Zimmer, C.1    Luck, G.2    Tfiebel, H.3


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