X-ray diffraction characterization of the dense phases formed by nucleosome core particles

Biophysical Journal

Volumn 84, Issue 4, 2003, Pages 2570-2584

  Mangenot, Stéphanie ^a,c   Leforestier, Amélie ^a   Durand, Dominique ^b   Livolant, Françoise ^a  

^a UNIVERSITÉ PARIS SUD   (France)

^b UNIVERSITÉ PARIS SACLAY   (France)

^c UNIVERSITY OF MUNICH   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

DIVALENT CATION; INORGANIC SALT; ION; MONOVALENT CATION; SOLVENT;

ARTICLE; BILAYER MEMBRANE; CELL; CHROMATIN STRUCTURE; CONCENTRATION (PARAMETERS); CRYSTAL STRUCTURE; DENSITY; IONIZATION; NUCLEOSOME; NUCLEOSOME CORE PARTICLE; OSMOTIC PRESSURE; PROTEIN DNA BINDING; X RAY DIFFRACTION;

EID: 0037379723     PISSN: 00063495     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0006-3495(03)75062-0     Document Type: Article

References (31)

1. Brandes, R., and D. R. Kearns. 1986. Magnetic ordering of DNA liquid crystals. Biochemistry. 25:5890-5895.
2. Busson, B., and J. Doucet. 2000. Distribution and interference function for two-dimensional hexagonal paracrystals. Acta Crystallogr. A56:68-72.
3. Davey, C. A., D. F. Sargent, K. Luger, A. W. Maeder, and T. J. Richmond. 2002. Solvent mediated interactions in the structure of the nucleosome core particle at 1.9 Å resolution. J. Mol. Biol. 319:1097-1113.
4. De Vries, A. 1970. X-ray photographic studies of liquid crystals. I. A cybotactic nematic phase. Mol. Cryst. Liq. Cryst. 10:219-236.
5. Eberharter, A., and P. B. Becker. 2002. Histone acetylation: a switch between repressive and permissive chromatin: second in review series on chromatin dynamics. EMBO Rep. 3:224-229.
6. Finch, J. T., R. S. Brown, T. Richmond, B. Rushton, L. C. Lutter, and A. Klug. 1981. X-ray diffraction study of a new crystal form of the nucleosome core showing higher resolution. J. Mol. Biol. 145:757-769.
7. Guinier, A. 1956. Théorie et Technique de la Radiocristallographie. Dunod, Paris.
8. Harp, J. M., B. L. Hanson. D. E. Timm, and G. J. Bunick. 2000. Asymmetries in the nucleosome core particle at 2.5 Å resolution. Acta Crystallogr. D Biol. Crystallogr. 56:1513-1534.
9. Harreis, H. M., A. A. Kornyshev, C. N. Likos, H. Lowen, and G. Sutmann. 2002. Phase behavior of columnar DNA assemblies. Phys. Rev. Lett. 89:018303.
10. Kornyshev, A. A., and S. Leikin. 1997. Theory of interaction between helical molecules. J. Chem. Phys. 107:3656-3674.
11. Kornyshev, A. A., and S. Leikin. 1998. Electrostatic interaction between helical macromolecules in dense aggregates: an impetus for DNA polyand meso-morphism. Proc. Natl. Acad. Sci. USA. 95:13579-13584.
12. Kornyshev, A. A., S. Leikin, and S. V. Malinin. 2002. Chiral electrostatic interaction and cholesteric liquid crystals of DNA. Eur. Phys. J. E7: 83-93.
13. Langmore, J. P., and J. R. Paulson. 1983. Low angle x-ray diffraction studies of chromatin structure in vivo and in isolated nuclei and metaphase chromosomes. J. Cell Biol. 96:1120-1131.
14. Leforestier, A., J. Dubochet, and F. Livolant. 2001. Bilayers of nucleosome core particles. Biophys. J. 81:2414-2421.
15. Leforestier, A., and F. Livolant. 1997. Liquid crystalline ordering of nucleosome core particles under macromolecular crowding conditions: evidence for a discotic columnar hexagonal phase. Biophys. J. 73:1771-1776.
16. Livolant, F., and A. Leforestier. 2000. Chiral discotic columnar germs of nucleosome core particles. Biophys. J. 78:2716-2729.
17. Lorman, V., R. Podgornik, and B. Zeks. 2001. Positional, reorientational, and bond orientational order in DNA mesophases. Phys. Rev. Lett. 87:218101.
18. 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.
19. 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.
20. Narayanan, T., O. Diat, and P. Bösecke. 2001. SAXS and USAXS on the high brilliance beamline at the ESRF. Nucl. Instr. Meth. Phys. Res. A. 467-468:1005-1009.
21. Paulson, J. R., and J. P. Langmore. 1983. Low angle x-ray diffraction studies of HeLa metaphase chromosomes: effects of histone phosphorylation and chromosome isolation procedure. J. Cell Biol. 96:1132-1137.
22. Richmond, T. J., J. T. Finch, B. Rushton, D. Rhodes, and A. Klug. 1984. Structure of the nucleosome core particle at 7 Å resolution. Nature. 311:532-537.
23. Sperling, L., and A. Klug. 1977. X-ray studies on "native" chromatin. J. Mol. Biol. 112:253-263.
24. Strey, H. H., J. Wang, R. Podgornik, A. Rupprecht, L. Yu, V. A. Parsegian, and E. B. Sirota. 2000. Refusing to twist: demonstration of a line hexatic phase in DNA liquid crystals. Phys. Rev. Lett. 84:3105-3108.
25. Struck, M. M., A. Klug, and T. J. Richmond. 1992. Comparison of x-ray structures of the nucleosome core particle in two different hydration states. J. Mol. Biol. 224:253-264.
26. Svergun, D. I., C. Barberato, and M. H. J. Koch. 1995. CRYSOL-a program to evaluate x-ray solution scattering of biological macromolecules from atomic coordinates. J. Appl. Crystallogr. 28:768-773.
27. Vainshtein. 1966. Diffraction of X-Ray by Chain Molecules. Elsevier, Amsterdam.
28. White, C. L., R. K. Suto, and K. Luger. 2001. Structure of the yeast nucleosome core particle reveals fundamental changes in internucleosome interactions. EMBO J. 20:5207-5218.
29. Widom, J. 1998. Structure, dynamics, and function of chromatin in vitro. Annu. Rev. Biophys. Biomol. Struct. 27:285-327.
30. Widom, J., J. T. Finch, and J. O. Thomas. 1985. Higher-order structure of long repeat chromatin. EMBO J. 4:3189-3194.
31. Widom, J., and A. Klug. 1985. Structure of the 300A chromatin filament: x-ray diffraction from oriented samples. Cell. 43:207-213.