Chromatin structure revisited

Critical Reviews in Eukaryotic Gene Expression

Volumn 9, Issue 3-4, 1999, Pages 245-255

  Zlatanova, Jordanka ^a   Leuba, Sanford H ^b   Van Holde, Kensal ^c  

^a ARGONNE NATIONAL LABORATORY   (United States)

^b NATIONAL CANCER INSTITUTE   (United States)

^c OREGON STATE UNIVERSITY   (United States)

Author keywords

Chromatosome; Condensed chromatin fiber; Core particle; Extended chromatin fiber; HMG1; Linker histone

Indexed keywords

CURVED DNA; DNA; HISTONE;

CHROMATIN; CHROMATIN STRUCTURE; DNA HISTONE INTERACTION; DNA PROTEIN COMPLEX; NUCLEOSOME; PRIORITY JOURNAL; PROTEIN DNA INTERACTION; REVIEW;

EID: 0033370817     PISSN: 10454403     EISSN: None     Source Type: Journal    
DOI: 10.1615/CritRevEukarGeneExpr.v9.i3-4.90     Document Type: Review

References (51)

1. Allan J, Hartman PG, Crane-Robinson C, Aviles FX (1980): The structure of histone H1 and its location in chromatin. Nature 288:675-679.
2. An W, Leuba SH, van Holde K, Zlatanova J (1998a): Linker histone protects linker DNA on only one side of the core particle and in a sequence dependent manner. Proc Natl Acad Sci USA 95:3396-3401.
3. An W, van Holde K, Zlatanova J (1998b): The non-histone chromatin protein HMG1 protects linker DNA on the side opposite to that protected by linker histones. J Biol Chem 273:26289-26291.
4. Arents G, Moudrianakis EN (1993): Topography of the histone octamer surface: Repeating structural motifs utilized in the docking of nucleosomal DNA. Proc Natl Acad Sci USA 90:10489-10493.
5. Bednar J, Horowitz RA, Grigoryev SA, Carruthers LM, Hansen JC, Koster AJ, Woodcock CL (1998): Nucleosomes, linker DNA, and linker histone form a unique structural motif that directs the higher-order folding and compaction of chromatin. Proc Natl Acad Sci USA 95:14173-14178.
6. Belikov S, Karpov V (1998): Linker histones: paradigm lost but questions remain. FEBS Lett 441:161-164.
7. Bustin M, Reeves R (1996): High-mobility-group chromosomal proteins: architectural components that facilitate chromatin function. Prog Nucleic Acids Res Mol Biol 54:35-100.
8. Butler PJ, Thomas JO (1980): Changes in chromatin folding in solution. J Mol Biol 140:505-529.
9. Butler PJG, Thomas JO (1998): Dinucleosomes show compaction by ionic strength, consistent with bending of linker DNA. J Mol Biol 281:401-407.
10. Chikhirzhina GI (1982): Histone H1-independent nucleolysis of chromatin structural unit. Biokhimia 47:1409-1418.
11. Crane-Robinson C (1997): Where is the globular domain of linker histone located on the nucleosome? Trends Biochem Sci 22:75-77.
12. De Murcia G, Koller T (1981): The electron microscopic appearance of soluble rat liver chromatin mounted on different supports. Biol Cell 40:165-174.
13. Fletcher TM, Hansen JC (1996): The nucleosomal array: structure/function relationships. Crit Rev Eukaryot Gene Expr 6:149-188.
14. Furrer P, Bednar J, Dubochet J, Hamiche A, Prunell A (1995): DNA at the entry-exit of the nucleosome observed by cryoelectron microscopy. J Str Biol 114:177-183.
15. Godde JS, Widom J (1992): Chromatin structure of Schizosaccharomyces pombe: A nucleosome repeat length that is shorter than the chromatosomal DNA length. J Mol Biol 226:1009-1025.
16. Graziano V, Gerchman SE, Schneider DK, Ramakrishnan V (1994): Histone H1 is located in the interior of the chromatin 30-nm filament. Nature 368:351-354.
17. Hagerman PJ (1988): Flexibility of DNA. Ann Rev Biophys Biophys Chem 17:265-286.
18. Hamiche A, Schultz P, Ramakrishan V, Oudet P, Prunell A (1996): Linker histone-dependent DNA structure in linear mononucleosomes. J Mol Biol 257:30-42.
19. Hayes JJ, Wolffe AP (1993): Preferential asymmetric interaction of linker histones with 5S DNA in the nucleosome. Proc Natl Acad Sci USA 90:6415-6419.
20. Hayes JJ (1996): Site-directed cleavage of DNA by a linker histone-Fe(II) EDTA conjugate: localization of a globular domain binding site within a nucleosome. Biochemistry 35:11931-11937.
21. Lambert S, Muyldermans S, Baldwin J, Kilner J, Ibel K, Wijns L (1991): Neutron scattering studies of chromatosomes. Biochem Biophys Res Commun 179:810-816.
22. Leuba SH, Yang G, Robert C, Samori B, van Holde K, Zlatanova J, Bustamante C (1994): Three-dimensional structure of extended chromatin fibers as revealed by tapping-mode scanning force microscopy. Proc Natl Acad Sci USA 91:11621-11625.
23. Leuba SH, Bustamante C, van Holde K, Zlatanova J (1998): Linker histone tails and the N-tails of histone H3 are redundant: scanning force microscopy studies of reconstituted fibers. Biophys J 74:2830-2839.
24. Lohr D, Corden J, Tatchell K, Kovacic RT, van Holde KE (1977): Comparative subunit structure of HeLa, yeast, and chicken erythrocyte chromatin. Proc Natl Acad Sci USA 74:79-83.
25. Luger K, Mäder AW, Richmond RK, Sargent DF, Richmond TJ (1997): Crystal structure of the nucleosome core particle at 2.8 E resolution. Nature 389:251-260.
26. Nightingale K, Dimitrov S, Reeves R, Wolffe AP (1996): Evidence for a shared structural role for HMG1 and linker histones B4 and H1 in organizing chromatin. EMBO J 15:548-561.
27. Polach KJ, Widom J (1995): Mechanism of protein access to specific DNA sequences in chromatin: a dynamic equilibrium model for gene regulation. J Mol Biol 254:130-149.
28. Prunell A (1998): A topological approach to nucleosome structure and dynamics: the linking number paradox and other issues. Biophys J 74:2531-2544.
29. Pruss D, Bartholomew B, Persinger J, Hayes J, Arents G, Moudrianakis EN, Wolffe AP (1996): An asymmetric model for the nucleosome: a binding site for linker histones inside the DNA gyres. Science 274:614-617.
30. Ramakrishnan V (1997): Histone H1 and chromatin higher-order structure. Crit Rev Eukaryot Gene Expr 7:215-230.
31. Richmond TJ, Rechsteiner T, Luger K (1993): Studies of nucleosome structure. Cold Spring Harbor Symp Quant Biol 58:265-272.
32. Rydberg B, Holley WR, Mian IS, Chatterjee A (1998): Chromatin conformation in living cells: support for a zig-zag model of the 30 nm chromatin fiber. J Mol Biol 284:71-84.
33. Simpson RT (1978): Structure of the chromatosome, a chromatin particle containing 160 base pairs of DNA and all the histones. Biochemistry 17:5524-5531.
34. Thoma F, Koller T, Klug A (1979): Involvement of histone H1 in the organization of the nucleosome and of the salt-dependent superstructures of chromatin. J Cell Biol 83:403-427.
35. Thomas JO, Furber V (1976): Yeast chromatin structure. FEBS Lett 66:274-280.
36. Travers A (1999): The location of the linker histone on the nucleosome. Trends Biochem Sci 24:4-7.
37. Travers AA, Muyldermans SV (1996): A DNA sequence for positioning chromatosomes. J Mol Biol 257:486-491.
38. Ura K, Nightingale K, Wolffe AP (1996): Differential association of HMG1 and linker histones B4 and H1 with dinucleosomal DNA: structural transitions and transcriptional repression. EMBO J 15:4959-4969.
39. Van Holde K (1988): "Chromatin." New York: Springer Verlag.
40. van Holde K, Zlatanova J (1995): Chromatin higher-order structure: chasing a mirage? J Biol Chem 270:8373-8376.
41. van Holde K, Zlatanova J (1996): What determines the folding of the chromatin fiber? Proc Natl Acad Sci USA 93:10548-10555.
42. van Holde K, Leuba SH, Zlatanova J (1998): Physical approaches to the study of chromatin fibers. Gene Ther Mol Biol 1:475-482.
43. van Holde K, Zlatanova J (1999): The nucleosome core particle: does it have structural and physiological relevance? BioEssays 21:776-780.
44. Vignali M, Workman JL (1998): Location and function of linker histones. Nature Str Biol 5:1025-1028.
45. Widom J (1998a): Structure, dynamics, and function of chromatin in vitro. Annu Rev Biophys Biomol Struct 27: 285-327.
46. Widom J (1998b): Chromatin structure: linking structure to function with histone H1. Curr Biol 8:788-791.
47. Woodcock CL, Horowitz RA (1995): Chromatin organization re-viewed. Trends Cell Biol 5:272-277.
48. Yang G, Leuba SH, Bustamante C, Zlatanova J, van Holde K (1994): Role of linker histones in extended chromatin fiber structure. Nature Str Biol 1:761-763.
49. Zhou Y-B, Gerchman SE, Ramakrishan V, Travers A, Muyldermans S (1998): Position and orientation of the globular domain of linker histone H5 on the nucleosome. Nature 395:402-405.
50. Zlatanova J, Leuba SH, van Holde K (1998): Chromatin fiber structure: morphology, molecular determinants, structural transitions. Biophys J 74:2554-2566.
51. Zlatanova J, van Holde K (1998): Linker histones versus HMG1/2: a struggle for dominance? BioEssays 20: 584-588.