Nucleosome positioning by the winged helix transcription factor HNF3

Genes and Development

Volumn 12, Issue 1, 1998, Pages 5-10

  Shim, Eun Yong ^a   Woodcock, Christopher ^b   Zaret, Kenneth S ^a  

^a BROWN UNIVERSITY   (United States)

^b UNIVERSITY OF MASSACHUSETTS   (United States)

Author keywords

Chromatin; Enhancer; HNF3; Nucleosome; Winged helix factor

Indexed keywords

TRANSCRIPTION FACTOR;

ARTICLE; BINDING SITE; DNA FOOTPRINTING; DNA SEQUENCE; DNA TEMPLATE; ENHANCER REGION; GENE MUTATION; GENETIC REGULATION; NONHUMAN; NUCLEOSOME; PRIORITY JOURNAL; PROMOTER REGION; TARGET CELL; TRANSCRIPTION REGULATION;

RODENTIA; VERTEBRATA;

EID: 0344778475     PISSN: 08909369     EISSN: None     Source Type: Journal    
DOI: 10.1101/gad.12.1.5     Document Type: Article

References (39)

1. Adams, C.C., and J.L. Workman. 1995. Binding of disparate transcriptional activators to nucleosomal DNA is inherently cooperative. Mol. Cell. Biol. 15: 1405-1421.
2. Archer, T.K., M.G. Cordingley, R.G. Wolford, and G.L. Hager. 1991. Transcription factor access is mediated by accurately positioned nucleosomes on the mouse mammary tumor virus promoter. Mol. Cell. Biol. 11: 688-698.
3. Bednar, J., R.A. Horowitz, J. Dubochet, and C.L. Woodcock. 1995. Chro-matin conformation and salt-induced compaction: Three-dimensional structural information from cryoelectron microscopy. J. Cell Biol. 131: 1365-1376.
4. Cirillo, L.A., C.E. McPherson, P. Bossard, K. Stevens, S. Cherian, E.Y. Shim, K.L. Clark, S.K. Burley, and K.S. Zaret. 1998. Binding of the winged-helix transcription factor HNF3 to a linker histone sites on the nucleosome. EMBO J. 17: (in press).
5. Clark, K.L., E.D. Malay, E. Lai, and S.K. Burley. 1993. Co-crystal structure of the HNF 3/fork head DNA recognition motif resembles histone H5. Nature 364: 412-420.
6. Costa, R.H. 1994. Hepatocyte nuclear factor 3/forkhead protein family: Mammalian transcription factors that possess divergent cellular expression patterns and binding specificities. In Liver gene expression (ed. F. Tronche and M. Yaniv), pp. 183-206. R.G. Landes, Austin, TX.
7. Fedor, M.J., N.F. Lue, and R.D. Kornberg. 1988. Statistical positioning of nucleosomes by specific protein-binding to an upstream activating sequence in yeast. J. Mol Biol. 204: 109-127.
8. Felsenfeld, G. 1992. Chromatin as an essential part of the transcriptional mechanism. Nature 355: 219-223.
9. Fragoso, G., S. John, M.S. Roberts, and G.L. Hager. 1995. Nucleosome positioning on the MMTV LTR results from the frequency-biased occupancy of multiple frames. Genes & Dev. 9: 1933-1947.
10. Godde, J.S. and A.P. Wolffe. 1995. Disruption of reconstituted nucleosomes. J. Biol. Chem. 270: 27399-27402.
11. Gualdi, R., P. Bossard, M. Zheng, Y. Hamada, J.R. Coleman, and K.S. Zaret. 1996. Hepatic specification of the gut endoderm in vitro: Cell signaling and transcriptional control. Genes & Dev. 10: 1670-1682.
12. Han, M., U.J. Kim, P. Kayne, and M. Grunstein. 1988. Deletion of histone H4 and nucleosomes activates the PHOS gene in Saccharomyces cerevisiae. EMBO J. 7: 2221-2228.
13. Hayes, J.J., T.D. Tullius, and A.P. Wolffe. 1990. The structure of DNA in a nucleosome. Proc. Natl. Acad. Sci. 87: 7405-7409.
14. Jackson, J.R. and C. Benyajati. 1993. DNA-histone interactions are sufficient to position a single nucleosome juxtaposing Drosophila Adh adult enhancer and distal promoter. Nucleic Acids Res. 21: 957-967.
15. Jackson, D.A., K.E. Rowader, K. Stevens, C. Jiang, P. Milos, and K.S. Zaret. 1993. Modulation of liver-specific transcription by interactions between hepatocyte nuclear factor 3 and nuclear factor 1 binding DNA in close apposition. Mol Cell. Biol. 13: 2401-2410.
16. Kaufmann, E. and W. Knochel. 1996. Five years on the wings of fork head. Mech. Dev. 57: 3-20.
17. Lai, E., V.R. Prezioso, W. Tao, W.S. Chen, and J.E. Darnell, Jr. 1991. Hepatocyte nuclear factor 3α belongs to a gene family in mammals that is homologous to the Drosophila homeotic gene fork head. Genes & Dev. 5: 1-12.
18. Liu, J.-K., C.M. DiPersio, and K.S. Zaret. 1991. Extracellular signals that regulate liver transcription factors during hepatic differentiation in vitro. Mol Cell. Biol. 11: 773-784.
19. Lu, Q., L.L. Wallrath, H. Granok, and S.C.R. Elgin. 1993. (CT)n-(GA)n repeats and heat shock elements have distinct roles in chromatin structure and transcriptional activation of the Drosophila hsp26 gene. Mol. Cell Biol. 13: 2802-2814.
20. McPherson, C.E., E.Y. Shim, D.S. Friedman, and K.S. Zaret. 1993. An active tissue-specific enhancer and bound transcription factors existing in a precisely positioned nucleosomal array. Cell 75: 387-398.
21. McPherson, C.E., R. Horowitz, C.L. Woodcock, C. Jiang, and K.S. Zaret. 1996. Nucleosome positioning properties of the albumin transcriptional enhancer. Nucleic Acids Res. 24: 397-404.
22. Pazin, M.J., P. Bhargava, E.P. Geiduschek, and J.T. Kadonaga. 1997. Nucleosome mobility and the maintenance of nucleosome positioning. Science 276: 809-812.
23. Perlmann, T., and O. Wrange. 1988. Specific glucocorticoid receptor binding to DNA reconstituted in a nucleosome. EMBO J. 7:3073-3079.
24. Pierrou, S., M. Hellqvist, L. Samualsson, S. Enerback, and P. Carlsson. 1994. Cloning and characterization of seven human forkhead proteins: Binding site specificity and DNA bending. EMBO J. 13: 5002-5012.
25. Piña, B., U. Bruggemeier, and M. Beato. 1990. Nucleosome positioning modulates accessibility of regulatory proteins to the mouse mammary tumor virus promoter. Cell 60: 719-731.
26. Pruss, D., B. Bartholomew, J. Persinger, J. Hayes, G. Arents, E.N. Moudrianakis, and A.P. Wolffe. 1996. An asymmetric model for the nucleosome: A binding site for linker histones inside the DNA gyres. Science 274: 614-617.
27. Ramakrishnan, V., J.T. Finch, V. Graziano, D.L. Lee, and R.M. Sweet. 1993. Crystal structure of globular domain of histone H5 and its implications for nucleosome binding. Nature 362: 219-224.
28. Rhodes, D. 1985. Structural analysis of a triple complex between the histone octamer, a Xenopus gene for 5S RNA and transcription factor IIIA. EMBO J. 4: 3473-3482.
29. Roth, S.Y., M. Shimizu, L. Johnson, M. Grunstein, and R.T. Simpson. 1992. Stable nucleosome positioning and complete repression by the yeast α2 represser are disrupted by amino-terminal mutations in histone H4. Genes & Dev. 6: 411-425.
30. Schild, C., F.X. Claret, W. Wahli, and A.P. Wolffe. 1993. A nucleosome-dependent static loop potentiates estrogen-regulated transcription from the Xenopus vitellogenin B1 promoter in vitro. EMBO J. 12: 423-433.
31. Shimizu, M., S.Y. Roth, C. Szent-Gyorgyi, and R.T. Simpson. 1991. Nucleosomes are positioned with base pair precision adjacent to the α2 operator in Saccharomyces cerevisiae. EMBO J. 10: 3033-3041.
32. Staynov, D.Z. and C. Crane-Robinson. 1988. Footprinting of linker histone H5 and H1 on the nucleosome. EMBO J. 7: 3685-3691.
33. Steger, D.J. and J.L. Workman. 1997. Stable co-occupancy of transcription factors and histones at the HIV-1 enhancer. EMBO J. 16: 2463-2472.
34. Truss, M., J. Bartsch, A. Scheiben, J.G. Haché, and M. Beato. 1995. Hormone induces binding of receptors and transcription factors to a rearranged nucleosome on the MMTV promoter in vivo. EMBO J. 14: 1737-1751.
35. Verdin, E., P. Paras, Jr., and C. Van Lint. 1993. Chromatin disruption in the promoter of human immunodeficiency virus type 1 during transcriptional activation. EMBO J. 12: 3249-3259.
36. Weigel, D., G. Jürgens, F. Küttner, E. Seifert, and H. Jäckle. 1989. The homeotic gene fork head encodes a nuclear protein and is expressed in the terminal regions of the Drosophila embryo. Cell 57: 645-658.
37. Zlatanova, J. and K. van Holde. 1996. The linker histones and chromatin structure: New twists. Progr. Nucleic Acid Res. Mol. Biol. 52: 217-259.
38. Zaret, K.S. 1995. Nucleoprotein architecture of the albumin transcriptional enhancer. Semin. Cell Biol. 6: 209-218.
39. Zaret, K.S. and K. Stevens. 1995. Expression of a highly unstable and insoluble transcription factor in E. coli: Purification and characterization of the fork head homolog HNF3α. Protein Expression Purifi, cation 6: 821-825.