Abstract
Chromatin-remodelling complexes have an important role in all DNA-mediated processes and, although much is known about how these enzymes regulate chromosomal DNA accessibility, how they interact with their histone substrates has remained unclear. However, recent studies have indicated that the SANT domain has a central role in chromatin remodelling by functioning as a unique histone-interaction module that couples histone binding to enzyme catalysis.
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References
Luger, K., Mader, A. W., Richmond, R. K., Sargent, D. F. & Richmond, T. J. Crystal structure of the nucleosome core particle at 2.8 Å resolution. Nature 389, 251–260 (1997).
Luger, K. & Richmond, T. J. The histone tails of the nucleosome. Curr. Opin. Genet. Dev. 8, 140–146 (1998).
Hansen, J. C., Tse, C. & Wolffe, A. P. Structure and function of the core histone N-termini: more than meets the eye. Biochemistry 37, 17637–17641 (1998).
Marmorstein, R. Protein modules that manipulate histone tails for chromatin regulation. Nature Rev. Mol. Cell Biol. 2, 422–432 (2001).
Turner, B. M. Cellular memory and the histone code. Cell 111, 285–291 (2002).
Fry, C. J. & Peterson, C. L. Chromatin remodeling enzymes: who's on first? Curr. Biol. 11, R185–R197 (2001).
Narlikar, G. J., Fan, H. Y. & Kingston, R. E. Cooperation between complexes that regulate chromatin structure and transcription. Cell 108, 475–487 (2002).
Dhalluin, C. et al. Structure and ligand of a histone acetyltransferase bromodomain. Nature 399, 491–496 (1999).
Jacobson, R. H., Ladurner, A. G., King, D. S. & Tjian, R. Structure and function of a human TAFII250 double bromodomain module. Science 288, 1422–1425 (2000).
Ornaghi, P., Ballario, P., Lena, A. M., Gonzalez, A. & Filetici, P. The bromodomain of Gcn5p interacts in vitro with specific residues in the N terminus of histone H4. J. Mol. Biol. 287, 1–7 (1999).
Fischle, W. et al. Molecular basis for the discrimination of repressive methyl-lysine marks in histone H3 by Polycomb and HP1 chromodomains. Genes Dev. 17, 1870–1881 (2003).
Min, J., Zhang, Y. & Xu, R. M. Structural basis for specific binding of Polycomb chromodomain to histone H3 methylated at Lys 27. Genes Dev. 17, 1823–1828 (2003).
Aasland, R., Stewart, A. F. & Gibson, T. The SANT domain: a putative DNA-binding domain in the SWI-SNF and ADA complexes, the transcriptional co-repressor N-CoR and TFIIIB. Trends Biochem. Sci. 21, 87–88 (1996).
Ogata, K. et al. Solution structure of a specific DNA complex of the Myb DNA-binding domain with cooperative recognition helices. Cell 79, 639–648 (1994).
Tahirov, T. H. et al. Crystals of ternary protein–DNA complexes composed of DNA-binding domains of c-Myb or v-Myb, C/EBPα or C/EBPβ and tom-1A promoter fragment. Acta Crystallogr. D 57, 1655–1658 (2001).
Grüne, T. et al. Crystal structure and functional analysis of a nucleosome recognition module of the remodeling factor ISWI. Mol. Cell 12, 449–460 (2003).
Barbaric, S., Reinke, H. & Horz, W. Multiple mechanistically distinct functions of SAGA at the PHO5 promoter. Mol. Cell. Biol. 23, 3468–3476 (2003).
Boyer, L. A. et al. Essential role for the SANT domain in the functioning of multiple chromatin remodeling enzymes. Mol. Cell 10, 935–942 (2002).
Sterner, D. E., Wang, X., Bloom, M. H., Simon, G. M. & Berger, S. L. The SANT domain of Ada2 is required for normal acetylation of histones by the yeast SAGA complex. J. Biol. Chem. 277, 8178–8186 (2002).
Hassan, A. H. et al. Function and selectivity of bromodomains in anchoring chromatin-modifying complexes to promoter nucleosomes. Cell 111, 369–379 (2002).
Marcus, G. A., Silverman, N., Berger, S. L., Horiuchi, J. & Guarente, L. Functional similarity and physical association between GCN5 and ADA2: putative transcriptional adaptors. EMBO J. 13, 4807–4815 (1994).
Sterner, D. E. et al. Functional organization of the yeast SAGA complex: distinct components involved in structural integrity, nucleosome acetylation, and TATA-binding protein interaction. Mol. Cell. Biol. 19, 86–98 (1999).
Elfring, L. K. et al. Genetic analysis of brahma: the Drosophila homolog of the yeast chromatin remodeling factor SWI2/SNF2. Genetics 148, 251–265 (1998).
Yu, J., Li, Y., Ishizuka, T., Guenther, M. G. & Lazar, M. A. A SANT motif in the SMRT corepressor interprets the histone code and promotes histone deacetylation. EMBO J. 22, 3403–3410 (2003).
Guenther, M. G., Barak, O. & Lazar, M. A. The SMRT and N-CoR corepressors are activating cofactors for histone deacetylase 3. Mol. Cell. Biol. 21, 6091–6101 ( 2001).
Humphrey, G. W. et al. Stable histone deacetylase complexes distinguished by the presence of SANT domain proteins CoREST/kiaa0071 and Mta-L1. J. Biol. Chem. 276, 6817–6824 (2001).
You, A., Tong, J. K., Grozinger, C. M. & Schreiber, S. L. CoREST is an integral component of the CoREST- human histone deacetylase complex. Proc. Natl Acad. Sci. USA 98, 1454–1458 (2001).
Georgel, P. T., Tsukiyama, T. & Wu, C. Role of histone tails in nucleosome remodeling by Drosophila NURF. EMBO J. 16, 4717–4726 (1997).
Corona, D. F. et al. ISWI is an ATP-dependent nucleosome remodeling factor. Mol. Cell 3, 239–245 (1999).
Clapier, C. R., Nightingale, K. P. & Becker, P. B. A critical epitope for substrate recognition by the nucleosome remodeling ATPase ISWI. Nucl. Acids Res. 30, 649–655 (2002).
Boyer, L. A. et al. Functional delineation of three groups of the ATP-dependent family of chromatin remodeling enzymes. J. Biol. Chem. 275, 18864–18870 (2000).
Zargarian, L. et al. Myb-DNA recognition: role of tryptophan residues and structural changes of the minimal DNA binding domain of c-Myb. Biochemistry 38, 1921–1929 (1999).
Langer, M. R., Tanner, K. G. & Denu, J. M. Mutational analysis of conserved residues in the GCN5 family of histone acetyltransferases. J. Biol. Chem. 276, 31321–31331 (2001).
Narlikar, G. J., Phelan, M. L. & Kingston, R. E. Generation and interconversion of multiple distinct nucleosomal states as a mechanism for catalyzing chromatin fluidity. Mol. Cell 8, 1219–1230 (2001).
Lachner, M., O'Carroll, D., Rea, S., Mechtler, K. & Jenuwein, T. Methylation of histone H3 lysine 9 creates a binding site for HP1 proteins. Nature 410, 116–120 (2001).
Bannister, A. J. et al. Selective recognition of methylated lysine 9 on histone H3 by the HP1 chromo domain. Nature 410, 120–124 (2001).
Thompson, J. D., Gibson, T. J., Plewniak, F., Jeanmougin, F. & Higgins, D. G. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucl. Acids Res. 25, 4876–4882 (1997).
Sali, A., Potterton, L., Yuan, F., van Vlijmen, H. & Karplus, M. Evaluation of comparative protein modeling by MODELLER. Proteins 23, 318–326 (1995).
Acknowledgements
We wish to thank M. Lazar, P. Becker and C. Müller for communicating results before publication. We are particularly grateful to C. Müller for the early release of the crystal coordinates of the Iswi SANT domain, which allowed us to carry out our electrostatic analyses.
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Boyer, L., Latek, R. & Peterson, C. The SANT domain: a unique histone-tail-binding module?. Nat Rev Mol Cell Biol 5, 158–163 (2004). https://doi.org/10.1038/nrm1314
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DOI: https://doi.org/10.1038/nrm1314
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