Histone H2A deubiquitinase activity of the Polycomb repressive complex PR-DUB (original) (raw)
Schwartz, Y. B. & Pirrotta, V. Polycomb silencing mechanisms and the management of genomic programmes. Nature Rev. Genet.8, 9–22 (2007) ArticleCASPubMed Google Scholar
Schuettengruber, B., Chourrout, D., Vervoort, M., Leblanc, B. & Cavalli, G. Genome regulation by polycomb and trithorax proteins. Cell128, 735–745 (2007) ArticleCASPubMed Google Scholar
Müller, J. & Verrijzer, C. P. Biochemical mechanisms of gene regulation by polycomb group protein complexes. Curr. Opin. Genet. Dev.19, 150–158 (2009) ArticlePubMed Google Scholar
Simon, J. A. & Kingston, R. E. Mechanisms of polycomb gene silencing: knowns and unknowns. Nature Rev. Mol. Cell Biol.10, 697–708 (2009) ArticleCAS Google Scholar
Pietersen, A. M. & van Lohuizen, M. Stem cell regulation by polycomb repressors: postponing commitment. Curr. Opin. Cell Biol.20, 201–207 (2008) ArticleCASPubMed Google Scholar
Henderson, I. R. & Dean, C. Control of Arabidopsis flowering: the chill before the bloom. Development131, 3829–3838 (2004) ArticleCASPubMed Google Scholar
Jürgens, G. A group of genes controlling the spatial expression of the bithorax complex in Drosophila . Nature316, 153–155 (1985) ArticleADS Google Scholar
Gaytán de Ayala Alonso, A. et al. A genetic screen identifies novel polycomb group genes in Drosophila . Genetics176, 2099–2108 (2007) ArticlePubMed Google Scholar
Nijman, S. M. B. et al. A genomic and functional inventory of deubiquitinating enzymes. Cell123, 773–786 (2005) ArticleCASPubMed Google Scholar
Larsen, C. N., Price, J. S. & Wilkinson, K. D. Substrate binding and catalysis by ubiquitin C-terminal hydrolases: identification of two active site residues. Biochemistry35, 6735–6744 (1996) ArticleCASPubMed Google Scholar
Amerik, A. Y. & Hochstrasser, M. Mechanism and function of deubiquitinating enzymes. Biochim. Biophys. Acta1695, 189–207 (2004) ArticleCASPubMed Google Scholar
Jensen, D. E. et al. BAP1: A novel ubiquitin hydrolase which binds to the BRCA1 RING finger and enhances BRCA1-mediated cell growth suppression. Oncogene16, 1097–1112 (1998) ArticleCASPubMed Google Scholar
Ventii, K. H. et al. BRCA1-associated protein-1 is a tumor suppressor that requires deubiquitinating activity and nuclear localization. Cancer Res.68, 6953–6962 (2008) ArticleCASPubMedPubMed Central Google Scholar
Sinclair, D. A. R. et al. The Additional sex combs gene of Drosophila encodes a chromatin protein that binds to shared and unique Polycomb group sites on polytene chromosomes. Development125, 1207–1216 (1998) CASPubMed Google Scholar
Johnston, S. C., Larsen, C. N., Cook, W. J., Wilkinson, K. D. & Hill, C. P. Crystal structure of a deubiquitinating enzyme (human UCH-L3) at 1.8 Å resolution. EMBO J.16, 3787–3796 (1997) ArticleCASPubMedPubMed Central Google Scholar
Ji, H. & Wong, W. H. TileMap: create chromosomal map of tiling array hybridizations. Bioinformatics21, 3629–3636 (2005) ArticleCASPubMed Google Scholar
Oktaba, K. et al. Dynamic regulation by Polycomb group protein complexes controls pattern formation and the cell cycle in Drosophila . Dev. Cell15, 877–889 (2008) ArticleCASPubMed Google Scholar
Gambetta, M. C., Oktaba, K. & Müller, J. Essential role of the glycosyltransferase Sxc/Ogt in Polycomb repression. Science325, 93–96 (2009) ArticleADSCASPubMed Google Scholar
Papp, B. & Müller, J. Histone trimethylation and the maintenance of transcriptional ON and OFF states by trxG and PcG proteins. Genes Dev.20, 2041–2054 (2006) ArticleCASPubMedPubMed Central Google Scholar
Lagarou, A. et al. dKDM2 couples histone H2A ubiquitylation to histone H3 demethylation during Polycomb group silencing. Genes Dev.22, 2799–2810 (2008) ArticleCASPubMedPubMed Central Google Scholar
Weake, V. M. & Workman, J. L. Histone ubiquitination: triggering gene activity. Mol. Cell29, 653–663 (2008) ArticleCASPubMed Google Scholar
Vassilev, A. P., Rasmussen, H. H., Christensen, E. I., Nielsen, S. & Celis, J. E. The levels of ubiquitinated histone H2A are highly upregulated in transformed human cells: partial colocalization of uH2A clusters and PCNA/cyclin foci in a fraction of cells in S-phase. J. Cell Sci.108, 1205–1215 (1995) CASPubMed Google Scholar
Buchwald, G. et al. Structure and E3-ligase activity of the Ring–Ring complex of Polycomb proteins Bmi1 and Ring1b. EMBO J.25, 2465–2474 (2006) ArticleCASPubMedPubMed Central Google Scholar
Henry, K. W. et al. Transcriptional activation via sequential histone H2B ubiquitylation and deubiquitylation, mediated by SAGA-associated Ubp8. Genes Dev.17, 2648–2663 (2003) ArticleCASPubMedPubMed Central Google Scholar
Klymenko, T. et al. A Polycomb group protein complex with sequence-specific DNA-binding and selective methyl-lysine-binding activities. Genes Dev.20, 1110–1122 (2006) ArticleCASPubMedPubMed Central Google Scholar
Beuchle, D., Struhl, G. & Müller, J. Polycomb group proteins and heritable silencing of Drosophila Hox genes. Development128, 993–1004 (2001) CASPubMed Google Scholar
McGinty, R. K., Kim, J., Chatterjee, C., Roeder, R. G. & Muir, T. W. Chemically ubiquitylated histone H2B stimulates hDot1L-mediated intranucleosomal methylation. Nature453, 812–816 (2008) ArticleADSCASPubMedPubMed Central Google Scholar
McGinty, R. K. et al. Structure-activity analysis of semisynthetic nucleosomes: mechanistic insights into the stimulation of Dot1L by ubiquitylated histone H2B. ACS Chem. Biol.4, 958–968 (2009) ArticleCASPubMedPubMed Central Google Scholar
White, R. A. H. & Wilcox, M. Protein products of the Bithorax Complex in Drosophila . Cell39, 163–171 (1984) ArticleCASPubMed Google Scholar
Celniker, S. E., Sharma, S., Keelanm, D. J. & Lewis, E. B. The molecular genetics of the bithorax complex of Drosophila: c_i_s-regulation in the Abdominal-B domain. EMBO J.9, 4277–4286 (1990) ArticleCASPubMedPubMed Central Google Scholar
Bolstad, B. M., Irizarry, R. A., Astrand, M. & Speed, T. P. A comparison of normalization methods for high density oligonucleotide array data based on variance and bias. Bioinformatics19, 185–193 (2003) ArticleCASPubMed Google Scholar
Nekrasov, M. et al. Pcl-PRC2 is needed to generate high levels of H3-K27 trimethylation at Polycomb target genes. EMBO J.26, 4078–4088 (2007) ArticleCASPubMedPubMed Central Google Scholar
Fraterman, S., Zeiger, U., Khurana, T. S., Wilm, M. & Rubinstein, N. A. Quantitative proteomics profiling of sarcomere associated proteins in limb and extraocular muscle allotypes. Mol. Cell. Proteomics6, 728–737 (2007) ArticleCASPubMed Google Scholar
Müller, J. et al. Histone methyltransferase activity of a Drosophila Polycomb group repressor complex. Cell111, 197–208 (2002) ArticlePubMed Google Scholar
Francis, N. J., Saurin, A. J., Shao, Z. & Kingston, R. E. Reconstitution of a functional core polycomb repressive complex. Mol. Cell8, 545–556 (2001) ArticleCASPubMed Google Scholar
Levine, S. S. et al. The core of the polycomb repressive complex is compositionally and functionally conserved in flies and humans. Mol. Cell. Biol.22, 6070–6078 (2002) ArticleCASPubMedPubMed Central Google Scholar
Mason, D. E., Ek, J., Peters, E. C. & Harris, J. L. Substrate profiling of deubiquitin hydrolases with a positional scanning library and mass spectrometry. Biochem.43, 6535–6544 (2004) ArticleCAS Google Scholar
Thåström, A. et al. Sequence motifs and free energies of selected natural and non-natural nucleosome positioning DNA sequences. J. Mol. Biol.288, 213–229 (1999) ArticlePubMed Google Scholar
Luger, K., Rechsteiner, T. J. & Richmond, T. Preparation of nucleosome core particle from recombinant histones. Methods Enzymol.304, 3–19 (1999) ArticleCASPubMed Google Scholar