The n-SET Domain of Set1 Regulates H2B Ubiquitylation-Dependent H3K4 Methylation

Molecular Cell

Volumn 49, Issue 6, 2013, Pages 1121-1133

  Kim, Jaehoon ^a,b   Kim, Jung Ae ^a,c   McGinty, Robert K ^a,d   Nguyen, Uyen T T ^a,e   Muir, Tom W ^a,e   Allis, C David ^a   Roeder, Robert G ^a  

^a ROCKEFELLER UNIVERSITY   (United States)

^b Korea Advanced Institute of Science and Technology (KAIST)   (South Korea)

^c Korea Research Institute of Bioscience and Biotechnology (KRIBB)   (South Korea)

^d PENNSYLVANIA STATE UNIVERSITY   (United States)

^e PRINCETON UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CLEAVAGE AND POLYADENYLATION SPECIFICITY FACTOR; HISTONE METHYLTRANSFERASE; METHYLTRANSFERASE; SET 1 COMPLEX; UNCLASSIFIED DRUG;

ARTICLE; CHROMATIN; DOWNSTREAM PROCESSING; GENETIC ANALYSIS; HUMAN; IN VITRO STUDY; METHYLATION; MOLECULAR INTERACTION; NUCLEOSOME; UBIQUITINATION;

AMINO ACID MOTIFS; AMINO ACID SEQUENCE; ANIMALS; CATALYTIC DOMAIN; CHROMATIN; DNA-BINDING PROTEINS; HELA CELLS; HISTONE-LYSINE N-METHYLTRANSFERASE; HISTONES; HUMANS; METHYLATION; MOLECULAR SEQUENCE DATA; MULTIPROTEIN COMPLEXES; PROTEIN BINDING; PROTEIN INTERACTION DOMAINS AND MOTIFS; PROTEIN SUBUNITS; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; SF9 CELLS; SPODOPTERA; UBIQUITINATION; XENOPUS PROTEINS;

EID: 84875771630     PISSN: 10972765     EISSN: 10974164     Source Type: Journal    
DOI: 10.1016/j.molcel.2013.01.034     Document Type: Article

References (37)

1. Briggs S.D., Bryk M., Strahl B.D., Cheung W.L., Davie J.K., Dent S.Y., Winston F., Allis C.D. Histone H3 lysine 4 methylation is mediated by Set1 and required for cell growth and rDNA silencing in Saccharomyces cerevisiae. Genes Dev. 2001, 15:3286-3295.
2. Chandrasekharan M.B., Huang F., Chen Y.C., Sun Z.W. Histone H2B C-terminal helix mediates trans-histone H3K4 methylation independent of H2B ubiquitination. Mol. Cell. Biol. 2010, 30:3216-3232.
3. Cheng H., He X., Moore C. The essential WD repeat protein Swd2 has dual functions in RNA polymerase II transcription termination and lysine 4 methylation of histone H3. Mol. Cell. Biol. 2004, 24:2932-2943.
4. Chi P., Allis C.D., Wang G.G. Covalent histone modifications-miswritten, misinterpreted and mis-erased in human cancers. Nat. Rev. Cancer 2010, 10:457-469.
5. Cosgrove M.S., Patel A. Mixed lineage leukemia: a structure-function perspective of the MLL1 protein. FEBS J. 2010, 277:1832-1842.
6. Dehé P.M., Géli V. The multiple faces of Set1. Biochem. Cell Biol. 2006, 84:536-548.
7. Dehé P.M., Pamblanco M., Luciano P., Lebrun R., Moinier D., Sendra R., Verreault A., Tordera V., Géli V. Histone H3 lysine 4 mono-methylation does not require ubiquitination of histone H2B. J. Mol. Biol. 2005, 353:477-484.
8. Dehé P.M., Dichtl B., Schaft D., Roguev A., Pamblanco M., Lebrun R., Rodríguez-Gil A., Mkandawire M., Landsberg K., Shevchenko A., et al. Protein interactions within the Set1 complex and their roles in the regulation of histone 3 lysine 4 methylation. J. Biol. Chem. 2006, 281:35404-35412.
9. Dichtl B., Aasland R., Keller W. Functions for S. cerevisiae Swd2p in 3' end formation of specific mRNAs and snoRNAs and global histone 3 lysine 4 methylation. RNA 2004, 10:965-977.
10. Dover J., Schneider J., Tawiah-Boateng M.A., Wood A., Dean K., Johnston M., Shilatifard A. Methylation of histone H3 by COMPASS requires ubiquitination of histone H2B by Rad6. J. Biol. Chem. 2002, 277:28368-28371.
11. Eissenberg J.C., Shilatifard A. Histone H3 lysine 4 (H3K4) methylation in development and differentiation. Dev. Biol. 2010, 339:240-249.
12. Fierz B., Chatterjee C., McGinty R.K., Bar-Dagan M., Raleigh D.P., Muir T.W. Histone H2B ubiquitylation disrupts local and higher-order chromatin compaction. Nat. Chem. Biol. 2011, 7:113-119.
13. Fingerman I.M., Wu C.L., Wilson B.D., Briggs S.D. Global loss of Set1-mediated H3 Lys4 trimethylation is associated with silencing defects in Saccharomyces cerevisiae. J. Biol. Chem. 2005, 280:28761-28765.
14. Halbach A., Zhang H., Wengi A., Jablonska Z., Gruber I.M., Halbeisen R.E., Dehé P.M., Kemmeren P., Holstege F., Géli V., et al. Cotranslational assembly of the yeast SET1C histone methyltransferase complex. EMBO J. 2009, 28:2959-2970.
15. Kim J., Guermah M., McGinty R.K., Lee J.S., Tang Z., Milne T.A., Shilatifard A., Muir T.W., Roeder R.G. RAD6-Mediated transcription-coupled H2B ubiquitylation directly stimulates H3K4 methylation in human cells. Cell 2009, 137:459-471.
16. Lee J.S., Shukla A., Schneider J., Swanson S.K., Washburn M.P., Florens L., Bhaumik S.R., Shilatifard A. Histone crosstalk between H2B monoubiquitination and H3 methylation mediated by COMPASS. Cell 2007, 131:1084-1096.
17. McGinty R.K., Kim J., Chatterjee C., Roeder R.G., Muir T.W. Chemically ubiquitylated histone H2B stimulates hDot1L-mediated intranucleosomal methylation. Nature 2008, 453:812-816.
18. McGinty R.K., Köhn M., Chatterjee C., Chiang K.P., Pratt M.R., Muir T.W. Structure-activity analysis of semisynthetic nucleosomes: mechanistic insights into the stimulation of Dot1L by ubiquitylated histone H2B. ACS Chem. Biol. 2009, 4:958-968.
19. Nagy P.L., Griesenbeck J., Kornberg R.D., Cleary M.L. A trithorax-group complex purified from Saccharomyces cerevisiae is required for methylation of histone H3. Proc. Natl. Acad. Sci. USA 2002, 99:90-94.
20. Nedea E., Nalbant D., Xia D., Theoharis N.T., Suter B., Richardson C.J., Tatchell K., Kislinger T., Greenblatt J.F., Nagy P.L. The Glc7 phosphatase subunit of the cleavage and polyadenylation factor is essential for transcription termination on snoRNA genes. Mol. Cell 2008, 29:577-587.
21. Ng H.H., Robert F., Young R.A., Struhl K. Targeted recruitment of Set1 histone methylase by elongating Pol II provides a localized mark and memory of recent transcriptional activity. Mol. Cell 2003, 11:709-719.
22. Patel A., Vought V.E., Dharmarajan V., Cosgrove M.S. A conserved arginine-containing motif crucial for the assembly and enzymatic activity of the mixed lineage leukemia protein-1 core complex. J. Biol. Chem. 2008, 283:32162-32175.
23. Racine A., Pagé V., Nagy S., Grabowski D., Tanny J.C. Histone H2B ubiquitylation promotes activity of the intact Set1 histone methyltransferase complex in fission yeast. J. Biol. Chem. 2012, 287:19040-19047.
24. Roguev A., Schaft D., Shevchenko A., Pijnappel W.W., Wilm M., Aasland R., Stewart A.F. The Saccharomyces cerevisiae Set1 complex includes an Ash2 homologue and methylates histone 3 lysine 4. EMBO J. 2001, 20:7137-7148.
25. Roguev A., Schaft D., Shevchenko A., Aasland R., Shevchenko A., Stewart A.F. High conservation of the Set1/Rad6 axis of histone 3 lysine 4 methylation in budding and fission yeasts. J. Biol. Chem. 2003, 278:8487-8493.
26. Ruthenburg A.J., Allis C.D., Wysocka J. Methylation of lysine 4 on histone H3: intricacy of writing and reading a single epigenetic mark. Mol. Cell 2007, 25:15-30.
27. Santos-Rosa H., Schneider R., Bannister A.J., Sherriff J., Bernstein B.E., Emre N.C., Schreiber S.L., Mellor J., Kouzarides T. Active genes are tri-methylated at K4 of histone H3. Nature 2002, 419:407-411.
28. Schlichter A., Cairns B.R. Histone trimethylation by Set1 is coordinated by the RRM, autoinhibitory, and catalytic domains. EMBO J. 2005, 24:1222-1231.
29. Schübeler D., MacAlpine D.M., Scalzo D., Wirbelauer C., Kooperberg C., van Leeuwen F., Gottschling D.E., O'Neill L.P., Turner B.M., Delrow J., et al. The histone modification pattern of active genes revealed through genome-wide chromatin analysis of a higher eukaryote. Genes Dev. 2004, 18:1263-1271.
30. Shahbazian M.D., Zhang K., Grunstein M. Histone H2B ubiquitylation controls processive methylation but not monomethylation by Dot1 and Set1. Mol. Cell 2005, 19:271-277.
31. Soares L.M., Buratowski S. Yeast Swd2 is essential because of antagonism between Set1 histone methyltransferase complex and APT (associated with Pta1) termination factor. J. Biol. Chem. 2012, 287:15219-15231.
32. Song J.J., Kingston R.E. WDR5 interacts with mixed lineage leukemia (MLL) protein via the histone H3-binding pocket. J. Biol. Chem. 2008, 283:35258-35264.
33. South P.F., Fingerman I.M., Mersman D.P., Du H.N., Briggs S.D. A conserved interaction between the SDI domain of Bre2 and the Dpy-30 domain of Sdc1 is required for histone methylation and gene expression. J. Biol. Chem. 2010, 285:595-607.
34. Sun Z.W., Allis C.D. Ubiquitination of histone H2B regulates H3 methylation and gene silencing in yeast. Nature 2002, 418:104-108.
35. Vitaliano-Prunier A., Menant A., Hobeika M., Géli V., Gwizdek C., Dargemont C. Ubiquitylation of the COMPASS component Swd2 links H2B ubiquitylation to H3K4 trimethylation. Nat. Cell Biol. 2008, 10:1365-1371.
36. Wang G.G., Allis C.D. " Misinterpretation" of a histone mark is linked to aberrant stem cells and cancer development. Cell Cycle 2009, 8:1982-1983.
37. Wang Z., Cui B., Gorovsky M.A. Histone H2B ubiquitylation is not required for histone H3 methylation at lysine 4 in tetrahymena. J. Biol. Chem. 2009, 284:34870-34879.