Eaf3 chromodomain interaction with methylated H3-K36 links histone deacetylation to pol II elongation

Molecular Cell

Volumn 20, Issue 6, 2005, Pages 971-978

  Joshi, Amita A ^a   Struhl, Kevin ^a  

^a HARVARD MEDICAL SCHOOL   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

HISTONE ACETYLTRANSFERASE; HISTONE DEACETYLASE; MESSENGER RNA; PROTEIN DERIVATIVE; PROTEIN EAF3; RNA POLYMERASE II; UNCLASSIFIED DRUG;

ARTICLE; CARBOXY TERMINAL SEQUENCE; CHROMATIN STRUCTURE; DEACETYLATION; NONHUMAN; PROTEIN DOMAIN; PROTEIN FUNCTION; PROTEIN INTERACTION; PROTEIN METHYLATION; PROTEIN PHOSPHORYLATION; SACCHAROMYCES CEREVISIAE;

ACETYLATION; ACETYLTRANSFERASES; GENE EXPRESSION REGULATION, FUNGAL; HISTONES; LYSINE; METHYLTRANSFERASES; PROMOTER REGIONS (GENETICS); RNA POLYMERASE II; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; TRANSCRIPTION, GENETIC;

SACCHAROMYCES CEREVISIAE;

EID: 29144468972     PISSN: 10972765     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.molcel.2005.11.021     Document Type: Article

References (27)

1. O.M. Aparicio, J.V. Geisberg, and K. Struhl Chromatin immunoprecipitation for determining the association of proteins with specific genomic sequences in vivo F.A. Ausubel R. Brent R.E. Kingston D.D. Moore J.G. Seidman J.A. Smith K. Struhl Current Protocols in Molecular Biology 2004 John Wiley & Sons New York pp. 21.23.21-21.23.17
2. B.E. Bernstein, C.L. Liu, E.L. Humphrey, E.O. Perlstein, and S.L. Schreiber Global nucleosome occupancy in yeast Genome Biol. 5 2004 R62 10.1186/gb-2004-5-9-r62 Published online August 20, 2004
3. M.J. Bertram, and O.M. Pereira-Smith Conservation of the MORF4 related gene family: identification of a new chromodomain subfamily and novel protein motif Gene 266 2000 111 121
4. A. Brehm, K.R. Tufteland, R. Aasland, and P.B. Becker The many colours of chromodomains Bioessays 26 2004 133 140
5. M.J. Carrozza, B. Li, L. Florens, T. Suganuma, S.K. Swanson, K.K. Lee, W.J. Shia, S. Anderson, J. Yates, M.P. Washburn, and J.L. Workman Histone H3 methylation by Set2 directs deacetylation of coding regions by Rpd3S to suppress spurious intragenic transcription Cell 123 2005 581 592
6. D. Kadosh, and K. Struhl Repression by Ume6 involves recruitment of a complex containing Sin3 corepressor and Rpd3 histone deacetylase to target promoters Cell 89 1997 365 371
7. C.D. Kaplan, L. Laprade, and F. Winston Transcription elongation factors repress transcription initiation from cryptic sites Science 301 2003 1096 1099
8. M.C. Keogh, S.K. Kurdistani, S.A. Morris, S.H. Ahn, V. Podolny, S.R. Collins, M. Schuldiner, K. Chin, T. Punna, and N.J. Thompson Cotranscriptional Set2 methylation of histone h3 lysine 36 recruits a repressive rpd3 complex Cell 123 2005 593 605
9. K.O. Kizer, H.P. Phatnani, Y. Shibata, H. Hall, A.L. Greenleaf, and B.D. Strahl A novel domain in Set2 mediates RNA polymerase II interaction and couples H3 K36 methylation with transcript elongation Mol. Cell. Biol. 25 2005 3305 3316
10. A. Kristjuhan, and J.Q. Svejstrup Evidence for distinct mechanisms facilitating transcript elongation through chromatin in vivo EMBO J. 23 2004 4243 4252 10.1038/sj.emboj.7600433 Published online September 30, 2004
11. N.J. Krogan, M. Kim, A. Tong, A. Golshani, G. Cagney, V. Canadien, D.P. Richards, B.K. Beattie, A. Emili, and C. Boone Methylation of histone H3 by Set2 in Saccharomyces cerevisiae is linked to transcriptional elongation by RNA polymerase II' Mol. Cell. Biol. 23 2003 4207 4218
12. C.K. Lee, Y. Shibata, B. Rao, B.D. Strahl, and J.D. Lieb Evidence for nucleosome depletion at active regulatory regions genome-wide Nat. Genet. 36 2004 900 905
13. M.S. Longtine, A. McKenzie, D.J. Demarini, N.G. Shah, A. Wach, A. Brachat, P. Philippsen, and J.R. Pringle Additional modules for versatile and economical PCR-based gene deletion and modification in Saccharomyces cerevisiae Yeast 14 1998 953 961
14. P.B. Mason, and K. Struhl The FACT complex travels with elongating RNA polymerase II and is important for the fidelity of transcriptional initiation in vivo Mol. Cell. Biol. 23 2003 8323 8333
15. H.H. Ng, F. Robert, R.A. Young, and K. Struhl Targeted recruitment of Set1 histone methylase by elongating Pol II provides a localized mark and memory of recent transcriptional activity Mol. Cell 11 2003 709 719
16. D.K. Pokholok, C.T. Harbison, S. Levine, M. Cole, N.M. Hannett, T.I. Lee, G.W. Bell, K.P. Walker, P.A. Rolfe, and E. Herbolsheimer Genome-wide map of nucleosome acetylation and methylation in yeast Cell 122 2005 517 527
17. J.L. Reid, Z. Moqtaderi, and K. Struhl Eaf3 regulates the global pattern of histone acetylation in Saccharomyces cerevisiae Mol. Cell. Biol. 24 2004 757 764
18. D. Robyr, Y. Suka, I. Xenarios, S.K. Kurdistani, A. Wang, N. Suka, and M. Grunstein Microarray deacetylation maps determine genome-wide functions for yeast histone deacetylases Cell 109 2002 437 446
19. S.E. Rundlett, A.A. Carmen, N. Suka, B.M. Turner, and M. Grunstein Transcriptional repression by UME6 involves deacetylation of lysine 5 of histone H4 by RPD3 Nature 392 1998 831 835
20. H. Santos-Rosa, R. Schneider, A.J. Bannister, J. Sherriff, B.E. Bernstein, N.C. Emre, S.L. Schreiber, J. Mellor, and T. Kouzarides Active genes are tri-methylated at K4 of histone H3 Nature 419 2002 407 411
21. M.A. Schwabish, and K. Struhl Evidence for eviction and rapid deposition of histones upon transcriptional elongation by RNA polymerase II Mol. Cell. Biol. 24 2004 10111 10117
22. E.A. Sekinger, Z. Moqtaderi, and K. Struhl Intrinsic histone-DNA interactions and low nucleosome density are important for preferential accessibility of promoter regions in yeast Mol. Cell 18 2005 735 748
23. R.J. Sims, R. Belotserkovskaya, and D. Reinberg Elongation by RNA polymerase II: the short and long of it Genes Dev. 18 2004 2437 2468
24. B.D. Strahl, P.A. Grant, S.D. Briggs, Z.W. Sun, J.R. Bone, J.A. Caldwell, S. Mollah, R.G. Cook, J. Shabanowitz, D.F. Hunt, and C.D. Allis Set2 is a nucleosomal histone H3-selective methyltransferase that mediates transcriptional repression Mol. Cell. Biol. 22 2002 1298 1306
25. N. Suka, Y. Suka, A.A. Carmen, J. Wu, and M. Grunstein Highly specific antibodies determine histone acetylation in yeast heterochromatin and euchromatin Mol. Cell 8 2001 473 479
26. G.-C. Yuan, Y.-J. Liu, M.F. Dion, M.D. Slack, L.F. Wu, S.J. Altschuler, and O.J. Rando Genome-scale identification of nucleosome positions in S. cerevisiae Science 309 2005 626 630
27. L. Zhang, S.C. Schroeder, N. Fong, and D.L. Bentley Altered nucleosome occupancy and histone H3-K4 methylation in response to 'transcriptional stress' EMBO J. 24 2005 2379 2390