Function of a eukaryotic transcription activator during the transcription cycle

Molecular Cell

Volumn 18, Issue 3, 2005, Pages 369-378

  Fishburn, James ^a   Mohibullah, Neeman ^b,c   Hahn, Steven ^a,b  

^a HOWARD HUGHES MEDICAL INSTITUTE   (United States)

^b Fred Hutchinson Cancer Research Center   (United States)

^c Molecular and Cellular Biology Program   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

EUKARYOTIC TRANSCRIPTION ACTIVATOR; INITIATION FACTOR; MUTANT PROTEIN; POLYPEPTIDE; PROTEIN SUBUNIT; TRANSCRIPTION ASSOCIATED PROTEIN 1; TRANSCRIPTION FACTOR GAL11; TRANSCRIPTION FACTOR GCN4; TRANSCRIPTION FACTOR IID; TRANSCRIPTION FACTOR NUA4; TRANSCRIPTION FACTOR SAGA; TRANSCRIPTION INITIATION FACTOR IID SUBUNIT 12; UNCLASSIFIED DRUG; CROSS LINKING REAGENT; DNA BINDING PROTEIN; MULTIPROTEIN COMPLEX; PEPTIDE; PROTEIN KINASE; SACCHAROMYCES CEREVISIAE PROTEIN;

ARTICLE; BINDING SITE; CELL SPECIFICITY; COMPLEX FORMATION; CONTROLLED STUDY; ESCHERICHIA COLI; GENE CONTROL; NONHUMAN; PHOTOCHEMISTRY; PROTEIN CROSS LINKING; PROTEIN DEPLETION; PROTEIN DETERMINATION; PROTEIN FUNCTION; PROTEIN TARGETING; SACCHAROMYCES CEREVISIAE; TRANSCRIPTION INITIATION; AMINO ACID SEQUENCE; CHEMISTRY; GENE EXPRESSION REGULATION; GENETIC TRANSCRIPTION; GENETICS; METABOLISM; MOLECULAR GENETICS;

EUKARYOTA;

AMINO ACID SEQUENCE; CROSS-LINKING REAGENTS; DNA-BINDING PROTEINS; GENE EXPRESSION REGULATION; MOLECULAR SEQUENCE DATA; MULTIPROTEIN COMPLEXES; PEPTIDES; PROTEIN KINASES; PROTEIN SUBUNITS; SACCHAROMYCES CEREVISIAE PROTEINS; TRANSCRIPTION FACTOR TFIID; TRANSCRIPTION, GENETIC;

EID: 18944364218     PISSN: 10972765     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.molcel.2005.03.029     Document Type: Article

References (52)

1. A.Z. Ansari, S.S. Koh, Z. Zaman, C. Bongards, N. Lehming, R.A. Young, and M. Ptashne Transcriptional activating regions target a cyclin-dependent kinase Proc. Natl. Acad. Sci. USA 99 2002 14706 14709
2. N.A. Barlev, R. Candau, L. Wang, P. Darpino, N. Silverman, and S.L. Berger Characterization of physical interactions of the putative transcriptional adaptor, ADA2 with acidic activation domains and TATA binding protein J. Biol. Chem. 270 1995 19337 19344
3. S.R. Bhaumik, and M.R. Green SAGA is an essential in vivo target of the yeast acidic activator Gal4p Genes Dev. 15 2001 1935 1945
4. S.R. Bhaumik, T. Raha, D.P. Aiello, and M.R. Green In vivo target of a transcriptional activator revealed by fluorescence resonance energy transfer Genes Dev. 18 2004 333 343
5. C.E. Brown, L. Howe, K. Sousa, S.C. Alley, M.J. Carrozza, S. Tan, and J.L. Workman Recruitment of HAT complexes by direct activator interactions with the ATM-related Tra1 subunit Science 292 2001 2333 2337
6. G.O. Bryant, and M. Ptashne Independent recruitment in vivo by gal4 of two complexes required for transcription Mol. Cell 11 2003 1301 1309
7. S. Chatterjee, and K. Struhl Connecting a promoter-bound protein to TBP bypasses the need for a transcriptional activation domain Nature 374 1995 820 821
8. H.T. Chen, and S. Hahn Binding of TFIIB to RNA polymerase II: mapping the binding site for the TFIIB zinc ribbon domain within the preinitiation complex Mol. Cell 12 2003 437 447
9. H.-T. Chen, and S. Hahn Mapping the location of TFIIB within the RNA Polymerase II transcription preinitiation complex: a model for the structure of the PIC Cell 119 2004 169 180
10. Y. Chen, Y.W. Ebright, and R.H. Ebright Identification of the target of a transcription activator protein by protein-protein photocrosslinking Science 265 1994 90 92
11. J.X. Cheng, M. Gandolfi, and M. Ptashne Activation of the gal1 gene of yeast by pairs of 'non-classical' activators Curr. Biol. 14 2004 1675 1679
12. Y. Doyon, and J. Cote The highly conserved and multifunctional NuA4 HAT complex Curr. Opin. Genet. Dev. 14 2004 147 154
13. C.M. Drysdale, E. Duenas, B.M. Jackson, U. Reusser, G.H. Braus, and A.G. Hinnebusch The transcriptional activator GCN4 contains multiple activation domains that are critically dependent on hydrophobic amino acids Mol. Cell. Biol. 15 1995 1220 1233
14. C.M. Drysdale, B.M. Jackson, R. McVeigh, E.R. Klebanow, Y. Bai, T. Kokubo, M. Swanson, Y. Nakatani, P.A. Weil, and A.G. Hinnebusch The Gcn4p activation domain interacts specifically in vitro with RNA polymerase II holoenzyme, TFIID, and the Adap-Gcn5p coactivator complex Mol. Cell. Biol. 18 1998 1711 1724
15. S. Farrell, N. Simkovich, Y. Wu, A. Barberis, and M. Ptashne Gene activation by recruitment of the RNA polymerase II holoenzyme Genes Dev. 10 1996 2359 2367
16. S. Hahn Activation and the role of reinitiation in the control of transcription by RNA polymerase II Cold Spring Harb. Symp. Quant. Biol. 63 1998 181 188
17. S. Hahn Structure and mechanism of the RNA polymerase II transcription machinery Nat. Struct. Mol. Biol. 11 2004 394 403
18. I.A. Hope, S. Mahadevan, and K. Struhl Structural and functional characterization of the short acidic transcriptional activation region of yeast GCN4 protein Nature 333 1988 635 640
19. V. Iyer, and K. Struhl Mechanism of differential utilization of the his3 TR and TC TATA elements Mol. Cell. Biol. 15 1995 7059 7066
20. B.M. Jackson, C.M. Drysdale, K. Natarajan, and A.G. Hinnebusch Identification of seven hydrophobic clusters in GCN4 making redundant contributions to transcriptional activation Mol. Cell. Biol. 16 1996 5557 5571
21. M. Keaveney, and K. Struhl Activator-mediated recruitment of the RNA polymerase II machinery is the predominant mechanism for transcriptional activation in yeast Mol. Cell 1 1998 917 924
22. N. Klages, and M. Strubin Stimulation of RNA polymerase II transcription initiation by recruitment of TBP in vivo Nature 374 1995 822 823
23. J. Klein, M. Nolden, S.L. Sanders, J. Kirchner, P.A. Weil, and K. Melcher Use of a genetically introduced cross-linker to identify interaction sites of acidic activators within native transcription factor IID and SAGA J. Biol. Chem. 278 2003 6779 6786
24. S.S. Koh, A.Z. Ansari, M. Ptashne, and R.A. Young An activator target in the RNA polymerase II holoenzyme Mol. Cell 1 1998 895 904
25. L. Kuras, and K. Struhl Binding of TBP to promoters in vivo is stimulated by activators and requires Pol II holoenzyme Nature 399 1999 609 613
26. L. Kuras, P. Kosa, M. Mencia, and K. Struhl TAF-containing and TAF-independent forms of transcriptionally active TBP in vivo Science 288 2000 1244 1248
27. T.I. Lee, and R.A. Young Transcription of eukaryotic protein-coding genes Annu. Rev. Genet. 34 2000 77 137
28. Y.C. Lee, J.M. Park, S. Min, S.J. Han, and Y.J. Kim An activator binding module of yeast RNA polymerase II holoenzyme Mol. Cell. Biol. 19 1999 2967 2976
29. X.Y. Li, A. Virbasius, X. Zhu, and M.R. Green Enhancement of TBP binding by activators and general transcription factors Nature 399 1999 605 609
30. X.Y. Li, S.R. Bhaumik, and M.R. Green Distinct classes of yeast promoters revealed by differential TAF recruitment Science 288 2000 1242 1244
31. L.J. Lucast, R.T. Batey, and J.A. Doudna Large-scale purification of a stable form of recombinant tobacco etch virus protease Biotechniques 30 2001 544 546
32. K. Melcher The strength of acidic activation domains correlates with their affinity for both transcriptional and non-transcriptional proteins J. Mol. Biol. 301 2000 1097 1112
33. L.C. Myers, C.M. Gustafsson, K.C. Hayashibara, P.O. Brown, and R.D. Kornberg Mediator protein mutations that selectively abolish activated transcription Proc. Natl. Acad. Sci. USA 96 1999 67 72
34. K. Natarajan, B.M. Jackson, E. Rhee, and A.G. Hinnebusch yTAFII61 has a general role in RNA polymerase II transcription and is required by Gcn4p to recruit the SAGA coactivator complex Mol. Cell 2 1998 683 692
35. W. Niu, Y. Kim, G. Tau, T. Heyduk, and R.H. Ebright Transcription activation at class II CAP-dependent promoters: two interactions between CAP and RNA Polymerase Cell 87 1996 1123 1134
36. J.M. Park, H.S. Kim, S.J. Han, M.S. Hwang, Y.C. Lee, and Y.J. Kim In vivo requirement of activator-specific binding targets of mediator Mol. Cell. Biol. 20 2000 8709 8719
37. P. Prochasson, K.E. Neely, A.H. Hassan, B. Li, and J.L. Workman Targeting activity is required for SWI/SNF function in vivo and is accomplished through two partially redundant activator-interaction domains Mol. Cell 12 2003 983 990
38. M. Ptashne, and A. Gann Transcriptional activation by recruitment Nature 386 1997 569 577
39. M. Ptashne, and A. Gann Genes and Signals 2002 Cold Spring Harbor Laboratory Press Cold Spring Harbor, NY
40. H. Qiu, C. Hu, S. Yoon, K. Natarajan, M.J. Swanson, and A.G. Hinnebusch An array of coactivators is required for optimal recruitment of TATA binding protein and RNA polymerase II by promoter-bound Gcn4p Mol. Cell. Biol. 24 2004 4104 4117
41. Ranish, J.A. (1999). Mechanisms of Transcription by RNA Polymerase II. PhD thesis, University of Washington, Seattle, Washington.
42. J.A. Ranish, N. Yudkovsky, and S. Hahn Intermediates in formation and activity of the RNA polymerase II preinitiation complex: holoenzyme recruitment and a postrecruitment role for the TATA box and TFIIB Genes Dev. 13 1999 49 63
43. W.M. Reeves, and S. Hahn Activator-independent functions of the yeast mediator sin4 complex in preinitiation complex formation and transcription reinitiation Mol. Cell. Biol. 23 2003 349 358
44. G. Rigaut, A. Shevchenko, B. Rutz, M. Wilm, M. Mann, and B. Seraphin A generic protein purification method for protein complex characterization and proteome exploration Nat. Biotechnol. 17 1999 1030 1032
45. S.Y. Roth, J.M. Denu, and C.D. Allis Histone acetyltransferases Annu. Rev. Biochem. 70 2001 81 120
46. W.C. Shen, S.R. Bhaumik, H.C. Causton, I. Simon, X. Zhu, E.G. Jennings, T.H. Wang, R.A. Young, and M.R. Green Systematic analysis of essential yeast TAFs in genome-wide transcription and preinitiation complex assembly EMBO J. 22 2003 3395 3402
47. J.L. Stevens, G.T. Cantin, G. Wang, A. Shevchenko, and A.J. Berk Transcription control by E1A and MAP kinase pathway via Sur2 mediator subunit Science 296 2002 755 758
48. M.J. Swanson, H. Qiu, L. Sumibcay, A. Krueger, S.J. Kim, K. Natarajan, S. Yoon, and A.G. Hinnebusch A multiplicity of coactivators is required by Gcn4p at individual promoters in vivo Mol. Cell. Biol. 23 2003 2800 2820
49. L. Warfield, J.A. Ranish, and S. Hahn Positive and negative functions of the SAGA complex mediated through interaction of Spt8 with TBP and the N-terminal domain of TFIIA Genes Dev. 18 2004 1022 1034
50. H. Xiao, J.D. Friesen, and J.T. Lis Recruiting TATA-binding protein to a promoter: transcription activation without an upstream activator Mol. Cell. Biol. 15 1995 5757 5761
51. Yudkovsky, N. (2001). Mechanisms of Factor Recruitment at Promoters during RNA Polymerase II Transcription. PhD thesis, University of Washington and Fred Hutchinson Cancer Center, Seattle, Washington.
52. N. Yudkovsky, J.A. Ranish, and S. Hahn A transcription reinitiation intermediate that is stabilized by activator Nature 408 2000 225 229