Positive and negative functions of the SAGA complex mediated through interaction of Spt8 with TBP and the N-terminal domain of TFIIA

Genes and Development

Volumn 18, Issue 9, 2004, Pages 1022-1034

  Warfield, Linda ^a   Ranish, Jeffrey A ^b   Hahn, Steven ^a  

^a HOWARD HUGHES MEDICAL INSTITUTE   (United States)

^b INSTITUTE FOR SYSTEMS BIOLOGY   (United States)

Author keywords

Coactivator; Repression; SAGA; TFIIA; Transcription

Indexed keywords

PROTEIN; PROTEIN SPT8; PROTEIN SUBUNIT; RNA POLYMERASE II; TRANSCRIPTION FACTOR IIA; TRANSCRIPTION FACTOR SAGA; TRANSCRIPTION FACTOR TAF4; TRANSFERRIN BINDING PROTEIN; UNCLASSIFIED DRUG;

AMINO TERMINAL SEQUENCE; ARTICLE; GENETIC TRANSCRIPTION; NONHUMAN; PRIORITY JOURNAL; PROTEIN DEGRADATION; PROTEIN DOMAIN; PROTEIN PROTEIN INTERACTION;

AMINO ACID SEQUENCE; BINDING, COMPETITIVE; CROSS-LINKING REAGENTS; HYDROXYL RADICAL; MODELS, BIOLOGICAL; MOLECULAR SEQUENCE DATA; MUTAGENESIS; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; SEQUENCE HOMOLOGY, AMINO ACID; TATA-BOX BINDING PROTEIN; TRANSCRIPTION FACTOR TFIIA; TRANSCRIPTION FACTORS;

EID: 2442630488     PISSN: 08909369     EISSN: None     Source Type: Journal    
DOI: 10.1101/gad.1192204     Document Type: Article

References (54)

1. Agalioti, T., Lomvardas, S., Parekh, B., Yie, J., Maniatis, T., and Thanos, D. 2000. Ordered recruitment of chromatin modifying and general transcription factors to the IFN-beta promoter. Cell 103: 667-678.
2. Auble, D.T., Hansen, K.E., Mueller, C.G.F., Lane, W.S., Thorner, J., and Hahn, S. 1994. Mot1, a global repressor of RNA polymerase II transcription, inhibits TBP binding to DNA by an ATP-dependent mechanism. Genes & Dev. 8: 1920-1934.
3. Belotserkovskaya, R., Sterner, D.E., Deng, M., Sayre, M.H., Lieberman, P.M., and Berger, S.L. 2000. Inhibition of TATA-binding protein function by SAGA subunits Spt3 and Spt8 at Gcn4-activated promoters. Mol. Cell. Biol. 20: 634-647.
4. Bhaumik, S.R. and Green, M.R. 2001. SAGA is an essential in vivo target of the yeast acidic activator Ga14p. Genes & Dev. 15: 1935-1945.
5. -. 2002. Differential requirement of SAGA components for recruitment of TATA-box-binding protein to promoters in vivo. Mol. Cell. Biol. 22: 7365-7371.
6. Brachmann, C.B., Davies, A., Cost, G.J., Caputo, E., Li, J., Hieter, P., and Boeke, J.D. 1998. Designer deletion strains derived from Saccharomyces cerevisiae S288C: A useful set of strains and plasmids for PCR-mediated gene disruption and other applications. Yeast 14: 115-132.
7. Cang, Y., Auble, D.T., and Prelich, G. 1999. A new regulatory domain on the TATA-binding protein. EMBO J 18: 6662-6671.
8. Chen, H.T. and Hahn, S. 2003. Binding of TFIIB to RNA polymerase II: Mapping the binding site for the TFIIB zinc ribbon domain within the preinitiation complex. Mol. Cell 12: 437-447.
9. Chen, Y., Ebright, Y.W., and Ebright, R.H. 1994. Identification of the target of a transcription activator protein by protein-protein photocrosslinking. Science 265: 90-92.
10. Cheng, J.X., Floer, M., Ononaji, P., Bryant, G., and Ptashne, M. 2002. Responses of four yeast genes to changes in the transcriptional machinery are determined by their promoters. Curr. Biol. 12: 1828-1832.
11. Chi, T., Lieberman, P., Ellwood, K., and Carey, M. 1995. A general mechanism for transcriptional synergy by eukaryotic activators. Nature 377: 254-257.
12. Cismowski, M.J., Laff, G.M., Solomon, M.J., and Reed, S.I. 1995. KIN28 encodes a C-terminal domain kinase that controls mRNA transcription in S. cerevisiae but lacks cyclin-dependent kinase-activating kinase (CAK) activity. Mol. Cell. Biol. 15: 2983-2992.
13. Cosma, M.P. 2002. Ordered recruitment: Gene-specific mechanism of transcription activation. Mol. Cell 10: 227-236.
14. Datwyler, S.A. and Meares, C.F. 2000. Protein-protein interactions mapped by artificial proteases: Where σ factors bind to RNA polymerase. Trends Biochem. Sci. 25: 408-414.
15. Dudley, A.M., Rougeulle, C., and Winston, F. 1999. The Spt components of SAGA facilitate TBP binding to a promoter at a post-activator-binding step in vivo. Genes & Dev. 13: 2940-2945.
16. Eisenmann, D.M., Arndt, K.M., Ricupero, S.L., Rooney, J.W., and Winston, F. 1992. SPT3 interacts with TFIID to allow normal transcription in S. cerevisiae. Genes & Dev. 6: 1319-1331.
17. Eisenmann, D.M., Chapon, C., Roberts, S.M., Dollard, C., and Winston, F. 1994. The Saccharomyces cerevisiae SPT8 gene encodes a very acidic protein that is functionally related to SPT3 and TATA-binding protein. Genetics 137: 647-657.
18. Geiger, J.H., Hahn, S., Lee, S., and Sigler, P.B. 1996. Crystal structure of the yeast TFIIA/TBP/DNA complex. Science 272: 830-836.
19. Grant, P.A., Schieltz, D., Pray-Grant, M.G., Steger, D.J., Reese, J.C., Yates III, I.R., and Workman, J.L. 1998. A subset of Taf(II)s are integral components of the SAGA complex required for nucleosome acetylation and transcriptional stimulation. Cell 94: 45-53.
20. Hampsey, M. 1998. Molecular genetics of the RNA polymerase II general transcriptional machinery. Microbiol. Mol. Biol. Rev. 62: 465-503.
21. Kang, J.J., Auble, D.T., Ranish, J.A., and Hahn, S. 1995. Analysis of the yeast transcription factor TFIIA: Distinct functional regions and a polymerase II-specific role in basal and activated transcription. Mol. Cell. Biol. 15: 1234-1243.
22. Kobayashi, N., Horn, P.J., Sullivan, S.M., Triezenberg, S.J., Boyer, T.G., and Berk, A.J. 1998. DA-complex assembly activity required for VP16C transcriptional activation. Mol. Cell. Biol. 18: 4023-4031.
23. Kokubo, T., Swanson, M.J., Nishikawa, J.I., Hinnebusch, A.G., and Nakatani, Y. 1998. The yeast Taf145 inhibitory domain and TFIIA competitively bind to TATA-binding protein. Mol. Cell. Biol. 18: 1003-1012.
24. Kraemer, S.M., Ranallo, R.T., Ogg, R.C., and Stargell, L.A. 2001. TFIIA interacts with TFIID via association with TATA-binding protein and Taf40. Mol. Cell. Biol. 21: 1737-1746.
25. Kuras, L. and Struhl, K. 1999. Binding of TBP to promoters in vivo is stimulated by activators and requires Pol II holoenzyme. Nature 399: 609-613.
26. Larschan, E. and Winston, F. 2001. The S. cerevisiae SAGA complex functions in vivo as a coactivator for transcriptional activation by Ga14. Genes & Dev. 15: 1946-1956.
27. Lee, T.I., Causton, H.C., Holstege, F.C., Shen, W.C., Hannett, N., Jennings, E.G., Winston, F., Green, M.R., and Young, R.A. 2000. Redundant roles for the TFIID and SAGA complexes in global transcription. Nature 405: 701-704.
28. Li, X.Y., Virbasius, A., Zhu, X., and Green, M.R. 1999. Enhancement of TBP binding by activators and general transcription factors. Nature 399: 605-609.
29. Lieberman, P.M. and Berk, A.J. 1994. A mechanism for Tafs in transcriptional activation: Activation domain enhancement of TFIID-TFIIA-promoter DNA complex formation. Genes & Dev. 9: 995-1006.
30. Liu, Q., Gabriel, S.E., Roinick, K.L., Ward, R.D., and Arndt, K.M. 1999. Analysis of TFIIA function in vivo: Evidence for a role in TATA-binding protein recruitment and gene-specific activation. Mol. Cell. Biol. 19: 8673-8685.
31. Liu, Y., Kung, C., Fishburn, J., Ansari, A.Z., Shokat, K.M., and Hahn, S. 2004. Two cyclin-dependent kinases promote RNA polymerase II transcription and formation of the Scaffold Complex. Mol. Cell. Biol. 24: 1721-1735.
32. Madison, J.M. and Winston, F. 1997. Evidence that Spt3 functionally interacts with Motl, TFIIA, and TBP to confer promoter-specific transcriptional control in S. cerevisiae. Mol. Cell. Biol. 17: 287-295.
33. Mencia, M., Moqtaderi, Z., Geisberg, J.V., Kuras, L., and Struhl, K. 2002. Activator-specific recruitment of TFIID and regulation of ribosomal protein genes in yeast. Mol. Cell 9: 823-833.
34. Orphanides, G., Lagrange, T., and Reinberg, D. 1996. The general transcription factors of RNA polymerase II. Genes & Dev. 10: 2657-2683.
35. Ozer, J., Moore, P.A., Bolden, A.H., Lee, A., Rosen, C.A., and Lieberman, P.M. 1994. Molecular cloning of the small (g) subunit of human TFIIA reveals functions critical for activated transcription. Genes & Dev. 8: 2324-2335.
36. Ozer, J., Lezina, L.E., Ewing, J., Audi, S., and Lieberman, P.M. 1998a. Association of transcription factor IIA with TBP is required for transcriptional activation of a subset of promoters and cell cycle progression in S. cerevisiae. Mol. Cell. Biol. 18: 2559-2570.
37. Ozer, J., Mitsouras, K., Zerby, D., Carey, M., and Lieberman, P.M. 1998b. Transcription factor IIA derepresses TATA-binding protein (TBP)-associated factor inhibition of TBP-DNA binding. J. Biol. Chem. 273: 14293-14300.
38. Pereira, L.A., Klejman, M.P., and Timmers, H.T. 2003. Roles for BTaf1 and Mot1p in dynamics of TATA-binding protein and regulation of RNA polymerase II transcription. Gene 315: 1-13.
39. Pray-Grant, M.G., Schieltz, D., McMahon, S.J., Wood, J.M., Kennedy, E.L., Cook, R.G., Workman, J.L., Yates III, J.L., and Grant, P.A. 2002., The novel SLIK histone acetyltransferase complex functions in the yeast retrograde response pathway. Mol. Cell. Biol. 22: 8774-8786.
40. Ranish, J.A., Yudkovsky, N., and Hahn, S. 1999. 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: 49-63.
41. Reddy, P. and Hahn, S. 1991. Dominant negative mutations in yeast TFIID define a bipartite DNA-binding region. Cell 65: 349-357.
42. Saleh, A., Lang, V., Cook, R., and Brandl, C.J. 1997. Identification of native complexes containing the yeast coactivator/ repressor proteins NGG1/ADA3 and ADA2. J. Biol. Chem. 272: 5571-5578.
43. Sanders, S.L., Jennings, J., Canutescu, A., Link, A.J., and Weil, P.A. 2002. Proteomics of the eukaryotic transcription machinery: Identification of proteins associated with components of yeast TFIID by multidimensional mass spectrometry. Mol. Cell. Biol. 22: 4723-4738.
44. Shen, W.-C. and Green, M.R. 1997. Yeast TafII145 functions as a core promoter selectivity factor, not a general coactivator. Cell 90: 615-624.
45. Stargell, L.A., Moqtaderi, Z., Dorris, D.R., Ogg, R.C., and Struhl, K. 2000. TFIIA has activator-dependent and core promoter functions in vivo. J. Biol. Chem. 275: 12374-12380.
46. Sterner, D.E., Grant, P.A., Roberts, S.M., Duggan, L.J., Belotserkovskaya, R., Pacella, L.A., Winston, F., Workman, J.L., and Berger, S.L. 1999. 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.
47. Sterner, D.E., Belotserkovskaya, R., and Berger, S.L. 2002. SALSA, a variant of yeast SAGA, contains truncated Spt7, which correlates with activated transcription. Proc. Natl. Acad. Sci. 99: 11622-11627.
48. Tan, S., Hunziker, Y., Sargent, D.F., and Richmond, T.J. 1996. Crystal structure of a yeast TFIIA/TBP/DNA complex. Nature 381: 127-134.
49. Wang, W., Gralla, J.D., and Carey, M. 1992. The acidic activator GAL4-AH can stimulate polymerase II transcription by promoting assembly of a closed complex requiring TFIID and TFIIA. Genes & Dev. 6: 1716-1727.
50. Weideman, C.A., Netter, R.C., Benjamin, L.R., McAllister, J.J., Schmiedekamp, L.A., Coleman, R.A., and Pugh, B.F. 1997. Dynamic interplay of TFIIA, TBP, and TATA DNA. J. Mol. Biol. 271: 61-75.
51. Wu, P.Y. and Winston, F. 2002. Analysis of Spt7 function in the Saccharomyces cerevisiae SAGA coactivator complex. Mol. Cell. Biol. 22: 5367-5379.
52. Yokomori, K., Admon, A., Goodrich, J.A., Chen, J.L., and Tjian, R. 1993. Drosophila TFIIA-L is processed into two subunits that are associated with the TBP/Taf complex. Genes & Dev. 7: 2235-2245.
53. Yudkovsky, N. 2001. "Mechanisms of factor recruitment at promoters during RNA polymerase II transcription." Ph.D. thesis, University of Washington and Fred Hutchinson Cancer Center, Seattle.
54. Yudkovsky, N., Ranish, J.A., and Hahn, S. 2000. A transcription reinitiation intermediate that is stabilized by activator. Nature 408: 225-229.