Gal11p Dosage-compensates Transcriptional Activator Deletions via Taf14p

Journal of Molecular Biology

Volumn 374, Issue 1, 2007, Pages 9-23

  Lim, Mei Kee ^a   Tang, Vivien ^a   Le Saux, Agnès ^a   Schüller, Jutta ^a   Bongards, Christine ^a   Lehming, Norbert ^a  

^a NATIONAL UNIVERSITY OF SINGAPORE   (Singapore)

Author keywords

activation; protein interaction; recruitment; Split Ubiquitin; transcription

Indexed keywords

MUTANT PROTEIN; PROTEIN SUBUNIT; RNA POLYMERASE II; TRANSCRIPTION FACTOR; TRANSCRIPTION FACTOR GAL11; UBIQUITIN; UNCLASSIFIED DRUG;

ARTICLE; GENE EXPRESSION; GENE OVEREXPRESSION; GENE REPRESSION; NONHUMAN; POINT MUTATION; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN ANALYSIS; PROTEIN FUNCTION; PROTEIN INTERACTION; PROTEIN PROTEIN INTERACTION; TRANSCRIPTION INITIATION;

EID: 35348930465     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jmb.2007.09.013     Document Type: Article

References (70)

1. Lee T.I., and Young R.A. Transcription of eukaryotic protein-coding genes. Annu. Rev. Genet. 34 (2000) 77-137
2. Grunstein M. Nucleosomes, regulators of transcription. Trends Genet. 6 (1990) 395-400
3. Boube M., Joulia L., Cribbs D.L., and Bourbon H.M. Evidence for a mediator of RNA polymerase II transcriptional regulation conserved from yeast to man. Cell 110 (2002) 143-151
4. Kornberg R.D. Mediator and the mechanism of transcriptional activation. Trends Biochem. Sci. 30 (2005) 235-239
5. Ptashne M. Regulation of transcription, from lambda to eukaryotes. Trends Biochem. Sci. 30 (2005) 275-279
6. Santangelo G.M. Glucose signaling in Saccharomyces cerevisiae. Microbiol. Mol. Biol. Rev. 70 (2006) 253-282
7. Maniatis T., and Reed R. An extensive network of coupling among gene expression machines. Nature 416 (2002) 499-506
8. Traven A., Jelicic B., and Sopta M. Yeast Gal4, a transcriptional paradigm revisited. EMBO Rep. 7 (2006) 496-499
9. Marmorstein R., Carey M., Ptashne M., and Harrison S. C. DNA recognition by GAL4, structure of a protein-DNA complex. Nature 356 (1992) 408-414
10. Ma J., and Ptashne M. Deletion analysis of GAL4 defines two transcriptional activating segments. Cell 48 (1987) 847-853
11. Reece R.J., and Ptashne M. Determinants of binding-site specificity among yeast C6 zinc cluster proteins. Science 261 (1993) 909-911
12. Thoden J.B., Sellick C.A., Reece R.J., and Holden H.M. Understanding a transcriptional paradigm at the molecular level. The structure of yeast Gal80p. J. Biol. Chem. 282 (2007) 1534-1538
13. Peng G., and Hopper J.E. Evidence for Gal3p's cytoplasmic location and Gal80p's dual cytoplasmic-nuclear location implicates new mechanisms for controlling Gal4p activity in Saccharomyces cerevisiae. Mol. Cell. Biol. 20 (2000) 5140-5148
14. Peng G., and Hopper J.E. Gene activation by interaction of an inhibitor with a cytoplasmic signaling protein. Proc. Natl Acad. Sci. USA 99 (2002) 8548-8553
15. Melcher K., and Johnston S.A. GAL4 interacts with TATA-binding protein and coactivators. Mol. Cell. Biol. 15 (1995) 2839-2848
16. Wu Y., Reece R.J., and Ptashne M. Quantitation of putative activator-target affinities predicts transcriptional activating potentials. EMBO J. 15 (1996) 3951-3963
17. Koh S.S., Ansari A.Z., Ptashne M., and Young R.A. An activator target in the RNA polymerase II holoenzyme. Mol. Cell 1 (1998) 895-904
18. Lee Y.C., Park J.M., Min S., Han S.J., and Kim Y.J. An activator binding module of yeast RNA polymerase II holoenzyme. Mol. Cell. Biol. 19 (1999) 2967-2976
19. Yudkovsky N., Logie C., Hahn S., and Peterson C.L. Recruitment of the SWI/SNF chromatin remodeling complex by transcriptional activators. Genes Dev. 13 (1999) 2369-2374
20. Park J.M., Kim H.S., Han S.J., Hwang M.S., Lee Y.C., and Kim Y.J. In vivo requirement of activator-specific binding targets of mediator. Mol. Cell. Biol. 20 (2000) 8709-8719
21. Brown C.E., Howe L., Sousa K., Alley S.C., Carrozza M.J., Tan S., and Workman J.L. Recruitment of HAT complexes by direct activator interactions with the ATM-related Tra1 subunit. Science 292 (2001) 2333-2337
22. Bhaumik S.R., and Green M.R. SAGA is an essential in vivo target of the yeast acidic activator Gal4p. Genes Dev. 15 (2001) 1935-1945
23. Chang C., Gonzalez F., Rothermel B., Sun L., Johnston S.A., and Kodadek T. The Gal4 activation domain binds Sug2 protein, a proteasome component, in vivo and in vitro. J. Biol. Chem. 276 (2001) 30956-30963
24. Jeong C.-J., Yang S.-H., Xie Y., Zhang L., Johnston S.A., and Kodadek T. Evidence that Gal11 protein is a target of the Gal4 activation domain in the mediator. Biochemistry 40 (2001) 9421-9427
25. Ansari A.Z., Koh S.S., Zaman Z., Bongards C., Lehming N., Young R.A., and Ptashne M. Transcriptional activating regions target a cyclin-dependent kinase. Proc. Natl Acad. Sci. USA 99 (2002) 14706-14709
26. Gonzalez F., Delahodde A., Kodadek T., and Johnston S.A. Recruitment of a 19S proteasome subcomplex to an activated promoter. Science 296 (2002) 548-550
27. Bhaumik S.R., Raha T., Aiello D.P., and Green M.R. In vivo target of a transcriptional activator revealed by fluorescence resonance energy transfer. Genes Dev. 18 (2004) 333-343
28. Bryant G.O., and Ptashne M. Independent recruitment in vivo by Gal4 of two complexes required for transcription. Mol. Cell 11 (2003) 1301-1309
29. Kuras L., Borggrefe T., and Kornberg R.D. Association of the Mediator complex with enhancers of active genes. Proc. Natl Acad. Sci. USA 100 (2003) 13887-13891
30. Larschan E., and Winston F. The Saccharomyces cerevisiae Srb8-Srb11 complex functions with the SAGA complex during Gal4-activated transcription. Mol. Cell. Biol. 25 (2005) 114-123
31. Lemieux K., and Gaudreau L. Targeting of Swi/Snf to the yeast GAL1 UASG requires the Mediator, TAFIIs and RNA polymerase II. EMBO J. 23 (2004) 4040-4050
32. Muratani M., Kung C., Shokat K.M., and Tansey W. P. The F box protein Dsg1/Mdm30 is a transcriptional coactivator that stimulates Gal4 turnover and cotranscriptional mRNA processing. Cell 120 (2005) 887-899
33. Sadowski I., Niedbala D., Wood K., and Ptashne M. GAL4 is phosphorylated as a consequence of transcriptional activation. Proc. Natl Acad. Sci. USA 88 (1991) 10510-10514
34. Hirst M., Kobor M.S., Kuriakose N., Greenblatt J., and Sadowski I. GAL4 is regulated by the RNA polymerase II holoenzyme-associated cyclin-dependent protein kinase SRB10/CDK8. Mol. Cell 3 (1999) 673-678
35. Nalley K., Johnston S.A., and Kodadek T. Proteolytic turnover of the Gal4 transcription factor is not required for function in vivo. Nature 442 (2006) 1054-1057
36. Hinnebusch A.G., and Natarajan K. Gcn4p, a master regulator of gene expression, is controlled at multiple levels by diverse signals of starvation and stress. Eukaryot. Cell 1 (2002) 22-32
37. Ellenberger T.E., Brandl C.J., Struhl K., and Harrison S.C. The GCN4 basic region leucine zipper binds DNA as a dimer of uninterrupted alpha helices, crystal structure of the protein-DNA complex. Cell 71 (1992) 1223-1237
38. Hope I.A., Mahadevan S., and Struhl K. Structural and functional characterization of the short acidic transcriptional activation region of yeast GCN4 protein. Nature 333 (1988) 635-640
39. Jackson B.M., Drysdale C.M., Natarajan K., and Hinnebusch A.G. Identification of seven hydrophobic clusters in GCN4 making redundant contributions to transcriptional activation. Mol. Cell. Biol. 16 (1996) 5557-5571
40. Drysdale C.M., Jackson B.M., McVeigh R., Klebanow E.R., Bai Y., Kokubo T., et al. 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
41. Utley R.T., Ikeda K., Grant P.A., Cote J., Steger D.J., Eberharter A., et al. Transcriptional activators direct histone acetyltransferase complexes to nucleosomes. Nature 394 (1998) 498-502
42. Natarajan K., Jackson B.M., Zhou H., Winston F., and Hinnebusch A.G. Transcriptional activation by Gcn4p involves independent interactions with the SWI/SNF complex and the SRB/mediator. Mol. Cell 4 (1999) 657-664
43. Neely K.E., Hassan A.H., Brown C.E., Howe L., and Workman J.L. Transcription activator interactions with multiple SWI/SNF subunits. Mol. Cell. Biol. 22 (2002) 1615-1625
44. Swanson M.J., Qiu H., Sumibcay L., Krueger A., Kim S.J., Natarajan K., et al. A multiplicity of coactivators is required by Gcn4p at individual promoters in vivo. Mol. Cell. Biol. 23 (2003) 2800-2820
45. Kornitzer D., Raboy B., Kulka R.G., and Fink G.R. Regulated degradation of the transcription factor Gcn4. EMBO J. 13 (1994) 6021-6023
46. Meimoun A., Holtzman T., Weissman Z., McBride H.J., Stillman D.J., Fink G.R., and Kornitzer D. Degradation of the transcription factor Gcn4 requires the kinase Pho85 and the SCF(CDC4) ubiquitin-ligase complex. Mol. Biol. Cell 11 (2000) 915-927
47. Barberis A., Pearlberg J., Simkovich N., Farrell S., Reinagel P., Bamdad C., et al. Contact with a component of the polymerase II holoenzyme suffices for gene activation. Cell 81 (1995) 359-368
48. Keaveney M., and Struhl K. Activator-mediated recruitment of the RNA polymerase II machinery is the predominant mechanism for transcriptional activation in yeast. Mol. Cell 1 (1998) 917-924
49. Kabani M., Michot K., Boschiero C., and Werner M. Anc1 interacts with the catalytic subunits of the general transcription factors TFIID and TFIIF, the chromatin remodeling complexes RSC and INO80, and the histone acetyltransferase complex NuA3. Biochem. Biophys. Res. Commun. 332 (2005) 398-403
50. Lehming N. Analysis of protein-protein proximities using the split-ubiquitin system. Brief. Funct. Genomic Proteomic. 1 (2002) 230-238
51. Reichel C., and Johnsson N. The Split-Ubiquitin sensor: measuring interactions and conformational alterations of proteins In vivo. Methods Enzymol. 399 (2005) 757-776
52. Nehlin J.O., Carlberg M., and Ronne H. Control of yeast GAL genes by MIG1 repressor: a transcriptional cascade in the glucose response. EMBO J. 10 (1991) 3373-3377
53. Lutfiyya L.L., and Johnston M. Two zinc-finger-containing repressors are responsible for glucose repression of SUC2 expression. Mol. Cell. Biol. 16 (1996) 4790-4797
54. Wu J., and Trumbly R.J. Multiple regulatory proteins mediate repression and activation by interaction with the yeast Mig1 binding site. Yeast 14 (1998) 985-1000
55. Morrow B.E., Ju Q., and Warner J.R. Purification and characterization of the yeast rDNA binding protein REB1. J. Biol. Chem. 265 (1990) 20778-20783
56. Buchman A.R., Kimmerly W.J., Rine J., and Kornberg R.D. Two DNA-binding factors recognize specific sequences at silencers, upstream activating sequences, autonomously replicating sequences, and telomeres in Saccharomyces cerevisiae. Mol. Cell. Biol. 8 (1988) 210-225
57. Lutfiyya L.L., Iyer V.R., DeRisi J., DeVit M.J., Brown P.O., and Johnston M. Characterization of three related glucose repressors and genes they regulate in Saccharomyces cerevisiae. Genetics 150 (1998) 1377-1391
58. Treitel M.A., and Carlson M. Repression by SSN6-TUP1 is directed by MIG1, a repressor/activator protein. Proc. Natl Acad. Sci. USA 92 (1995) 3132-3136
59. Keleher C.A., Redd M.J., Schultz J., Carlson M., and Johnson A.D. Ssn6-Tup1 is a general repressor of transcription in yeast. Cell 68 (1992) 709-719
60. Tzamarias D., and Struhl K. Distinct TPR motifs of Cyc8 are involved in recruiting the Cyc8-Tup1 corepressor complex to differentially regulated promoters. Genes Dev. 9 (1995) 821-831
61. Papamichos-Chronakis M., Conlan R.S., Gounalaki N., Copf T., and Tzamarias D. Hrs1/Med3 is a Cyc8-Tup1 corepressor target in the RNA polymerase II holoenzyme. J. Biol. Chem. 275 (2000) 8397-8403
62. Gromöller A., and Lehming N. Srb7p is a physical and physiological target of Tup1p. EMBO J. 19 (2000) 6845-6852
63. De Vit M.J., Waddle J.A., and Johnston M. Regulated nuclear translocation of the Mig1 glucose repressor. Mol. Biol. Cell 8 (1997) 1603-1618
64. 2+-dependent flocculation by Flo8p and Mss11p. Curr. Genet. 49 (2006) 375-383
65. Sarma N.J., Haley T.M., Barbara K.E., Buford T.D., Willis K.A., and Santangelo G.M. Glucose-responsive regulators of gene expression in Saccharomyces cerevisiae function at the nuclear periphery via a reverse recruitment mechanism. Genetics 175 (2007) 1127-1135
66. Alani E., Cao L., and Kleckner N. A method for gene disruption that allows repeated use of URA3 selection in the construction of multiply disrupted yeast strains. Genetics 116 (1987) 541-545
67. Sikorski R.S., and Hieter P. A system of shuttle vectors and yeast host strains designed for efficient manipulation of DNA in Saccharomyces cerevisiae. Genetics 122 (1989) 19-27
68. Dohmen R.J., Stappen R., McGrath J.P., Forrova H., Kolarov J., Goffeau A., and Varshavsky A. An essential yeast gene encoding a homolog of ubiquitin-activating enzyme. J. Biol. Chem. 270 (1995) 18099-18109
69. Chew B.S., and Lehming N. TFIIB/SUA7(E202G) is an allele-specific suppressor of TBP1(E186D). Biochem. J. 406 (2007) 265-271
70. Laser H., Bongards C., Schüller J., Heck S., Johnsson N., and Lehming N. A new screen for protein interactions reveals that the Saccharomyces cerevisiae high mobility group proteins Nhp6A/B are involved in the regulation of the GAL1 promoter. Proc. Natl Acad. Sci. USA 97 (2000) 13732-13737