Functional characterization of core promoter elements: DPE-specific transcription requires the protein kinase CK2 and the PC4 coactivator

Molecular Cell

Volumn 18, Issue 4, 2005, Pages 471-481

  Lewis, Brian A ^a   Sims III, Robert J ^a   Lane, William S ^c   Reinberg, Danny ^a,b  

^a UNIVERSITY OF MEDICINE AND DENTISTRY OF NEW JERSEY   (United States)

^b HOWARD HUGHES MEDICAL INSTITUTE   (United States)

^c HARVARD UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CASEIN KINASE II; INTERFERON REGULATORY FACTOR 1; PC4 COACTIVATOR PROTEIN; PROTEIN; UNCLASSIFIED DRUG;

ARTICLE; CHROMATIN; ENZYME ACTIVITY; IMMUNOPRECIPITATION; PROTEIN EXPRESSION; TRANSCRIPTION REGULATION;

CASEIN KINASE II; CELL NUCLEUS; DNA-BINDING PROTEINS; GENE EXPRESSION REGULATION; HUMANS; IMMEDIATE-EARLY PROTEINS; INTERFERON REGULATORY FACTOR-1; MEMBRANE PROTEINS; PHOSPHOPROTEINS; PROMOTER REGIONS (GENETICS); REPRESSOR PROTEINS; TATA-BINDING PROTEIN ASSOCIATED FACTORS; TRANS-ACTIVATORS; TRANSCRIPTION FACTOR TFIID; TRANSCRIPTION, GENETIC;

EID: 18944366286     PISSN: 10972765     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.molcel.2005.04.005     Document Type: Article

References (70)

1. S. Akoulitchev, S. Chuikov, and D. Reinberg TFIIH is negatively regulated by cdk8-containing mediator complexes Nature 407 2000 102 106
2. R. Auty, H. Steen, L.C. Myers, J. Persinger, B. Bartholomew, S.P. Gygi, and S. Buratowski Purification of active TFIID from Saccharomyces cerevisiae. Extensive promoter contacts and co-activator function J. Biol. Chem. 279 2004 49973 49981
3. M. Boyer-Guittaut, K. Birsoy, C. Potel, G. Elliott, E. Jaffray, J.M. Desterro, R.T. Hay, and T. Oelgeschlager Sumo-1 modification of human TFIID complex subunits: Inhibition of TFIID promoter binding activity through sumo-1 modification of hsTAF5 J. Biol. Chem. 280 2005 9937 9945
4. T.W. Burke, and J.T. Kadonaga Drosophila TFIID binds to a conserved downstream basal promoter element that is present in many TATA-box-deficient promoters Genes Dev. 10 1996 711 724
5. T.W. Burke, and J.T. Kadonaga The downstream core promoter element, DPE, is conserved from Drosophila to humans and is recognized by TAFII 60 of Drosophila Genes Dev. 11 1997 3020 3031
6. J.E. Butler, and J.T. Kadonaga Enhancer-promoter specificity mediated by DPE or TATA core promoter motifs Genes Dev. 15 2001 2515 2519
7. O. Calvo, and J.L. Manley Evolutionarily conserved interaction between CstF-64 and PC4 links transcription, polyadenylation, and termination Mol. Cell 7 2001 1013 1023
8. E. Castano, P. Gross, Z. Wang, R.G. Roeder, and T. Oelgeschlager The C-terminal domain-phosphorylated IIO form of RNA polymerase II is associated with the transcription repressor NC2 (Dr1/DRAP1) and is required for transcription activation in human nuclear extracts Proc. Natl. Acad. Sci. USA 97 2000 7184 7189
9. G.E. Chalkley, and C.P. Verrijzer DNA binding site selection by RNA polymerase II TAFs: a TAF(II)250-TAF(II)150 complex recognizes the initiator EMBO J. 18 1999 4835 4845
10. J.D. Dignam, R.M. Lebovitz, and R.G. Roeder Accurate transcription initiation by RNA polymerase II in a soluble extract from isolated mammalian nuclei Nucleic Acids Res. 11 1983 1475 1489
11. R. Dikstein, S. Zhou, and R. Tjian Human TAFII 105 is a cell type-specific TFIID subunit related to hTAFII130 Cell 87 1996 137 146
12. O. Filhol, A. Nueda, V. Martel, D. Gerber-Scokaert, M.J. Benitez, C. Souchier, Y. Saoudi, and C. Cochet Live-cell fluorescence imaging reveals the dynamics of protein kinase CK2 individual subunits Mol. Cell. Biol. 23 2003 975 987
13. R.N. Freiman, S.R. Albright, S. Zheng, W.C. Sha, R.E. Hammer, and R. Tjian Requirement of tissue-selective TBP-associated factor TAFII105 in ovarian development Science 293 2001 2084 2087
14. H. Ge, and R.G. Roeder Purification, cloning, and characterization of a human coactivator, PC4, that mediates transcriptional activation of class II genes Cell 78 1994 513 523
15. H. Ge, Y. Zhao, B.T. Chait, and R.G. Roeder Phosphorylation negatively regulates the function of coactivator PC4 Proc. Natl. Acad. Sci. USA 91 1994 12691 12695
16. A. Ghavidel, D.J. Hockman, and M.C. Schultz A review of progress towards elucidating the role of protein kinase CK2 in polymerase III transcription: regulation of the TATA binding protein Mol. Cell. Biochem. 191 1999 143 148
17. A. Ghavidel, and M.C. Schultz Casein kinase II regulation of yeast TFIIIB is mediated by the TATA-binding protein Genes Dev. 11 1997 2780 2789
18. A. Ghavidel, and M.C. Schultz TATA binding protein-associated CK2 transduces DNA damage signals to the RNA polymerase III transcriptional machinery Cell 106 2001 575 584
19. C.A. Gross, C. Chan, A. Dombroski, T. Gruber, M. Sharp, J. Tupy, and B. Young The functional and regulatory roles of sigma factors in transcription Cold Spring Harb. Symp. Quant. Biol. 63 1998 141 155
20. T.M. Gruber, and C.A. Gross Multiple sigma subunits and the partitioning of bacterial transcription space Annu. Rev. Microbiol. 57 2003 441 466
21. E. Harlow, and D. Lane Using Antibodies: A Laboratory Manual 1999 Cold Spring Harbor Laboratory Press Cold Spring Harbor, NY
22. M.A. Hiller, T.Y. Lin, C. Wood, and M.T. Fuller Developmental regulation of transcription by a tissue-specific TAF homolog Genes Dev. 15 2001 1021 1030
23. T.L. Hilton, and E.H. Wang Transcription factor IID recruitment and Sp1 activation. Dual function of TAF1 in cyclin D1 transcription J. Biol. Chem. 278 2003 12992 13002
24. A. Hochheimer, and R. Tjian Diversified transcription initiation complexes expand promoter selectivity and tissue-specific gene expression Genes Dev. 17 2003 1309 1320
25. D.J. Hockman, and M.C. Schultz Casein kinase II is required for efficient transcription by RNA polymerase III Mol. Cell. Biol. 16 1996 892 898
26. P. Hu, S. Wu, and N. Hernandez A minimal RNA polymerase III transcription system from human cells reveals positive and negative regulatory roles for CK2 Mol. Cell 12 2003 699 709
27. J.A. Inostroza, F.H. Mermelstein, I. Ha, W.S. Lane, and D. Reinberg Dr1, a TATA-binding protein-associated phosphoprotein and inhibitor of class II gene transcription Cell 70 1992 477 489
28. I.M. Johnston, S.J. Allison, J.P. Morton, L. Schramm, P.H. Scott, and R.J. White CK2 forms a stable complex with TFIIIB and activates RNA polymerase III transcription in human cells Mol. Cell. Biol. 22 2002 3757 3768
29. K. Kaiser, G. Stelzer, and M. Meisterernst The coactivator p15 (PC4) initiates transcriptional activation during TFIIA-TFIID-promoter complex formation EMBO J. 14 1995 3520 3527
30. J. Kaufmann, and S.T. Smale Direct recognition of initiator elements by a component of the transcription factor IID complex Genes Dev. 8 1994 821 829
31. J. Kaufmann, C.P. Verrijzer, J. Shao, and S.T. Smale CIF, an essential cofactor for TFIID-dependent initiator function Genes Dev. 10 1996 873 886
32. A. Kouskouti, E. Scheer, A. Staub, L. Tora, and I. Talianidis Gene-specific modulation of TAF10 function by SET9-mediated methylation Mol. Cell 14 2004 175 182
33. W. Krek, G. Maridor, and E.A. Nigg Casein kinase II is a predominantly nuclear enzyme J. Cell Biol. 116 1992 43 55
34. M. Kretzschmar, K. Kaiser, F. Lottspeich, and M. Meisterernst A novel mediator of class II gene transcription with homology to viral immediate-early transcriptional regulators Cell 78 1994 525 534
35. T. Lagrange, A.N. Kapanidis, H. Tang, D. Reinberg, and R.H. Ebright New core promoter element in RNA polymerase II-dependent transcription: sequence-specific DNA binding by transcription factor IIB Genes Dev. 12 1998 34 44
36. B.A. Lewis, T.K. Kim, and S.H. Orkin A downstream element in the human beta-globin promoter: evidence of extended sequence-specific transcription factor IID contacts Proc. Natl. Acad. Sci. USA 97 2000 7172 7177
37. B.A. Lewis, and S.H. Orkin A functional initiator element in the human beta-globin promoter J. Biol. Chem. 270 1995 28139 28144
38. X.Y. Li, S.R. Bhaumik, X. Zhu, L. Li, W.C. Shen, B.L. Dixit, and M.R. Green Selective recruitment of TAFs by yeast upstream activating sequences. Implications for eukaryotic promoter structure Curr. Biol. 12 2002 1240 1244
39. C.Y. Lim, B. Santoso, T. Boulay, E. Dong, U. Ohler, and J.T. Kadonaga The MTE, a new core promoter element for transcription by RNA polymerase II Genes Dev. 18 2004 1606 1617
40. Y. Luo, H. Fujii, T. Gerster, and R.G. Roeder A novel B cell-derived coactivator potentiates the activation of immunoglobulin promoters by octamer-binding transcription factors Cell 71 1992 231 241
41. Y. Luo, H. Ge, S. Stevens, H. Xiao, and R.G. Roeder Coactivation by OCA-B: definition of critical regions and synergism with general cofactors Mol. Cell. Biol. 18 1998 3803 3810
42. Y. Luo, and R.G. Roeder Cloning, functional characterization, and mechanism of action of the B-cell-specific transcriptional coactivator OCA-B Mol. Cell. Biol. 15 1995 4115 4124
43. E. Maldonado, R. Drapkin, and D. Reinberg Purification of human RNA polymerase II and general transcription factors Methods Enzymol. 274 1996 72 100
44. E. Martinez, H. Ge, Y. Tao, C.-X. Yuan, V. Palhan, and R.G. Roeder Novel cofactors and TFIIA mediate functional core promoter selectivity by the human TAFII150-containing TFIID complex Mol. Cell. Biol. 18 1998 6571 6583
45. F. Mermelstein, K. Yeung, J. Cao, J.A. Inostroza, H. Erdjument-Bromage, K. Eagelson, D. Landsman, P. Levitt, P. Tempst, and D. Reinberg Requirement of a corepressor for Dr1-mediated repression of transcription Genes Dev. 10 1996 1033 1048
46. T. O'Brien, and R. Tjian Different functional domains of TAFII250 modulate expression of distinct subsets of mammalian genes Proc. Natl. Acad. Sci. USA 97 2000 2456 2461
47. S. Ohtsuki, M. Levine, and H.N. Cai Different core promoters possess distinct regulatory activities in the Drosophila embryo Genes Dev. 12 1998 547 556
48. G. Orphanides, T. Lagrange, and D. Reinberg The general transcription factors of RNA polymerase II Genes Dev. 10 1996 2657 2683
49. C.G. Penner, Z. Wang, and D.W. Litchfield Expression and localization of epitope-tagged protein kinase CK2 J. Cell. Biochem. 64 1997 525 537
50. L.A. Pinna Protein kinase CK2: a challenge to canons J. Cell Sci. 115 2002 3873 3878
51. S. Ryu, and R. Tjian Purification of transcription cofactor complex CRSP Proc. Natl. Acad. Sci. USA 96 1999 7137 7142
52. S. Ryu, S. Zhou, A.G. Ladurner, and R. Tjian The transcriptional cofactor complex CRSP is required for activity of the enhancer-binding protein Sp1 Nature 397 1999 446 450
53. C. Sawa, E. Nedea, N. Krogan, T. Wada, H. Handa, J. Greenblatt, and S. Buratowski Bromodomain factor 1 (Bdf1) is phosphorylated by protein kinase CK2 Mol. Cell. Biol. 24 2004 4734 4742
54. T. Sekiguchi, Y. Nohiro, Y. Nakamura, N. Hisamoto, and T. Nishimoto The human CCG1 gene, essential for progression of the G1 phase, encodes a 210-kilodalton nuclear DNA-binding protein Mol. Cell. Biol. 11 1991 3317 3325
55. W.-C. Shen, and M.R. Green Yeast TAFII145 Functions as a Core Promoter Selectivity Factor, Not a General Coactivator Cell 90 1997 615 624
56. S.H. Sims, Y. Cha, M.F. Romine, P.Q. Gao, K. Gottlieb, and A.B. Deisseroth A novel interferon-inducible domain: structural and functional analysis of the human interferon regulatory factor 1 gene promoter Mol. Cell. Biol. 13 1993 690 702
57. S.T. Smale, and D. Baltimore The "initiator" as a transcription control element Cell 57 1989 103 113
58. S.T. Smale, and J.T. Kadonaga The RNA polymerase II core promoter Annu. Rev. Biochem. 72 2003 449 479
59. V.A. Spencer, J.M. Sun, L. Li, and J.R. Davie Chromatin immunoprecipitation: a tool for studying histone acetylation and transcription factor binding Methods 31 2003 67 75
60. C. Stemmer, A. Schwander, G. Bauw, P. Fojan, and K.D. Grasser Protein kinase CK2 differentially phosphorylates maize chromosomal high mobility group B (HMGB) proteins modulating their stability and DNA interactions J. Biol. Chem. 277 2002 1092 1098
61. Y. Suzuki-Yagawa, M. Guermah, and R.G. Roeder The ts13 mutation in the TAF(II)250 subunit (CCG1) of TFIID directly affects transcription of D-type cyclin genes in cells arrested in G1 at the nonpermissive temperature Mol. Cell. Biol. 17 1997 3284 3294
62. C.P. Verrijzer, J.L. Chen, K. Yokomori, and R. Tjian Binding of TAFs to core elements directs promoter selectivity by RNA polymerase II Cell 81 1995 1115 1125
63. C.P. Verrijzer, K. Yokomori, J.L. Chen, and R. Tjian Drosophila TAFII150: similarity to yeast gene TSM-1 and specific binding to core promoter DNA Science 264 1994 933 941
64. E.H. Wang, and R. Tjian Promoter-selective transcriptional defect in cell cycle mutant ts13 rescued by hTAFII250 Science 263 1994 811 814
65. E.H. Wang, S. Zou, and R. Tjian TAFII250-dependent transcription of cyclin A is directed by ATF activator proteins Genes Dev. 11 1997 2658 2669
66. P.J. Willy, R. Kobayashi, and J.T. Kadonaga A Basal Transcription Factor That Activates or Represses Transcription Science 290 2000 982 984
67. J.R. Wisniewski, Z. Szewczuk, I. Petry, R. Schwanbeck, and U. Renner Constitutive phosphorylation of the acidic tails of the high mobility group 1 proteins by casein kinase II alters their conformation, stability, and DNA binding specificity J. Biol. Chem. 274 1999 20116 20122
68. L. Zheng, R.G. Roeder, and Y. Luo S phase activation of the histone H2B promoter by OCA-S, a coactivator complex that contains GAPDH as a key component Cell 114 2003 255 266
69. T. Zhou, and C.M. Chiang The intronless and TATA-less human TAF(II)55 gene contains a functional initiator and a downstream promoter element J. Biol. Chem. 276 2001 25503 25511
70. T. Zhou, and C.M. Chiang Sp1 and AP2 regulate but do not constitute TATA-less human TAF(II)55 core promoter activity Nucleic Acids Res. 30 2002 4145 4157