Alternative outcomes in assembly of promoter complexes: The roles of TBP and a flexible linker in placing TFIIIB on tRNA genes

Genes and Development

Volumn 10, Issue 6, 1996, Pages 725-739

  Joazeiro, Cláudio A P ^a,b   Kassavetis, George A ^a   Geiduschek, E Peter ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

promoter complexes; RNA polymerase III; TATA less genes; TBP; TFC4; TFIIIB

Indexed keywords

DNA DIRECTED RNA POLYMERASE III; TATA BINDING PROTEIN; TRANSCRIPTION FACTOR; TRANSCRIPTION FACTOR IIIB; TRANSFER RNA; UNCLASSIFIED DRUG;

ARTICLE; BINDING SITE; DNA FLANKING REGION; ELASTICITY; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN BINDING; PROTEIN DETERMINATION; RNA ANALYSIS; SACCHAROMYCES CEREVISIAE; TRANSCRIPTION REGULATION;

EID: 0029912151     PISSN: 08909369     EISSN: None     Source Type: Journal    
DOI: 10.1101/gad.10.6.725     Document Type: Article

References (59)

1. tyr gene. Cell 34: 655-664.
2. Tyr point mutations on the binding of yeast RNA polymerase III transcription factor C. J. Biol. Chem. 261: 5275-5282.
3. Baker, R.E., S. Camier, A. Sentenac, and B.D. Hall. 1987. Gene size differentially affects the binding of yeast transcription factor τ to two intragenic regions. Proc. Natl. Acad. Sci. 84: 8768-8772
4. Bartholomew, B., G.A. Kassavetis, and E.P Geiduschek. 1991. Two components of S. cerevisiae TFIIIB are stereospecifically located upstream of a tRNA gene and interact with the second largest subunit of TFIIIC. Mol. Cell. Biol. 11: 5181-5189.
5. Bartholomew, B., D. Durkovich, G.A. Kassavetis, and E.P. Geiduschek. 1993. Orientation and topography of RNA polymerase III in transcription complexes. Mol. Cell. Biol. 13:942-952.
6. Bartholomew, B., B.R. Braun, G.A. Kassavetis, and E. P. Geiduschek. 1994. Probing close DNA contacts of RNA polymerase III transcription complexes with the photoactive nucleoside 4-thiodeoxythymidine. J. Biol. Chem. 269: 18090-18095.
7. Braun, B.R., D.L. Riggs, G.A. Kassavetis, and E.P. Geiduschek. 1989. Multiple states of protem-DNA interaction in the assembly of transcription complexes on Saccharomyces cerevisiae 5S ribosomal RNA genes. Proc. Natl Acad. Sci. 86: 2530-2534.
8. Braun, B.R., B. Bartholomew, G.A. Kassavetis, and E P. Geiduschek. 1992a. Topography of transcription factor complexes on the Saccharomyces cerevisiae 5S RNA gene. J. Mol. Biol 228: 1063-1077.
9. Braun, B.R., G.A. Kassavetis, and E.P. Geiduschek. 1992b. Bending of the Saccharomyces cerevisiae 5S rRNA gene in transcription factor complexes. J. Biol. Chem. 267: 22562-22569.
10. Brow, D.A and C. Guthrie. 1990. Transcription of a yeast U6 snRNA gene requires a polymerase III promoter element in a novel position. Genes & Dev. 4: 1345-1356.
11. Burnol, A-F., F. Margottin, P. Schultz, M.-C. Marsolier, P. Oudet, and A. Sentenac. 1993a. Basal promoter and enhancer element of yeast U6 snRNA gene. J. Mol Biol 233: 644-658.
12. Burnol, A.-F., F. Margottin, J. Huet, G. Almouzni, M.-N. Prioleau, M. Méchali and A. Sentenac. 1993b. TFIIIC relieves repression of U6 snRNA transcription by chromatin. Nature 362: 475-477.
13. Chalker, D.L. and S.B. Sandmeyer. 1993. Sites of RNA polymerase III transcription initiation and Ty3 integration at the U6 gene are positioned by the TATA box. Proc. Natl Acad. Sci. 90: 4927-4931.
14. Chaussivert, N., C. Conesa, S. Shaaban, and A. Sentenac. 1995. Complex interactions between yeast TFIIIB and TFIIIC. J. Biol. Chem. 270: 15353-15358.
15. Coleman, R.A. and B.F. Pugh. 1995. Evidence for functional binding and stable sliding of the TATA binding protein on nonspecific DNA. J. Biol Chem. 270: 13850-13859.
16. Eschenlauer, J.B., M.W. Kaiser, V.L. Gerlach, and D.A. Brow. 1993. Architecture of a yeast U6 RNA gene promoter. Mol. Cell. Biol. 13: 3015-3026.
17. Leu3 gene promoters. Proc. Natl. Acad. Sci. 84: 8763-8767.
18. Leu3 gene. Nucleic Acids Res. 23: 2914-2918.
19. Geiduschek, E.P. and G.A. Kassavetis. 1995. Comparing transcriptional initiation by RNA polymerases I and III. Curr. Opin. Cell Biol. 7: 344-351.
20. Geiduschek, E.P., C. Bardeleben, C.A.P. Joazeiro, G.A. Kassavetis, and S. Whitehall. 1995. Yeast RNA polymerase III: Transcription complexes and RNA synthesis. Braz. J. Med. Biol. Res 28: 147-159.
21. Gerlach, V.L., S.K. Whitehall, E.P. Geiduschek, and D.A. Brow. 1995. TFIIIB placement on a yeast U6 RNA gene in vivo is directed primarily by TFIIIC rather than by sequence specific DNA contacts. Mol. Cell. Biol. 15: 1455-1466.
22. Hernandez, N. 1993. TBP, a universal eukaryotic transcription factor? Genes & Dev. 7: 1291-1308.
23. Huet, J. and A Sentenac. 1992. The TATA-binding protein participates in TFIIIB assembly on tRNA genes. Nucleic Acids Res. 20: 6451-6454.
24. Huet, J., C. Conesa, N. Manaud, N. Chaussivert, and A. Sentenac. 1994. Interactions between yeast TFIIIB components. Nucleic Acids Res. 22: 3433-3439.
25. Joazeiro, C.A.P., G.A. Kassavetis, and E.P. Geiduschek. 1994. Identical components of yeast transcription factor IIIB are required and sufficient for transcription of TATA box-containing and TATA-less genes. Mol. Cell. Biol. 14: 2798-2808.
26. Kaiser, M. and D. Brow. 1995. Lethal mutations in a yeast U6 RNA gene B block promoter element identify essential contacts with transcription factor-IIIC. J. Biol. Chem. 270: 11398-11405.
27. Kamakaka, R.T. and J.T. Kadonaga. 1994. The soluble nuclear fraction, a highly efficient transcription extract from Drosophila embryos. Methods Cell Biol 44: 225-235.
28. Kassavetis, G.A., D.L. Riggs, R. Negri, L.H. Nguyen, and E.P. Geiduschek. 1989. Transcription factor IIIB generates extended DNA interactions in RNA polymerase III transcription complexes on tRNA genes. Mol. Cell. Biol. 9: 2551-2566.
29. Kassavetis, G.A., B.R. Braun, L.H. Nguyen, and E.P. Geiduschek. 1990. S. cerevisiae TFIIIB is the transcription initiation factor proper of RNA polymerase III while TFIIIA and TFIIIC are assembly factors. Cell 60: 235-245.
30. Kassavetis, G.A., B Bartholomew, J.A. Blanco, T.E. Johnson, and E.P. Geiduschek. 1991. Two essential components of the Saccharomyces cerevisiae transcription factor IIIB: Transcription and DNA-binding properties. Proc. Natl. Acad. Sci. 88: 7308-7312.
31. Kassavetis, G.A., C.A.P. Joazeiro, M. Pisano, E.P. Geiduschek, T. Colbert, S. Hahn, and J.A. Blanco. 1992 The role of the TATA binding protein in the assembly and function of the multisubunit yeast RNA polymerase III, transcription factor TFIIIB. Cell 71: 1055-1064.
32. Kassavetis, G.A., C. Bardeleben, B. Bartholomew, B.R Braun, C.A.P. Joazeiro, M. Pisano, and E.P. Geiduschek. 1994. Transcription by RNA polymerase III. In Transcription, mechanisms and regulation (ed. R.C. Conaway and J.W. Conaway), pp. 107-126, Raven Press, New York, NY.
33. Kassavetis, G.A., S.T. Nguyen, R. Kobayashi, A. Kumar, E.P. Geiduschek, and M. Pisano. 1995. Cloning, expression and function of TFC5, the gene encoding the B″ component of the Saccharomyces cerevisiae RNA polymerase III transcription factor TFIIIB. Proc. Natl Acad. Sci. 92: 9786-9790.
34. Khoo, B., B. Brophy, and S.P. Jackson. 1994. Conserved functional domains of the RNA polymerase III general transcription factor BRF. Genes & Dev. 8: 2879-2890.
35. Kim, Y., J.H. Geiger, S. Hahn, and P. Sigler. 1993. Crystal structure of a yeast TBP/TATA box complex. Nature 365: 512-520.
36. Kim, J.L., D.B Nikolov, and S.K. Burley. 1993. Co-crystal structure of TBP recognizing the minor groove of a TATA element. Nature 365: 520-527.
37. Tyr locus: DNA sequence changes in mutants lacking suppressor activity. Cell 20: 701-709.
38. Lamb, J.R., S. Tugendreich, and P. Hieter. 1995. Tetratricopeptide repeat interactions: To TPR or not to TPR? Trends in Biochem. Sci. 20: 257-259.
39. Lee, D.K., M. Horikoshi, and R.G. Roeder. 1991. Interaction of TFIID in trie minor groove of the TATA element. Cell 67: 1241-1250.
40. Gln gene. J. Biol. Chem. 266: 5162-5168.
41. _. 1993. Repression and redirection of Saccharomyces cerevisiae tRNA synthesis from upstream of the transcriptional start site. J. Biol. Chem. 268: 3594-3603.
42. Luisi,B.F , W.X. Xu, Z Otwinowski, L.P. Freedman, K.R. Yamamoto, and P.B. Sigler 1991. Crystallographic analysis of the interaction of the glucocorticoid receptor with DNA. Nature 352: 497-505.
43. Marck, C., O. Lefebvre, C. Carles, M. Riva, N. Chaussivert, A. Ruet, and A. Sentenac. 1993. The TFIIIB-assembling subunit of yeast transcription factor TFIIIC has both tetratricopeptide repeats and basic helix-loop-helix motifs. Proc. Natl Acad. Sci. 90: 4027-40231.
44. Martinez, E., Q. Zhou, N. L'Étoile, T. Oelgeschlager, A. Berk, and R. Roeder. 1995. Core promoter-specific function of a mutant transcription factor IID defective in TATA-box binding. Proc. Natl. Acad. Sci. 92: 11864-11868.
45. Pinto, I., D.E. Ware, and M. Hampsey. 1992. The yeast SUA7 gene encodes a homolog of human transcription factor TFIIB and is required for normal start site selection in vivo. Cell 68: 977-988.
46. Poon, D., R.A. Knittle, K.A. Sabelko, T. Yamamoto, M. Horikoshi, R G. Roeder, and P.A Weil. 1993. Genetic and biochemical analyses of yeast TATA-binding protein mutants. J. Biol Chem. 268: 5005-5013.
47. Rameau, G., K. Puglia, A. Crowe, I. Sethy, and I. Willis. 1994. A mutation in the second largest subunit of TFIIIC increases a rate-limiting step in transcription by RNA polymerase III. Mol. Cell. Biol. 14: 822-830.
48. Schultz, M.C., R.H. Reeder, and S. Hahn. 1992. Variants of the TATA-binding protein can distinguish subsets of RNA polymerase I, II, and III promoters. Cell 69: 697-702.
49. Starr, D.B. and D.K. Hawley. 1991. TFIID binds in the minor groove of the TATA box. Cell 67: 1231-1240.
50. Strubin, M. and K. Struhl 1992. Yeast and human TFIID with altered DNA-bindmg specificity for TATA elements. Cell 68: 721-730.
51. Struhl, K. 1994. Duality of TBP, the universal transcription factor. Science 263: 1103-1104.
52. II150. Similarity to yeast gene TSM-1 and specific binding to core promoter DNA. Science 264: 933-941.
53. Werner, M., N. Chaussivert, I. Willis, and A. Sentenac. 1993. Interaction between a complex of RNA polymerase III subunits and the 70-kDa component of transcription factor IIIB. J. Biol Chem. 268: 20721-20724.
54. White, R.J. 1994. RNA polymerase III transcription. Molecular Biology Intelligence Unit, R.G. Landes Company, Austin, TX.
55. Whitehall, S., G.A. Kassavetis, and E.P Geiduschek. 1995. The symmetry of the yeast U6 RNA gene's TATA box, and the orientation of the TATA-binding protein in yeast TFIIIB. Genes &. Dev. 9: 2974-2985.
56. Wiley, S.R., R.J. Kraus, and J.E. Mertz. 1992. Functional binding of the "TATA" box binding component of transcription factor TFIID to the -30 region of TATA-less promoters. Proc. Natl. Acad. Sci. 89: 5814-5818.
57. Willis I.M. 1993. RNA polymerase III. Genes, factors and transcriptional specificity. Eur. J. Biochem. 212: 1-11.
58. Wobbe, R. C. and K. Struhl. 1990. Yeast and human TATA-binding proteins have nearly identical DNA sequence requirements for transcription in vitro Mol. Cell. Biol. 8: 3859-3867.
59. Zenzie-Gregory, B., A. Khachi, I.P. Garraway, and S.T. Smale. 1993. Mechanism of initiator-mediated transcription: Evidence for a functional interaction between the TATA-binding protein and DNA in the absence of a specific recognition sequence. Mol. Cell. Biol. 13: 3841-3849.