Architecture of protein and DNA contacts within the TFIIIB-DNA complex

Molecular and Cellular Biology

Volumn 18, Issue 3, 1998, Pages 1682-1691

  Colbert, Trenton ^a   Lee, Sally ^a,b   Schimmack, Greg ^a   Hahn, Steven ^a  

^a HOWARD HUGHES MEDICAL INSTITUTE   (United States)

^b Drug Metabolism Pharmacokinetics Clinical Pharmacology   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

FUNGAL PROTEIN; TRANSCRIPTION FACTOR;

AMINO TERMINAL SEQUENCE; ARTICLE; CARBOXY TERMINAL SEQUENCE; DNA DETERMINATION; DNA PROTEIN COMPLEX; DNA STRUCTURE; NONHUMAN; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN DNA BINDING; PROTEIN DNA INTERACTION; PROTEIN STRUCTURE; SACCHAROMYCES CEREVISIAE; STRUCTURE ANALYSIS; TATA BOX;

EID: 0031952187     PISSN: 02707306     EISSN: None     Source Type: Journal    
DOI: 10.1128/MCB.18.3.1682     Document Type: Article

References (51)

1. Bagby, S., S. Kim, E. Maldonado, K. I. Tong, D. Reinberg, and M. Ikura. 1995. Solution structure of the carboxy-terminal core domain of human TFIIB: similarity to cyclin A and interaction with TATA binding protein. Cell 82:857-867.
2. Baker, R. E., S. Camier, A. Sentenac, and B. D. Hall. 1987. Gene size differentially affects the binding of yeast transcription factor tau to two intragenic regions. Proc. Natl. Acad. Sci. USA 84:8768-8772.
3. Barberis, A., C. W. Muller, S. C. Harrison, and M. Ptashne. 1993. Delineation of two functional regions of transcription factor TFIIB. Proc. Natl. Acad. Sci. USA 90:5628-5632.
4. 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.
5. Bartholomew, B., G. A. Kassavetis, and E. P. Geiduschek. 1991. Two components of Saccharomyces cerevisiae transcription factor IIIB (TFIIIB) are stereospecifically located upstream of a tRNA gene and interact with the second-largest subunit of TFIIIC Mol. Cell. Biol. 11:5181-5189.
6. Berk, A., and Y. Shen. Personal communication.
7. Brow, D. A., and C. Guthrie. 1989. Splicing a spliceosomal RNA. Nature 337:14-15.
8. Bryant, G. O., L. S. Martel, S. K. Burley, and A. J. Berk. 1996. Radical mutations reveal TATA-box binding protein surfaces required for activated transcription in vivo. Genes Dev. 10:2491-2504.
9. Buratowski, S., and H. Zhou. 1993. Functional domains of transcription factor TFIIB. Proc. Natl. Acad. Sci. USA 90:5633-5637.
10. Buratowski, S., and H. Zhou. 1992. A suppressor of TBP mutations encodes an RNA polymerase III transcription factor with homology to TFIIB. Cell 71:221-230.
11. Chaussivert, N., C. Conesa, S. Shaaban, and A. Sentenac. 1995. Complex interactions between yeast TFIIIB and TFIIIC. J. Biol. Chem. 270:15353-15358.
12. Colbert, T. Unpublished data.
13. Colbert, T., and S. Hahn. 1992. A yeast TFIIB-related factor involved in RNA polymerase III transcription. Genes Dev. 6:1940-1949.
14. Cormack, B. P., and K. Struhl. 1993. Regional codon randomization: defining a TATA-binding protein surface required for RNA polymerase III transcription. Science 262:244-248.
15. Gabrielson, O. S., and A. Sentenac. 1991. RNA polymerase III(C) and its transcription factors. Trends. Biochem. Sci. 16:412-416.
16. Geiduschek, E. P., and K. A. Kassavetis. 1992. RNA polymerase III transcription complexes, vol. 1. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
17. Geiger, J. H., S. Hahn, S. Lee, and P. B. Sigler. 1996. Crystal structure of the yeast TFIIA/TBP/DNA complex. Science 272:830-836.
18. Ha, I., S. Roberts, E. Maldonado, X. Sun, L. Kim, M. Green, and D. Reinberg. 1993. Multiple functional domains of human transcription factor IIB: distinct interactions with two general transcription factors and RNA polymerase II. Genes Dev. 7:1021-1032.
19. Joazeiro, C. A., 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.
20. Joazerio, C. A. P., G. A. Kassavetis, and E. P. Geiduschek. 1996. Alternative outcomes in assembly of promoter complexes: the roles of TBP and a flexible linker in placing TFIIIB on tRNA genes. Genes Dev. 10:725-739.
21. Kassavetis, G. A., C. Bardeleben, A. Kumar, E. Ramirez, and E. P. Geiduschek. 1997. Domains of the Brf component of RNA polymerase III transcription factor IIIB (TFIIIB): functions in assembly of TFIIIB-DNA complexes and recruitment of RNA polymerase to the promoter. Mol. Cell. Biol. 17:5299-5306.
22. 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.
23. 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.
24. 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.
25. 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.
26. Kim, Y., J. H. Geiger, S. Hahn, and P. B. Sigler. 1993. Crystal structure of a yeast TBP/TATA-box complex. Nature 365:512-520.
27. Kosa, P. F., G. Ghosh, B. S. DeDecker, and P. B. Sigler. 1997. The 2.1-A crystal structure of an archeal preinitiation complex: TATA-box-binding protein/transcription factor (II)B core/TATA-box. Proc. Natl. Acad. Sci. USA 94:6042-6047.
28. Lee, M., and K. Struhl. 1997. A severely defective TATA-binding protein-TFIIB interaction does not preclude transcriptional activation in vivo. Mol. Cell. Biol. 17:1336-1345.
29. Lee, S., and S. Hahn. 1995. Model for binding of transcription factor TFIIB to the TBP-DNA complex. Nature 376:609-612.
30. GLN gene. J. Biol. Chem. 266:5162-5168.
31. Librizzi, M. D., R. D. Moir, M. Brenowitz, and I. M. Willis. 1996. Expression and purification of the RNA polymerase III transcription specificity factor IIIB70 from Saccharomyces cerevisiae and its cooperative binding with TATA-binding protein. J. Biol. Chem. 271:32695-32701.
32. Lopez-De-Leon, A., M. Librizzi, K. Puglia, and I. M. Willis. 1992. PCF4 encodes an RNA polymerase III transcription factor with homology to TFIIB. Cell 71:211-220.
33. Margottin, F., G. Dujardin, M. Gerard, J.-M. Egly, J. Huet, and A. Sentenac. 1991. Participation of the TATA factor in transcription of the yeast U6 gene by RNA polymerase C. Science 251:424-426.
34. Nikolov, D. B., H. Chen, E. D. Halay, A. A. Usheva, K. Hisatake, D. K. Lee, R. G. Roeder, and S. K. Burley. 1995. Crystal structure of a TFIIB/TBP/ TATA element ternary complex. Nature 377:119-128.
35. Nikolov, D. B., S. Hu, J. Lin, A. Gasch, A. Hoffmann, M. Horikoshi, N. Chua, R. G. Roeder, and S. K. Burley. 1992. Crystal structure of TFIID TATA-box binding protein. Nature 360:40-46.
36. Ouzounis, C., and C. Sander. 1992. TFIIB, an evolutionary link between the transcription machineries of archaebacteria and eukaryotes. Cell 71:189-190.
37. Persinger, J., and B. Bartholomew. 1996. Mapping the contacts of yeast TFIIIB and RNA polymerase III at various distances from the major groove of DNA by DNA photoaffinity labeling. J. Biol. Chem. 271:33039-33046.
38. Qureshi, S. A., B. Khoo, P. Baumann, and S. P. Jackson. 1995. Molecular cloning of the transcription factor TFIIB homolog from Sulfolobus shibatae. Proc. Natl. Acad. Sci. USA 92:6077-6081.
39. Roberts, S. Unpublished data.
40. Roberts, S., T. Colbert, and S. Hahn. 1995. TFIIIC determines RNA polymerase III specificity at the TATA-containing yeast U6 promoter. Genes Dev. 9:832-833.
41. Roberts, S., S. J. Miller, W. S. Lane, S. Lee, and S. Hahn. 1996. Cloning and functional characterization of the gene encoding the TFIIIB90 subunit of RNA polymerase III transcription factor TFIIIB. J. Biol. Chem. 271:14903-14909.
42. Schultz, M. C., S. Y. Choe, and R. H. Reeder. 1991. Specific initiation by RNA polymerase I in a whole-cell extract from yeast. Proc. Natl. Acad. Sci. USA 88:1004-1008.
43. 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. Cell 69:697-702.
44. Struhl, K. 1994. Duality of TBP, the universal transcription factor. Science 263:1103-1104.
45. Tan, S., Y. Hunziker, D. F. Sargent, and T. J. Richmond. 1996. Crystal structure of a yeast TFIIA/TBP/DNA complex. Nature 381:127-134.
46. Tang, H., X. Sun, D. Reinberg, and R. H. Ebright. 1996. Protein-protein interactions in eukaryotic transcription initiation: structure of the pre-initiation complex. Proc. Natl. Acad. Sci. USA 93:1119-1124.
47. Thomm, M. 1996. Archaeal transcription factors and their role in transcription initiation. FEMS Microbiol. Rev. 18:159-171.
48. Whitehall, S. K., 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.
49. Willis, I. M. 1993. RNA polymerase III. Genes, factors and transcriptional specificity. Eur. J. Biochem. 212:1-11.
50. Yamamoto, T., M. Horikoshi, J. Wang, S. Hasegawa, P. A. Weil, and R. G. Roeder. 1992. A bipartite DNA binding domain composed of direct repeats in the TATA box binding factor TFIID. Proc. Natl. Acad. Sci. USA 89:2844-2848.
51. Zhu, W., Q. Zeng, C. M. Coangelo, M. Lewis, M. F. Summers, and R. A. Scott. 1996. The N-terminal domain of TFIIB from Pyrococcus furiosus forms a zinc ribbon. Nat. Struct. Biol. 3:122-124.