Differential utilization of TATA box-binding protein (TBP) and TBP-related factor 1 (TRF1) at different classes of RNA polymerase III promoters

Journal of Biological Chemistry

Volumn 288, Issue 38, 2013, Pages 27564-27570

  Verma, Neha ^a,b   Hung, Ko Hsuan ^a,b   Kang, Jin Joo ^a,b   Barakat, Nermeen H ^a,b,c   Stumph, William E ^a,b  

^a SAN DIEGO STATE UNIVERSITY   (United States)

^b SAN DIEGO STATE UNIVERSITY   (United States)

^c UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DIFFERENT CLASS; DROSOPHILA MELANOGASTER; FRUIT FLIES; GENE PROMOTER; IN-VITRO; RNA POLYMERASE III; TRNA GENES;

GENES; POLYMERS; PROTEINS; RNA;

TRANSCRIPTION;

DNA DIRECTED RNA POLYMERASE III; SMALL NUCLEAR RNA; TATA BINDING PROTEIN; TATA BINDING PROTEIN RELATED FACTOR; TATA BOX BINDING PROTEIN RELATED FACTOR 1; TRANSFER RNA; UNCLASSIFIED DRUG;

ANIMAL CELL; ARTICLE; CHROMATIN IMMUNOPRECIPITATION; CONTROLLED STUDY; DROSOPHILA MELANOGASTER; GENETIC TRANSCRIPTION; IN VITRO STUDY; NONHUMAN; PRIORITY JOURNAL; PROMOTER REGION; TRANSCRIPTION INITIATION;

DROSOPHILA; GENE TRANSCRIPTION; GENERAL TRANSCRIPTION FACTORS; RNA POLYMERASE III; TBP; TRANSCRIPTION INITIATION FACTORS; TRF1; TRNA TRANSCRIPTION; U6 SNRNA TRANSCRIPTION;

ANIMALS; DROSOPHILA MELANOGASTER; DROSOPHILA PROTEINS; PROMOTER REGIONS, GENETIC; RNA POLYMERASE III; RNA, SMALL NUCLEAR; RNA, TRANSFER; TATA BOX BINDING PROTEIN-LIKE PROTEINS; TATA-BOX BINDING PROTEIN; TRANSCRIPTION, GENETIC;

EID: 84884543020     PISSN: 00219258     EISSN: 1083351X     Source Type: Journal    
DOI: 10.1074/jbc.C113.503094     Document Type: Article

References (40)

1. Willis, I. M. (1993) RNApolymerase III. Genes, factors and transcriptional specificity. Eur. J. Biochem. 212, 1-11
2. Geiduschek, E. P., and Kassavetis, G. A. (2001) The RNA polymerase III transcription apparatus. J. Mol. Biol. 310, 1-26
3. Schramm, L., and Hernandez, N. (2002) Recruitment of RNA polymerase III to its target promoters. Genes Dev. 16, 2593-2620
4. Hernandez, N. (2001) snRNA genes: a model system to study fundamental mechanisms of transcription. J. Biol. Chem. 276, 26733-26736
5. Jawdekar, G. W., and Henry, R. W. (2008) Transcriptional regulation of human small nuclear RNA genes. Biochim. Biophys. Acta 1779, 295-305
6. Egloff, S., O'Reilly, D., and Murphy, S. (2008) Expression of human snRNA genes from beginning to end. Biochem. Soc. Trans. 36, 590-594
7. Hung, K. H., and Stumph, W. E. (2011) Regulation of snRNA gene expression by the Drosophila melanogaster small nuclearRNAactivating protein complex (DmSNAPc). Crit. Rev. Biochem. Mol. Biol. 46, 11-26
8. Hernandez, N. (1993) TBP, a universal eukaryotic transcription factor? Genes Dev. 7, 1291-1308
9. Dantonel, J. C., Wurtz, J. M., Poch, O., Moras, D., and Tora, L. (1999) The TBP-like factor: an alternative transcription factor in Metazoa? Trends Biochem. Sci. 24, 335-339
10. Berk, A. J. (2000) TBP-like factors come into focus. Cell 103, 5-8
11. Davidson, I. (2003) The genetics of TBP and TBP-related factors. Trends Biochem. Sci. 28, 391-398
12. Hochheimer, A., and Tjian, R. (2003) Diversified transcription initiation complexes expand promoter selectivity and tissue-specific gene expression. Genes Dev. 17, 1309-1320
13. Reina, J. H., and Hernandez, N. (2007) Ona roll for new TRF targets. Genes Dev. 21, 2855-2860
14. Crowley, T. E., Hoey, T., Liu, J. K., Jan, Y. N., Jan, L. Y., and Tjian, R. (1993) A new factor related to TATA-binding protein has highly restricted expression patterns in Drosophila. Nature 361, 557-561
15. Hansen, S. K., Takada, S., Jacobson, R. H., Lis, J. T., and Tjian, R. (1997) Transcription properties of a cell type-specific TATA-binding protein, TRF. Cell 91, 71-83
16. Holmes, M. C., and Tjian, R. (2000) Promoter-selective properties of the TBP-related factor TRF1. Science 288, 867-870
17. Takada, S., Lis, J. T., Zhou, S., and Tjian, R. (2000) A TRF1:BRF complex directs Drosophila RNA polymerase III transcription. Cell 101, 459-469
18. Isogai, Y., Takada, S., Tjian, R., and Keleş, S. (2007) Novel TRF1/BRF target genes revealed by genome-wide analysis of Drosophila Pol III transcription. EMBO J. 26, 79-89
19. Trivedi, A., Vilalta, A., Gopalan, S., and Johnson, D. L. (1996) TATAbinding protein is limiting for both TATA-containing and TATA-lacking RNA polymerase III promoters in Drosophila cells. Mol. Cell Biol. 16, 6909-6916
20. Vilalta, A., Trivedi, A., Wang, Z., Roeder, R. G., and Johnson, D. L. (1997) AnRNApolymerase III-defective mutation in TATA-binding protein disrupts its interaction with a transcription factor IIIB subunit in Drosophila cells. J. Biol. Chem. 272, 18087-18092
21. Barakat, N. H., and Stumph, W. E. (2008) TBP recruitment to the U1 snRNA gene promoter is disrupted by substituting a U6 proximal sequence element A (PSEA) for the U1 PSEA. FEBS Lett. 582, 2413-2416
22. Zamrod, Z., Tyree, C. M., Song, Y., and Stumph, W. E. (1993) In vitro transcription of a Drosophila U1 small nuclear RNA gene requires TATA box-binding protein and two proximal cis-acting elements with stringent spacing requirements. Mol. Cell Biol. 13, 5918-5927
23. Su, Y., Song, Y., Wang, Y., Jessop, L., Zhan, L., and Stumph, W. E. (1997) Characterization of a Drosophila proximal-sequence-element-binding protein involved in transcription of small nuclear RNA genes. Eur. J. Biochem. 248, 231-237
24. Kamakaka, R. T., Tyree, C. M., and Kadonaga, J. T. (1991) Accurate and efficient RNA polymerase II transcription with a soluble nuclear fraction derived from Drosophila embryos. Proc. Natl. Acad. Sci. U. S. A. 88, 1024-1028
25. Kamakaka, R. T., and Kadonaga, J. T. (1994) The soluble nuclear fraction, a highly efficient transcription extract from Drosophila embryos. Methods Cell Biol. 44, 225-235
26. Li, C., Harding, G. A., Parise, J., McNamara-Schroeder, K. J., and Stumph, W. E. (2004) Architectural arrangement of cloned proximal sequence element-binding protein subunits on Drosophila U1 and U6 snRNA gene promoters. Mol. Cell Biol. 24, 1897-1906
27. Hung, K. H., and Stumph, W. E. (2012) Localization of residues in a novel DNA-binding domain of DmSNAP43 required for DmSNAPc DNAbinding activity. FEBS Lett. 586, 841-846
28. McNamara-Schroeder, K. J., Hennessey, R. F., Harding, G. A., Jensen, R. C., and Stumph, W. E. (2001) The Drosophila U1 and U6 gene proximal sequence elements act as important determinants of the RNA polymerase specificity of snRNA gene promoters in vitro and in vivo. J. Biol. Chem. 276, 31786-31792
29. Sadowski, C. L., Henry, R. W., Lobo, S. M., and Hernandez, N. (1993) Targeting TBP to a non-TATA box cis-regulatory element: a TBP-containing complex activates transcription from snRNA promoters through the PSE. Genes Dev. 7, 1535-1548
30. Yoon, J. B., and Roeder, R. G. (1996) Cloning of two proximal sequence element-binding transcription factor subunits (γ and δ) that are required for transcription of small nuclear RNA genes by RNA polymerases II and III and interact with the TATA-binding protein. Mol. Cell Biol. 16, 1-9
31. Willis, I. M. (2002) A universal nomenclature for subunits of the RNA polymerase III transcription initiation factor TFIIIB. Genes Dev. 16, 1337-1338
32. Kassavetis, G. A., Bartholomew, B., Blanco, J. A., Johnson, T. E., and Geiduschek, E. P. (1991) Two essential components of the Saccharomyces cerevisiae transcription factor TFIIIB: transcription and DNA-binding properties. Proc. Natl. Acad. Sci. U. S. A. 88, 7308-7312
33. Saïda, F. (2008) Structural characterization of the interaction between TFIIIB components Bdp1 and Brf1. Biochemistry 47, 13197-13206
34. Das, G., Henning, D., and Reddy, R. (1987) Structure, organization, and transcription of Drosophila U6 small nuclear RNA genes. J. Biol. Chem. 262, 1187-1193
35. Rabenstein, M. D., Zhou, S., Lis, J. T., and Tjian, R. (1999) TATA boxbinding protein (TBP)-related factor 2(TRF2), a third member of the TBP family. Proc. Natl. Acad. Sci. U. S. A. 96, 4791-4796
36. Veenstra, G. J. C., Weeks, D. L., and Wolffe, A. P. (2000) Distinct roles for TBP and TBP-like factor in early embryonic gene transcription in Xenopus. Science 290, 2312-2315
37. Kaltenbach, L., Horner, M. A., Rothman, J. H., and Mango, S. E. (2000) The TBP-like factor CeTLF is required to activate RNA polymerase II transcription during C. elegans embryogenesis. Mol. Cell 6, 705-713
38. Dantonel, J. C., Quintin, S., Lakatos, L., Labouesse, M., and Tora, L. (2000) TBP-like factor is required for embryonic RNA polymerase II transcription in C. elegans. Mol. Cell 6, 715-722
39. Deato, M. D., and Tjian, R. (2007) Switching of the core transcription machinery during myogenesis. Genes Dev. 21, 2137-2149
40. Isogai, Y., Keles, S., Prestel, M., Hochheimer, A., and Tjian, R. (2007) Transcription of histone gene cluster by differential core-promoter factors. Genes Dev. 21, 2936-2949