TBP domain symmetry in basal and activated archaeal transcription

Molecular Microbiology

Volumn 71, Issue 1, 2009, Pages 123-131

  Ouhammouch, Mohamed ^a   Hausner, Winfried ^b   Geiduschek, E Peter ^a  

^a UNIVERSITY OF CALIFORNIA SAN DIEGO   (United States)

^b UNIVERSITY OF REGENSBURG   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

PROTEIN LRP; PROTEIN PTR2; TATA BINDING PROTEIN; TRANSCRIPTION FACTOR; UNCLASSIFIED DRUG;

AMINO TERMINAL SEQUENCE; ARCHAEBACTERIUM; ARTICLE; CARBOXY TERMINAL SEQUENCE; CRYSTAL STRUCTURE; DNA CLEAVAGE; EUKARYOTE; IN VITRO STUDY; METHANOCALDOCOCCUS JANNASCHII; PRIORITY JOURNAL; WILD TYPE;

ARCHAEAL PROTEINS; DNA, ARCHAEAL; GENE EXPRESSION REGULATION, ARCHAEAL; METHANOCOCCALES; TATA-BOX BINDING PROTEIN; TRANSCRIPTION, GENETIC; TRANSCRIPTIONAL ACTIVATION;

ARCHAEA; EUKARYOTA; METHANOCALDOCOCCUS JANNASCHII; METHANOCOCCALES; THERMOPLASMATALES;

EID: 58149123599     PISSN: 0950382X     EISSN: 13652958     Source Type: Journal    
DOI: 10.1111/j.1365-2958.2008.06512.x     Document Type: Article

References (34)

1. Bell, S.D. Jackson, S.P. (2001) Mechanism and regulation of transcription in archaea. Curr Opin Microbiol 4 : 208 213.
2. Bell, S.D., Kosa, P.L., Sigler, P.B. Jackson, S.P. (1999) Orientation of the transcription preinitiation complex in archaea. Proc Natl Acad Sci USA 96 : 13662 13667.
3. Bryant, G.O., Martel, L.S., Burley, S.K. Berk, A.J. (1996) Radical mutations reveal TATA-box binding protein surfaces required for activated transcription in vivo. Genes Dev 10 : 2491 2504.
4. Burley, S.K. (1996) The TATA box binding protein. Curr Opin Struct Biol 6 : 69 75.
5. Chen, C.H. Sigman, D.S. (1987) Chemical conversion of a DNA-binding protein into a site-specific nuclease. Science 237 : 1197 1201.
6. Chou, S. Struhl, K. (1997) Transcriptional activation by TFIIB mutants that are severely impaired in interaction with promoter DNA and acidic activation domains. Mol Cell Biol 17 : 6794 6802.
7. Cox, J.M., Hayward, M.M., Sanchez, J.F., Gegnas, L.D., van der Zee, S., Dennis, J.H., et al. (1997) Bidirectional binding of the TATA box binding protein to the TATA box. Proc Natl Acad Sci USA 94 : 13475 13480.
8. Elkins, J.G., Podar, M., Graham, D.E., Makarova, K.S., Wolf, Y., Randau, L., et al. (2008) A korarchaeal genome reveals insights into the evolution of the archaea. Proc Natl Acad Sci USA 105 : 8102 8107.
9. Geiduschek, E.P. Ouhammouch, M. (2005) Archaeal transcription and its regulators. Mol Microbiol 56 : 1397 1407.
10. Geiger, J.H., Hahn, S., Lee, S. Sigler, P.B. (1996) Crystal structure of the yeast TFIIA/TBP/DNA complex. Science 272 : 830 836.
11. Hausner, W., Frey, G. Thomm, M. (1991) Control regions of an archaeal gene. A TATA box and an initiator element promote cell-free transcription of the tRNA (Val) gene of Methanococcus vannielii. J Mol Biol 222 : 495 508.
12. Hausner, W., Wettach, J., Hethke, C. Thomm, M. (1996) Two transcription factors related with the eucaryal transcription factors TATA-binding protein and transcription factor IIB direct promoter recognition by an archaeal RNA polymerase. J Biol Chem 271 : 30144 30148.
13. Hethke, C., Geerling, A.C., Hausner, W., de Vos, W.M. Thomm, M. (1996) A cell-free transcription system for the hyperthermophilic archaeon Pyrococcus furiosus. Nucleic Acids Res 24 : 2369 2376.
14. Kays, A.R. Schepartz, A. (2000) Virtually unidirectional binding of TBP to the AdMLP TATA box within the quaternary complex with TFIIA and TFIIB. Chem Biol 7 : 601 610.
15. Kim, J.L. Burley, S.K. (1994) 1.9 A resolution refined structure of TBP recognizing the minor groove of TATAAAAG. Nat Struct Biol 1 : 638 653.
16. Kim, J.L., Nikolov, D.B. Burley, S.K. (1993a) Co-crystal structure of TBP recognizing the minor groove of a TATA element. Nature 365 : 520 527.
17. Kim, Y., Geiger, J.H., Hahn, S. Sigler, P.B. (1993b) Crystal structure of a yeast TBP/TATA-box complex. Nature 365 : 512 520.
18. Kosa, P.F., Ghosh, G., DeDecker, B.S. Sigler, P.B. (1997) The 2.1-A crystal structure of an archaeal preinitiation complex: TATA-box-binding protein/transcription factor (II) B core/TATA-box. Proc Natl Acad Sci USA 94 : 6042 6047.
19. Kunkel, T.A., Bebenek, K. McClary, J. (1991) Efficient site-directed mutagenesis using uracil-containing DNA. Methods Enzymol 204 : 125 139.
20. Lagrange, T., Kapanidis, A.N., Tang, H., Reinberg, D. Ebright, R.H. (1998) New core promoter element in RNA polymerase II-dependent transcription: sequence-specific DNA binding by transcription factor IIB. Genes Dev 12 : 34 44.
21. Lee, M. Struhl, K. (1997) A severely defective TATA-binding protein-TFIIB interaction does not preclude transcriptional activation in vivo. Mol Cell Biol 17 : 1336 1345.
22. Littlefield, O., Korkhin, Y. Sigler, P.B. (1999) The structural basis for the oriented assembly of a TBP/TFB/promoter complex. Proc Natl Acad Sci USA 96 : 13668 13673.
23. McClary, J.A., Witney, F. Geisselsoder, J. (1989) Efficient site-directed in vitro mutagenesis using phagemid vectors. Biotechniques 7 : 282 289.
24. Nikolov, D.B., Chen, H., Halay, E.D., Usheva, A.A., Hisatake, K., Lee, D.K., et al. (1995) Crystal structure of a TFIIB-TBP-TATA-element ternary complex. Nature 377 : 119 128.
25. Ouhammouch, M. Geiduschek, E.P. (2005) An expanding family of archaeal transcriptional activators. Proc Natl Acad Sci USA 102 : 15423 15428.
26. Ouhammouch, M., Dewhurst, R.E., Hausner, W., Thomm, M. Geiduschek, E.P. (2003) Activation of archaeal transcription by recruitment of the TATA-binding protein. Proc Natl Acad Sci USA 100 : 5097 5102.
27. Ouhammouch, M., Werner, F., Weinzierl, R.O. Geiduschek, E.P. (2004) A fully recombinant system for activator-dependent archaeal transcription. J Biol Chem 279 : 51719 51721.
28. Ouhammouch, M., Langham, G.E., Hausner, W., Simpson, A.J., El-Sayed, N.M. Geiduschek, E.P. (2005) Promoter architecture and response to a positive regulator of archaeal transcription. Mol Microbiol 56 : 625 637.
29. Qureshi, S.A. Jackson, S.P. (1998) Sequence-specific DNA binding by the S. shibatae TFIIB homolog, TFB, and its effect on promoter strength. Mol Cell 1 : 389 400.
30. Tang, H., Sun, X., Reinberg, D. Ebright, R.H. (1996) Protein-protein interactions in eukaryotic transcription initiation: structure of the preinitiation complex. Proc Natl Acad Sci USA 93 : 1119 1124.
31. Tansey, W.P. Herr, W. (1997) Selective use of TBP and TFIIB revealed by a TATA-TBP-TFIIB array with altered specificity. Science 275 : 829 831.
32. Thomm, M. (1996) Archaeal transcription factors and their role in transcription initiation. FEMS Microbiol Rev 18 : 159 171.
33. Tsai, F.T. Sigler, P.B. (2000) Structural basis of preinitiation complex assembly on human pol II promoters. EMBO J 19 : 25 36.
34. Xu, L.C., Thali, M. Schaffner, W. (1991) Upstream box/TATA box order is the major determinant of the direction of transcription. Nucleic Acids Res 19 : 6699 6704.