Eukaryotic Transcription

Biochemistry 201

Advanced Molecular Biology

Prof. Roger Kornberg

RNA Polymerase II Apparatus Handout

RNA Polymerase II Apparatus Slides

Buratowski, S., Hahn, S., Guarente, L., and Sharp, P.A. (1989) Five intermediate complexes in transcription initiation by RNA polymease II. Cell 56:549-562.

Bushnell, D. A., Bamdad, C., and Kornberg, R. D. (1996) A minimal set of RNA polymerase II transcription protein interactions. J. Biol. Chem. 271:20170-10174.

Conaway, R.C. and Conaway, J.W. (1993) General initiation factors for RNA polymerase II. Annu. Rev. Biochem. 62:161-190.

Darst, S. A., Edwards, A. M., Kubalek, E. W., and Kornberg, R. D. (1991) Three-dimensional structure of yeast RNA polymerase II at 16Å resolution. Cell 66:121-128.

Darst, S. A., Kubalek, E. W., and Kornberg, R. D. (1989) Three-dimensional structure of Escherichia coli RNA polymerase holoenzyme determined by electron crystallography. Nature 340:730-732.

Feaver, W. J., Gileadi, O., Li, Y., and Kornberg, R. D. (1991). CTD kinase associated with yeast RNA polymerase II initiation factor b. Cell 67:1223-1330.

Feaver, W. J., Svejstrup, J. Q., Bardwell, L., Bardwell, A. J., Buratowski, S., Gulyas, K. D., Donahue, T. F., Friedberg, E. C., and Kornberg, R. D. (1993). Dual roles of a multiprotein complex from S. cerevisiae in transcription and DNA repair. Cell 75:1379-1387.

Feaver, W. J., Svejstrup, J. Q., Henry, N. L., and Kornberg, R. D. (1994). Relationship of CDK-activating kinase and RNA polymerase II CTD kinase TFIIH/TFIIK. Cell 79:1103-1109.

Fu, J., Gnatt, A.L., Bushnell, D.A., David, P.R., Jensen, G.J., and Kornberg, R.D. (1999) Yeast RNA polymerase II at 6 Å resolution. Cell 98:799-810.

Laybourn, P.J. and Dahmus, M. (1990) Phosphorylation of RNA polymerase IIA occurs subsequent to interaction with the promoter and before the intiation of transcription. J. Biol. Chem. 265:13165-13173.

Leuther, K. K., Bushnell, D. A., and Kornberg, R. D. (1996) Two-dimensional crystallography of transcription factor IIB- and IIE-RNA polymerase II complexes: Implications for start site selection and initiation complex formation. Cell 85:773-779.

Li, Y., Flanagan, P. M., Tschochner, H., and Kornberg, R. D. (1994) RNA polymerase II initiation factor interactions and transcription start site selection. Science 263:805-807.

Nikolov, D. B., Hu, S.-H., Lin, J., Gasch, A., Hoffmann, A., Horikoshi, M., Chua, N.-H., Roeder, R. G., and Burley, S. K. (1992). Crystal structure of TFIID TATA-box binding protein. Nature 360:40-46.

Nikolov, D. B., Chen, H., Halay, E. D., Usheva, A. A., Hisatake, K., Lee, D. K., Roeder, R. G., and Burley, S. K. (1995). Crystal structure of a TFIIB-TBP-TATA-element ternary complex. Nature 377:119-128.

Nudler, E., Avetissova, E., Markovtsov, V., and Goldfarb, A. (1996) Transcription processivity: protein-DNA interactions holding together the elongation complex. Science 273:211-217.

Parvin, J.D., and Sharp, P. A. (1993) DNA topology and a minimal set of basal factors for transcription by RNA polymerase II. Cell 73: 533-540.

Poglitsch, C.L., Meredith, G., Gnatt, A., Jensen, G.J., Chang, W-H., Fu, J, and Kornberg, R.D. (1999) Electron crystal structure of an RNA polymerase II transcription elongation complex. Cell 98:791-798.

Polyakov, A., Severina, E., and Darst, S. A. (1995) Three-dimensional structure of E. coli core RNA polymerase: Promoter binding and elongation conformations of the enzyme. Cell 83:365-373.

Sousa, R., Chung, Y. J., Rose, J. P., and Wang, B.-C. (1993). Crystal structure of bacteriophage T7 RNA polymerase at 3.3Å resolution. Nature 364:593-599.

Sousa, R., Rose, J., and Wang, B. C. (1994). The thumb's knuckle. Flexibility in the thumb subdomain of T7 RNA polymerase is revealed by the structure of a chimeric T7/T3 RNA polymerase. J. Mol. Biol. 244:6-12.

Sweetser D. Nonet, M., and Young, R.A. (1987) Prokaryotic and eukaryotic RNA polymerases have homologous core subunits. (1987) Proc. Natl. Acad. Sci. USA 84:1192-1196.

Svejstrup, J. Q., Feaver, W. J., LaPointe, J., and Kornberg, R. D. (1994). RNA polymerase transcription factor IIH holoenzyme from yeast. J. Biol. Chem. 269:28044-28048.

Svejstrup, J. Q., Wang, Z., Feaver, W. J., Wu, X., Bushnell, D. A., Donahue, T. F., Friedberg, E. C., and Kornberg, R. D. (1995). Different forms of TFIIH for transcription and DNA repair: Holo-TFIIH and a nucleotide excision repairosome. Cell 80:21-28.

Wobbe, C. R., and Struhl, K. (1990). Yeast and human TATA-binding proteins have nearly identical DNA sequence requirements for transcription in vitro. Mol. Cell. Biol. 10:3859-3867.