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Deciphering the RNA polymerase II structure: a personal perspective

Nature Structural & Molecular Biology volume 13, pages 1042–1044 (2006)Cite this article

This year's Nobel laureate in chemistry is Roger Kornberg. Patrick Cramer gives a personal account of how the Kornberg laboratory determined the structure of the RNA polymerase II core enzyme.

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Figure 1: First sketch of the Pol II core structure.

References

  1. Cramer, P., Bushnell, D.A. & Kornberg, R.D. Structural basis of transcription: RNA polymerase II at 2.8 Angstrom resolution. Science 292, 1863–1876 (2001).

    Article  CAS  Google Scholar 

  2. Gnatt, A.L., Cramer, P., Fu, J., Bushnell, D.A. & Kornberg, R.D. Structural basis of transcription: an RNA polymerase II elongation complex at 3.3 Å resolution. Science 292, 1876–1882 (2001).

    Article  CAS  Google Scholar 

  3. Bushnell, D.A., Westover, K.D., Davis, R.E. & Kornberg, R.D. Structural basis of transcription: an RNA polymerase II-TFIIB cocrystal at 4.5 Angstroms. Science 303, 983–988 (2004).

    Article  CAS  Google Scholar 

  4. Roeder, R.G. & Rutter, W.J. Multiple forms of DNA-dependent RNA polymerase in eukaryotic organisms. Nature 224, 234–237 (1969).

    Article  CAS  Google Scholar 

  5. Cramer, P. et al. Architecture of RNA polymerase II and implications for the transcription mechanism. Science 288, 640–649 (2000).

    Article  CAS  Google Scholar 

  6. Edwards, A.M., Kane, C.M., Young, R.A. & Kornberg, R.D. Two dissociable subunits of yeast RNA polymerase II stimulate the initiation of transcription at a promoter in vitro. J. Biol. Chem. 266, 71–75 (1991).

    CAS  PubMed  Google Scholar 

  7. Thompson, N.E., Aronson, D.B. & Burgess, R.R. Purification of eukaryotic RNA polymerase II by immuno-affinity chromatography. Elution of active enzyme with protein stabilizing agents from a polyol-responsive monoclonal antibody. J. Biol. Chem. 265, 7069–7077 (1990).

    CAS  PubMed  Google Scholar 

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

    Article  CAS  Google Scholar 

  9. Fu, J. et al. Yeast RNA polymerase II at 5 Å resolution. Cell 98, 799–810 (1999).

    Article  CAS  Google Scholar 

  10. Poglitsch, C.L. et al. Electron crystal structure of an RNA polymerase II transcription elongation complex. Cell 98, 791–798 (1999).

    Article  CAS  Google Scholar 

  11. Nudler, E. Transcription elongation: structural basis and mechanisms. J. Mol. Biol. 288, 1–12 (1999).

    Article  CAS  Google Scholar 

  12. Zhang, G. et al. Crystal structure of Thermus aquaticus core RNA polymerase at 3.3 Å resolution. Cell 98, 811–824 (1999).

    Article  CAS  Google Scholar 

  13. Korzheva, N. et al. A structural model of transcription elongation. Science 289, 619–625 (2000).

    Article  CAS  Google Scholar 

  14. Bushnell, D.A., Cramer, P. & Kornberg, R.D. Selenomethionine incorporation in Saccharomyces cerevisiae RNA polymerase II. Structure 9, R11–R14 (2001).

    Article  CAS  Google Scholar 

  15. Gnatt, A., Fu, J. & Kornberg, R.D. Formation and crystallization of yeast RNA polymerase II elongation complexes. J. Biol. Chem. 272, 30799–30805 (1997).

    Article  CAS  Google Scholar 

  16. Cheetham, G.M. & Steitz, T.A. Insights into transcription: structure and function of single-subunit DNA-dependent RNA polymerases. Curr. Opin. Struct. Biol. 10, 117–123 (2000).

    Article  CAS  Google Scholar 

  17. Armache, K.-J., Kettenberger, H. & Cramer, P. Architecture of the initiation-competent 12-subunit RNA polymerase II. Proc. Natl. Acad. Sci. USA 100, 6964–6968 (2003).

    Article  CAS  Google Scholar 

  18. Bushnell, D.A. & Kornberg, R.D. Complete RNA polymerase II at 4.1 Å resolution: implications for the initiation of transcription. Proc. Natl. Acad. Sci. USA 100, 6969–6972 (2003).

    Article  CAS  Google Scholar 

  19. Armache, K.-J., Mitterweger, S., Meinhart, A. & Cramer, P. Structures of complete RNA polymerase II and its subcomplex Rpb4/7. J. Biol. Chem. 280, 7131–7134 (2005).

    Article  CAS  Google Scholar 

  20. Kettenberger, H., Armache, K.-J. & Cramer, P. Architecture of the RNA polymerase II-TFIIS complex and implications for mRNA cleavage. Cell 114, 347–357 (2003).

    Article  CAS  Google Scholar 

  21. Chung, W.H. et al. RNA polymerase II/TFIIF structure and conserved organization of the initiation complex. Mol. Cell 12, 1003–1013 (2003).

    Article  CAS  Google Scholar 

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Acknowledgements

I thank my wife for all her support. I apologize to colleagues who helped with the project but who could not be mentioned owing to space constraints. I also apologize to colleagues whose work could not be cited because of the special focus of this essay. I thank M. Bertero for critical reading of the manuscript.

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  1. the Department of Chemistry and Biochemistry, Gene Center Munich, Ludwig-Maximilians-Universität München, Feodor-Lynen-Strasse 25, Munich, D-81377, Germany

    Patrick Cramer

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Cramer, P. Deciphering the RNA polymerase II structure: a personal perspective. Nat Struct Mol Biol 13, 1042–1044 (2006). https://doi.org/10.1038/nsmb1206-1042

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