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Structural similarity between the pocket region of retinoblastoma tumour suppressor and the cyclin-box

Abstract

The pocket region of retinoblastoma tumour suppressor (Rb) is essential for tumour suppressing activity. The Rb pocket is primarily composed of two domains, A and B. We have determined the X-ray crystal structure of domain A (residues 378–562) at 2.3 Å resolution. Domain A consists of nine α-helices. The overall arrangement of helices in domain A is remarkably similar to the cyclin-box folds found in the crystal structures of cyclin A and TFIIB. This structure, along with domain B which is predicted to be homologous to the cyclin-box, suggests that the Rb pocket is composed of two cyclin-box fold domains. We present the structural/functional features of the Rb pocket, and the potential binding region for cellular or viral proteins within domain A.

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References

  1. Weinberg, R.A. The retinoblastoma protein and cell cycle control. Cell 81, 323–330 (1995).

    Article  CAS  Google Scholar 

  2. Hollingsworth, R.E., Chen, P.-L. & Lee, W.-H. Integration of cell cycle control with transcriptional regulation by the retinoblastoma protein. Curr. Opin. Cell Biol. 5, 194–200 (1993).

    Article  CAS  Google Scholar 

  3. Weinberg, R.A. The retinoblastoma gene and gene product. Cancer Surveys 12, 43–57 (1992).

    CAS  PubMed  Google Scholar 

  4. Bookstein, R. et al. Suppression of tumorigenicity of human prostate carcinoma cells by replacing a mutated Rb gene. Science 247, 712–715 (1990).

    Article  CAS  Google Scholar 

  5. Huang, H.-J. S. et al. Suppression of the neoplastic phenotype by replacement of the Rb gene in human cancer cells. Science 242, 1563–1566 (1988).

    Article  CAS  Google Scholar 

  6. Dyson, N., Howley, P.M., MŸnger, K. & Harlow, E. The human papilloma virus-16 E7 oncoprotein is able to bind to the retinoblastoma gene product. Science 243, 934–937 (1989).

    Article  CAS  Google Scholar 

  7. DeCaprio, J.A. et al. SV40 large tumor antigen forms a specific complex with the product of the retinoblastoma susceptibility gene. Cell 54, 275–283 (1988).

    Article  CAS  Google Scholar 

  8. Horowitz, J.M. et al. Point mutational inactivation of the retinoblastoma antioncogene. Science 243, 937–940 (1989).

    Article  CAS  Google Scholar 

  9. Huang, S. et al. Two distinct and frequently mutated regions of retinoblastoma protein are required for binding to SV40 T antigen. EMBO J. 9, 1815–1822 (1990).

    Article  CAS  Google Scholar 

  10. Chellappan, S.P., Hiebert, S., Mudryj, M., Horowitz, J.M. & Nevins, J.R. The E2F transcriptional factor is a cellular target for the RB protein. Cell 65, 1053–1061 (1992).

    Article  Google Scholar 

  11. Gu, W. et al. Interaction of myogenic factors and the retinoblastoma protein mediates muscle cell commitment and differentiation. Cell 72, 309–324 (1993)

    Article  CAS  Google Scholar 

  12. White, R.J. et al. Repression of RNA polymerase III transcription by the retinoblastoma protein. Nature 382, 88–90 (1996).

    Article  CAS  Google Scholar 

  13. Cavanaugh, A.H. et al. Activity of RNA polymerase I transcription factor UBF blocked by Rb gene product. Nature 374, 177–180 (1995).

    Article  CAS  Google Scholar 

  14. Kouarides, T. Transcriptional control by the retinioblastoma protein. Semin.Cancer Biol. 6, 91–98 (1995).

    Article  Google Scholar 

  15. Hagemeier, C., Bannister, A.J., Cook, A. & Kouzarides, T. The activation domain of transcription factor PU.1 binds the retinoblastoma (RB) protein and the transcription factor TFIID in vitro: RB shows sequence similarity to TFIID and TFIIB. Proc Natn. Acad. Sci. USA 90, 1580–1584 (1993).

    Article  CAS  Google Scholar 

  16. Brown, N.R. et al. The crystal structure of Cyclin A. Structure 3, 1235–1247 (1995).

    Article  CAS  Google Scholar 

  17. Jeffrey, P.D. et al. Mechanism of CDK activation revealed by the structure of a cyclinA–CDK2 complex. Nature 376, 313–320 (1995).

    Article  CAS  Google Scholar 

  18. Bagby, S. et al. Solution structure of the C-terminal core domain of human TFIIB: similarity to Cyclin A and interaction with TATA-binding protein. Cell 82, 857–867 (1995).

    Article  CAS  Google Scholar 

  19. Nikolov, D.B. et al. Crystal strucutre of a TFIIB-TBP-TATA element ternary complex. Nature 377, 119–128 (1995).

    Article  CAS  Google Scholar 

  20. Ewen, M. B., Xing, Y., Lawrence, J. B. & Livingston, D. M. Molecular cloning, chromosomal mapping, and expression of the cDNA for p107, a retinoblastoma gene product-related protein. Cell 66, 1155–1164 (1991).

    Article  CAS  Google Scholar 

  21. Li, Y. et al. The adenovirus E1 A-associated p130-kD protein is encoded by a member of the retinoblastoma gene family and physically interacts with cyclins A and E. Genes Dev. 7, 2366–2377 (1993).

    Article  CAS  Google Scholar 

  22. Stirdivant, S. M., Ahern, J. D., Oliff, A. & Heimbrook, D. C. Retinoblastoma protein binding properties are dependent on 4 cysteine residues in the protein binding pocket. J. Biol. Chem. 267, 14846–14851 (1992).

    CAS  PubMed  Google Scholar 

  23. Gibson, T. J., Thomson, J. D., Blocker, A. & Kouzarides, T. Evidence for a protein domain superfamily shared by the cyclins, TFIIB and RB/p107. Nucleic Adds Res. 22, 946–952 (1994).

    Article  CAS  Google Scholar 

  24. Jones, D.T., Taylor, W.R. & Thornton, J.M. A new approach to protein fold recognition. Nature 358, 86–89 (1992).

    Article  CAS  Google Scholar 

  25. Hensey, C. E. et al. Identification of discrete structural domains in the retinoblastoma protein. J. Biol. Chem. 269, 1380–1387 (1994).

    CAS  PubMed  Google Scholar 

  26. Chow, K. N. B & Dean, D. C. Domain A and B in the Rb pocket interact to form a transcriptional represser motif. Mol. Cell. Biol. 16, 4862–4868 (1996).

    Article  CAS  Google Scholar 

  27. Lees, J. A., Buchkovich, K. J., Marshak, D. R., Anderson, C. W. & Harlow, E. The retinoblastoma protein is phosphorylated on multiple sites byhuman cdc2. EMBO J. 10, 4279–4290 (1991).

    Article  CAS  Google Scholar 

  28. Knudson, E.S. & Wang, J.Y.J. Differential regulation of retinoblastoma protein function by specific phosphorylation sites. J. Biol. Chem. 271, 8313–8320 (1996).

    Article  Google Scholar 

  29. Russo, A.A., Jeffery, P.D. & Pavletich, N.P. Structural basis of cyclin–dependent kinase activation by phosphorylation. Nature Struct. Biol. 3, 696–700 (1996).

    Article  CAS  Google Scholar 

  30. Kaelin, W. G., Palas, D.C., DeCaprio, J.A., Kaye, F.J. & Livingston, D. M. Identification of cellular proteins that can interact specifically with the T/E1 A-binding region of the retinoblastoma gene product. Cell 64, 521–532.

    Article  CAS  Google Scholar 

  31. Collaborative Computational Project Number 4. The CCP4 Suite: Program for protein crystallography. Acta Crystallogr. D50, 760–763 (1994)

  32. Zhang, K.Y.G. SQUASH-Combining constraints for macromolecular phase refinement and extension. Acta Crystallogr. D49, 213–222 (1993).

    CAS  Google Scholar 

  33. Jones, T.A., Zou, J.-Y. & Cowan, S.W. Improved methods of building protein models in electron density maps and the location errors in these models. Acta Crystallogr. A47, 110–119 (1991).

    Article  Google Scholar 

  34. Sack, J.S. CHAIN: a crystallographic modelling program.J. molec. Graphics, 6, 224–225 (1988).

    Article  Google Scholar 

  35. Brünger, A.T. X-PLOR, a system for crystallography and NMR, Version 3.1 (Yale Univ. Press, New Haven, CT, 1992)

    Google Scholar 

  36. Tronrud, D.E., Ten Eyck, L.F. & Matthews, B.W. An efficient general purpose Least-Squares Refinement Program for Macromolecular Structures. Acta Crystallogr. A43, 489–501 (1987).

    Article  Google Scholar 

  37. Merrit, E.A. & Murphy, M.E.P. Raster 3D Version 2.0. A program for photorealistic molecular graphics. Acta Crystallogr. D50, 869–873 (1994).

    Google Scholar 

  38. Kabsch, W. & Sander, C. Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features. Biopolymers. 22, 2577–2637 (1983).

    Article  CAS  Google Scholar 

  39. Kraulis, P.J. Molscript: a program to produce both detailed and schematic plots of protein structures. J. appl. Crystallogr. 24, 946–950 (1991).

    Article  Google Scholar 

  40. Nicholls, A., Sharp, K.A. & Honig, B. Protein folding and association: insight from the interracial and thermodynamic properties of hydrocarbons. Proteins:Structure, Function and Genetics, 11, 281–296 (1991).

    Article  CAS  Google Scholar 

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Kim, HY., Cho, Y. Structural similarity between the pocket region of retinoblastoma tumour suppressor and the cyclin-box. Nat Struct Mol Biol 4, 390–395 (1997). https://doi.org/10.1038/nsb0597-390

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