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Structural Studies of MAP Kinase Cascade Components

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Book cover MAP Kinase Signaling Protocols

Part of the book series: Methods in Molecular Biology ((MIMB,volume 661))

Abstract

MAPK cascade components have been the subject of structural analysis, advancing our understanding of how these enzymes are activated and how they interact. A surprising finding has been that unique inactive conformers are adopted by many of these kinases. These inactive conformers are interesting and often require experimental phases to determine their crystal structures because molecular replacement techniques are not successful. Here, we describe the preparation of MAP2K MEK6 and MAP3K TAO2 substituted with selenomethionine (SeMet) for de novo phasing. TAO2 and SeMet TAO2 were expressed in insect cells.

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References

  1. Deng, Q., Liao, R., Wu, B. L., and Sun, P. (2004) High intensity ras signaling induces premature senescence by activating p38 pathway in primary human fibroblasts, J Biol Chem 279, 1050–1059.

    Article  PubMed  CAS  Google Scholar 

  2. Johnson, G. L., and Lapadat, R. (2002) Mitogen-activated protein kinase pathways mediated by ERK, JNK, and p38 protein kinases, Science 298, 1911–1912.

    Article  PubMed  CAS  Google Scholar 

  3. Lawrence, M. C., Jivan, A., Shao, C., Duan, L., Goad, D., Zaganjor, E., Osborne, J., McGlynn, K., Stippec, S., Earnest, S., Chen, W., and Cobb, M. H. (2008) The roles of MAPKs in disease, Cell Res 18, 436–442.

    Article  PubMed  CAS  Google Scholar 

  4. Roberts, P. J., and Der, C. J. (2007) Targeting the Raf-MEK-ERK mitogen-activated protein kinase cascade for the treatment of cancer, Oncogene 26, 3291–3310.

    Article  PubMed  CAS  Google Scholar 

  5. Sebolt-Leopold, J. S., and English, J. M. (2006) Mechanisms of drug inhibition of signalling molecules, Nature 441, 457–462.

    Article  PubMed  CAS  Google Scholar 

  6. Whitmarsh, A. J., and Davis, R. J. (2007) Role of mitogen-activated protein kinase kinase 4 in cancer, Oncogene 26, 3172–3184.

    Article  PubMed  CAS  Google Scholar 

  7. Schindler, J. F., Monahan, J. B., and Smith, W. G. (2007) p38 pathway kinases as anti-inflammatory drug targets, J Dent Res 86, 800–811.

    Article  PubMed  CAS  Google Scholar 

  8. Borders, A. S., de Almeida, L., Van Eldik, L. J., and Watterson, D. M. (2008) The p38alpha mitogen-activated protein kinase as a central nervous system drug discovery target, BMC Neurosci 9 Suppl 2, S12.

    Article  PubMed  Google Scholar 

  9. Loeser, R. F., Erickson, E. A., and Long, D. L. (2008) Mitogen-activated protein kinases as therapeutic targets in osteoarthritis, Curr Opin Rheumatol 20, 581–586.

    Article  PubMed  CAS  Google Scholar 

  10. Wang, Y. (2007) Mitogen-activated protein kinases in heart development and diseases, Circulation 116, 1413–1423.

    Article  PubMed  CAS  Google Scholar 

  11. Muslin, A. J. (2008) MAPK signalling in cardiovascular health and disease: molecular mechanisms and therapeutic targets, Clin Sci (Lond) 115, 203–218.

    Article  CAS  Google Scholar 

  12. Miloso, M., Scuteri, A., Foudah, D., and Tredici, G. (2008) MAPKs as mediators of cell fate determination: an approach to neurodegenerative diseases, Curr Med Chem 15, 538–548.

    Article  PubMed  CAS  Google Scholar 

  13. Raman, M., Chen, W., and Cobb, M. H. (2007) Differential regulation and properties of MAPKs, Oncogene 26, 3100–3112.

    Article  PubMed  CAS  Google Scholar 

  14. Bardwell, L. (2006) Mechanisms of MAPK signalling specificity, Biochem Soc Trans 34, 837–841.

    Article  PubMed  CAS  Google Scholar 

  15. Bardwell, A. J., Abdollahi, M., and Bardwell, L. (2003) Docking sites on mitogen-activated protein kinase (MAPK) kinases, MAPK phosphatases and the Elk-1 transcription factor compete for MAPK binding and are crucial for enzymic activity, Biochem J 370, 1077–1085.

    Article  PubMed  CAS  Google Scholar 

  16. Takekawa, M., Tatebayashi, K., and Saito, H. (2005) Conserved docking site is essential for activation of mammalian MAP kinase kinases by specific MAP kinase kinase kinases, Mol Cell 18, 295–306.

    Article  PubMed  CAS  Google Scholar 

  17. Sharrocks, A. D., Yang, S. H., and Galanis, A. (2000) Docking domains and substrate-­specificity determination for MAP kinases, Trends Biochem Sci 25, 448–453.

    Article  PubMed  CAS  Google Scholar 

  18. Min, X., Akella, R., He, H., Humphreys, J. M., Tsutakawa, S. E., Lee, S. J., Tainer, J. A., Cobb, M. H., and Goldsmith, E. J. (2009) The structure of the MAP2K MEK6 reveals an autoinhibitory dimer, Structure 17, 96–104.

    Article  PubMed  CAS  Google Scholar 

  19. Zhang, F., Strand, A., Robbins, D., Cobb, M. H., and Goldsmith, E. J. (1994) Atomic structure of the MAP kinase ERK2 at 2.3 Å resolution, Nature 367, 704–711.

    Article  PubMed  CAS  Google Scholar 

  20. Dauter, Z., Dauter, M., and Dodson, E. (2002) Jolly SAD, Acta Crystallogr D Biol Crystallogr 58, 494–506.

    Article  PubMed  Google Scholar 

  21. Goldsmith, E. J., Cobb, M. H., and Chang, C. I. (2004) Structure of MAPKs, Methods Mol Biol 250, 127–144.

    PubMed  CAS  Google Scholar 

  22. Lee, S. J., Zhou, T., and Goldsmith, E. J. (2006) Crystallization of MAP kinases, Methods 40, 224–233.

    Article  PubMed  CAS  Google Scholar 

  23. Wilsbacher, J. L., and Cobb, M. H. (2001) Bacterial expression of activated mitogen-activated protein kinases, Methods Enzymol 332, 387–400.

    Article  PubMed  CAS  Google Scholar 

  24. Bukhtiyarova, M., Northrop, K., Chai, X., Casper, D., Karpusas, M., and Springman, E. (2004) Improved expression, purification, and crystallization of p38alpha MAP kinase, Protein Expr Purif 37, 154–161.

    Article  PubMed  CAS  Google Scholar 

  25. Kallunki, T., Su, B., Tsigelny, I., Sluss, H. K., Derijard, B., Moore, G., Davis, R., and Karin, M. (1994) JNK2 contains a specificity-determining region responsible for efficient c-Jun binding and phosphorylation, Genes Dev 8, 2996–3007.

    Article  PubMed  CAS  Google Scholar 

  26. Yang, S. H., Whitmarsh, A. J., Davis, R. J., and Sharrocks, A. D. (1998) Differential targeting of MAP kinases to the ETS-domain transcription factor Elk-1, EMBO J 17, 1740–1749.

    Article  PubMed  CAS  Google Scholar 

  27. Tanoue, T., and Nishida, E. (2002) Docking interactions in the mitogen-activated protein kinase cascades, Pharmacol Ther 93, 193–202.

    Article  PubMed  CAS  Google Scholar 

  28. Zhou, T., Sun, L., Humphreys, J., and Goldsmith, E. J. (2006) Docking interactions induce exposure of activation loop in the MAP kinase ERK2, Structure 14, 1011–1019.

    Article  PubMed  CAS  Google Scholar 

  29. Zhou, T., Raman, M., Gao, Y., Earnest, S., Chen, Z., Machius, M., Cobb, M. H., and Goldsmith, E. J. (2004) Crystal structure of the TAO2 kinase domain: activation and specificity of a Ste20p MAP3K, Structure 12, 1891–1900.

    Article  PubMed  CAS  Google Scholar 

  30. Lee, T., Hoofnagle, A. N., Kabuyama, Y., Stroud, J., Min, X., Goldsmith, E. J., Chen, L., Resing, K. A., and Ahn, N. G. (2004) Docking motif interactions in MAP kinases revealed by hydrogen exchange mass spectrometry, Mol Cell 14, 43–55.

    Article  PubMed  CAS  Google Scholar 

  31. Akella, R., Moon, T. M., and Goldsmith, E. J. (2008) Unique MAP kinase binding sites, Biochim Biophys Acta 1784, 48–55.

    Article  PubMed  CAS  Google Scholar 

  32. Ohren, J. F., Chen, H., Pavlovsky, A., Whitehead, C., Zhang, E., Kuffa, P., Yan, C., McConnell, P., Spessard, C., Banotai, C., Mueller, W. T., Delaney, A., Omer, C., Sebolt-Leopold, J., Dudley, D. T., Leung, I. K., Flamme, C., Warmus, J., Kaufman, M., Barrett, S., Tecle, H., and Hasemann, C. A. (2004) Structures of human MAP kinase kinase 1 (MEK1) and MEK2 describe novel noncompetitive kinase inhibition, Nature Struct Mol Biol 11, 1192–1197.

    Article  PubMed  CAS  Google Scholar 

  33. Fischmann, T., Smith, C., Mayhood, T., Myers, J., Reichert, P., Mannarino, A., Carr, D., Zhu, H., Wong, J., Yang, R. S., Le, H., and Madison, V. (2009) Crystal structures of MEK1 binary and ternary complexes with nucleotides and inhibitors, Biochemistry 48, 2661–2674.

    Article  PubMed  CAS  Google Scholar 

  34. Garnett, M. J., and Marais, R. (2004) Guilty as charged: B-RAF is a human oncogene, Cancer Cell 6, 313–319.

    Article  PubMed  CAS  Google Scholar 

  35. Li, N., Batt, D., and Warmuth, M. (2007) B-Raf kinase inhibitors for cancer treatment, Curr Opin Investig Drugs 8, 452–456.

    PubMed  CAS  Google Scholar 

  36. Chen, Z., and Cobb, M. H. (2001) Regulation of stress-responsive mitogen-activated protein (MAP) kinase pathways by TAO2, J Biol Chem 276, 16070–16075.

    Article  PubMed  CAS  Google Scholar 

  37. Chen, Z., Hutchison, M., and Cobb, M. H. (1999) Isolation of the protein kinase TAO2 and identification of its mitogen-activated protein kinase/extracellular signal-regulated kinase kinase binding domain, J Biol Chem 274, 28803–28807.

    Article  PubMed  CAS  Google Scholar 

  38. Hanks, S. K., and Hunter, T. (1995) Protein kinases 6. The eukaryotic protein kinase superfamily: kinase (catalytic) domain structure and classification, FASEB J 9, 576–596.

    PubMed  CAS  Google Scholar 

  39. Doublie, S. (1997) Preparation of selenomethionyl proteins for phase determination, Methods Enzymol 276, 523–530.

    Article  PubMed  CAS  Google Scholar 

  40. Doublie, S. (2007) Production of selenomethionyl proteins in prokaryotic and eukaryotic expression systems, Methods Mol Biol 363, 91–108.

    Article  PubMed  CAS  Google Scholar 

  41. Hutchison, M., Berman, K. S., and Cobb, M. H. (1998) Isolation of TAO1, a protein kinase that activates MEKs in stress-activated protein kinase cascades, J Biol Chem 273, 28625–28632.

    Article  PubMed  CAS  Google Scholar 

  42. Bellizzi, J. J., Widom, J., Kemp, C. W., and Clardy, J. (1999) Producing selenomethionine-labeled proteins with a baculovirus expression vector system, Structure 7, R263–R267.

    Article  PubMed  CAS  Google Scholar 

  43. Canagarajah, B. J., Khokhlatchev, A., Cobb, M. H., and Goldsmith, E. J. (1997) Activation mechanism of the MAP kinase ERK2 by dual phosphorylation, Cell 90, 859–869.

    Article  PubMed  CAS  Google Scholar 

  44. Liu, S., Sun, J. P., Zhou, B., and Zhang, Z. Y. (2006) Structural basis of docking interactions between ERK2 and MAP kinase phosphatase 3, Proc Natl Acad Sci U S A 103, 5326–5331.

    Article  PubMed  CAS  Google Scholar 

  45. Robinson, M. J., Harkins, P. C., Zhang, J., Baer, R., Haycock, J. W., Cobb, M. H., and Goldsmith, E. J. (1996) Mutation of position 52 in ERK2 creates a nonproductive binding mode for adenosine 5′-triphosphate, Biochemistry 35, 5641–5646.

    Article  PubMed  CAS  Google Scholar 

  46. Fox, T., Coll, J. T., Xie, X., Ford, P. J., Germann, U. A., Porter, M. D., Pazhanisamy, S., Fleming, M. A., Galullo, V., Su, M. S., and Wilson, K. P. (1998) A single amino acid substitution makes ERK2 susceptible to pyridinyl imidazole inhibitors of p38 MAP kinase, Protein Sci 7, 2249–2255.

    Article  PubMed  CAS  Google Scholar 

  47. Kinoshita, T., Yoshida, I., Nakae, S., Okita, K., Gouda, M., Matsubara, M., Yokota, K., Ishiguro, H., and Tada, T. (2008) Crystal structure of human mono-phosphorylated ERK1 at Tyr204, Biochem Biophys Res Commun 377, 1123–1127.

    Article  PubMed  CAS  Google Scholar 

  48. Wang, Z., Harkins, P. C., Ulevitch, R. J., Han, J., Cobb, M. H., and Goldsmith, E. J. (1997) The structure of mitogen-activated protein kinase p38 at 2.1-Å resolution, Proc Natl Acad Sci U S A 94, 2327–2332.

    Article  PubMed  CAS  Google Scholar 

  49. Chang, C. I., Xu, B. E., Akella, R., Cobb, M. H., and Goldsmith, E. J. (2002) Crystal structures of MAP kinase p38 complexed to the docking sites on its nuclear substrate MEF2A and activator MKK3b, Mol Cell 9, 1241–1249.

    Article  PubMed  CAS  Google Scholar 

  50. Wilson, K. P., Fitzgibbon, M. J., Caron, P. R., Griffith, J. P., Chen, W., McCaffrey, P. G., Chambers, S. P., and Su, M. S. (1996) Crystal structure of p38 mitogen-activated protein kinase, J Biol Chem 271, 27696–27700.

    Article  PubMed  CAS  Google Scholar 

  51. Patel, S. B., Cameron, P. M., Frantz-Wattley, B., O’Neill, E., Becker, J. W., and Scapin, G. (2004) Lattice stabilization and enhanced diffraction in human p38 alpha crystals by protein engineering, Biochim Biophys Acta 1696, 67–73.

    Article  PubMed  CAS  Google Scholar 

  52. Bellon, S., Fitzgibbon, M. J., Fox, T., Hsiao, H. M., and Wilson, K. P. (1999) The structure of phosphorylated p38gamma is monomeric and reveals a conserved activation-loop conformation, Structure 7, 1057–1065.

    Article  PubMed  CAS  Google Scholar 

  53. Aronov, A. M., Baker, C., Bemis, G. W., Cao, J., Chen, G., Ford, P. J., Germann, U. A., Green, J., Hale, M. R., Jacobs, M., Janetka, J. W., Maltais, F., Martinez-Botella, G., Namchuk, M. N., Straub, J., Tang, Q., and Xie, X. (2007) Flipped out: structure-guided design of selective pyrazolylpyrrole ERK inhibitors, J Med Chem 50, 1280–1287.

    Article  PubMed  CAS  Google Scholar 

  54. Remenyi, A., Good, M. C., Bhattacharyya, R. P., and Lim, W. A. (2005) The role of docking interactions in mediating signaling input, output, and discrimination in the yeast MAPK network, Mol Cell 20, 951–962.

    Article  PubMed  CAS  Google Scholar 

  55. Bhattacharyya, R. P., Remenyi, A., Good, M. C., Bashor, C. J., Falick, A. M., and Lim, W. A. (2006) The Ste5 scaffold allosterically modulates signaling output of the yeast mating pathway, Science 311, 822–826.

    Article  PubMed  CAS  Google Scholar 

  56. Wan, P. T., Garnett, M. J., Roe, S. M., Lee, S., Niculescu-Duvaz, D., Good, V. M., Jones, C. M., Marshall, C. J., Springer, C. J., Barford, D., and Marais, R. (2004) Mechanism of activation of the RAF-ERK signaling pathway by oncogenic mutations of B-RAF, Cell 116, 855–867.

    Article  PubMed  CAS  Google Scholar 

  57. Zhou, T. J., Sun, L. G., Gao, Y., and Goldsmith, E. J. (2006) Crystal structure of the MAP3K TAO2 kinase domain bound by an inhibitor staurosporine, Acta Biochim Biophys Sin (Shanghai) 38, 385–392.

    Article  CAS  Google Scholar 

  58. Hu, Q., Shen, W., Huang, H., Liu, J., Zhang, J., Huang, X., Wu, J., and Shi, Y. (2007) Insight into the binding properties of MEKK3 PB1 to MEK5 PB1 from its solution structure, Biochemistry 46, 13478–13489.

    Article  PubMed  CAS  Google Scholar 

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Acknowledgments

Our thanks go to Thomas Moon and Saurabh Mendiratta for assistance in preparing Table 1. Our work in this area has been supported by an NIH grant DK46003 and a grant from the Welch Foundation, I1128.

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Correspondence to Elizabeth J. Goldsmith .

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Goldsmith, E.J., Min, X., He, H., Zhou, T. (2010). Structural Studies of MAP Kinase Cascade Components. In: Seger, R. (eds) MAP Kinase Signaling Protocols. Methods in Molecular Biology, vol 661. Humana Press, Totowa, NJ. https://doi.org/10.1007/978-1-60761-795-2_13

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  • DOI: https://doi.org/10.1007/978-1-60761-795-2_13

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