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Escherichia coli positive regulator OmpR has a large loop structure at the putative RNA polymerase interaction site

The C-terminal DNA-binding domain of OmpR, a positive regulator involved in osmoregulation expression of the ompF and ompC genes in Escherichia coli, has a helix-turn-helix variant motif. The ‘turn’ region, consisting of 11 residues, forms an RNA polymerase contact site.

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References

  1. Van Alphen, W. & Lugtenberg, B. J. Bacteriol. 131, 623–630 (1977).

    CAS  Google Scholar 

  2. Hall, M.N. & Silhavy, T.J. J. Mol. Biol. 151, 1–15 (1981).

    Article  CAS  PubMed  Google Scholar 

  3. Mizuno, T. & Mizushima, S. J. Biochem. 101, 387–396 (1987).

    Article  CAS  PubMed  Google Scholar 

  4. Jo, Y.-L., Nara, F., Ichihara, S., Mizuno, T. & Mizushima, S. J. Biol. Chem. 261, 15252–15256 (1986).

    CAS  PubMed  Google Scholar 

  5. Norioka, S., Ramakrishnan, G., Ikenaka, K. & Inouye, M. J. Biol. Chem. 261, 17113–17119 (1986).

    CAS  PubMed  Google Scholar 

  6. Aiba, H., Mizuno, T. & Mizushima, S. J. Biol. Chem. 264, 8563–8567 (1989).

    CAS  PubMed  Google Scholar 

  7. Aiba, H., Nakasai, F., Mizushima, S. & Mizuno, T. J. Biol. Chem. 264, 14090–14094 (1989).

    CAS  PubMed  Google Scholar 

  8. Forst, S., Delgado, J. & Inouye, M. Proc. Natl. Acad. Sci. USA 86, 6052–6056 (1989).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  9. Igo, M.M., Ninfa, A.J. & Silhavy, T.J. Genes Dev. 3, 598–605 (1989).

    Article  CAS  PubMed  Google Scholar 

  10. Aiba, H., Nakasai, F., Mizushima, S. & Mizuno, T. J. Biochem. (Tokyo) 106, 5–7 (1989).

    Article  CAS  PubMed  Google Scholar 

  11. Parkinson, J.S. & Kofoid, E.C. Annu. Rev. Genet. 26, 71–112 (1992).

    Article  CAS  PubMed  Google Scholar 

  12. Stock, J.B., Ninfa, A.J. & Stock, A.M. Microbiol. Rev. 53, 450–490 (1989).

    CAS  PubMed  PubMed Central  Google Scholar 

  13. Delgado, J., Forst, S., Harlocker, S. & Inouye, M. Mol. Microbiol. 10, 1037–1047 (1993).

    Article  CAS  PubMed  Google Scholar 

  14. Kato, M., Aiba, H., Tate, S., Nishimura, Y. & Mizuno, T. FEBS Lett. 249, 168–172 (1989).

    Article  CAS  PubMed  Google Scholar 

  15. Tsung, K., Brissette, R.E. & Inouye, M. J. Biol. Chem. 264, 10104–10109 (1989).

    CAS  PubMed  Google Scholar 

  16. Kondo, H., Miyaji, T., Suzuki, M., Tate, S., Mizuno, T., Nishimura, Y. & Tanaka I. J. Mol. Biol. 235, 780–782 (1994).

    Article  CAS  PubMed  Google Scholar 

  17. Hendrickson, W.A. Science 254, 51–58 (1991).

    Article  CAS  PubMed  Google Scholar 

  18. Brennan, R.G. Cell. 74, 773–776 (1993).

    Article  CAS  PubMed  Google Scholar 

  19. Suzuki, M. & Brenner, S.E. FEBS Lett. 372, 215–221 (1995).

    Article  CAS  PubMed  Google Scholar 

  20. McKay, D.B. & Steitz, T.A. Nature 290, 744–749 (1981).

    Article  CAS  PubMed  Google Scholar 

  21. Schultz, S.C., Shields, G.C. & Steitz, T.A. Science 253, 1001–1007 (1991).

    Article  CAS  PubMed  Google Scholar 

  22. Fogh, R.H. et al. EMBO J. 13, 3936–3944 (1994).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  23. Wilson, K.P., Shewchuk, L.M., Brennan, R.G., Otsuka, A.J. & Matthews, B.W. Proc. Natl. Acad. Sci. USA 89, 9257–9261 (1992).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  24. Clark, K.L., Halay, E.D., Lai, E. & Burley, S.K. Nature 364, 412–420 (1993).

    Article  CAS  PubMed  Google Scholar 

  25. Harrison, C.J., Bohm, A.A. & Nelson, H.C.M. Science, 263, 224–227 (1994).

    Article  CAS  PubMed  Google Scholar 

  26. Ramakrishnan, V., Finch, J.T., Graziano, V., Lee, P.L. & Sweet, R.M. Nature 362, 219–223 (1993).

    Article  CAS  PubMed  Google Scholar 

  27. Suzuki, M. & Makino, K. Proc. Japan Acad. 71, 132–137 (1995).

    Article  Google Scholar 

  28. Harrison, S.C. & Aggarwal, A.K. Annu. Rev. Biochem. 59, 993–969 (1990).

    Article  Google Scholar 

  29. Anderson, W.F., Ohlendorf, D.H., Takeda, Y. & Matthews, B.W. Nature 290, 754–758 (1981).

    Article  CAS  PubMed  Google Scholar 

  30. Pabo, C.O. & Lewis, M. Nature 298, 443–447 (1982).

    Article  CAS  PubMed  Google Scholar 

  31. Pabo, C.O. & Sauer, R.T. Annu. Rev. Biochem. 53, 293–321 (1984).

    Article  CAS  PubMed  Google Scholar 

  32. Ogata, K. et al. Proc. Natl. Acad. Sci. USA 89, 6428–6432 (1992).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  33. Assa-Munt, N., Mortishire-Smith, R.J., Aurora, R., Herr, W. & Wright, P.E. Cell 73, 193–205 (1993).

    Article  CAS  PubMed  Google Scholar 

  34. Igarashi, K. et al. Proc. Natl. Acad. Sci. USA 88, 8958–8962 (1991).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  35. Sharif, T.R. & Igo, M.M. J. Bacteriol. 175, 5460–5468 (1993).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  36. Slauch, J.M., Russo, F.D. & Silhavy, T.J. J. Bacteriol. 173, 7501–7510 (1991).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  37. Pratt, L.A. & Silhavy, T.J. J. Mol. Biol. 243, 579–594 (1994).

    Article  CAS  PubMed  Google Scholar 

  38. Makino, K. et al. J. Mol. Biol. 259, 15–26 (1996).

    Article  CAS  PubMed  Google Scholar 

  39. Kato, N., Tsuzuki, M., Aiba, H. & Mizuno, T. Mol. Gen. Genet. 248, 399–406 (1995).

    Article  CAS  PubMed  Google Scholar 

  40. Suzuki, M. & Yagi, N. Proc. Natl. Acad. Sci. USA. 91, 12357–12361 (1994).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  41. Otting, G. et al. EMBO J. 9, 3085–3092 (1990).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  42. Kato, N., Aiba, H. & Mizuno, T. FEMS Microbiol. Lett. 139, 175–180 (1996).

    CAS  PubMed  Google Scholar 

  43. Tate, S., Kato, M., Nishimura, Y., Arata, Y. & Mizuno, T. FEBS Lett. 242, 27–30 (1988).

    Article  CAS  PubMed  Google Scholar 

  44. Kato, M., Aiba, H., Tate, S., Nishimura, Y. & Mizuno, T. FEBS Lett. 249, 168–172 (1989).

    Article  CAS  PubMed  Google Scholar 

  45. Nakashima, K., Kanamaru, K., Aiba, H. & Mizuno, T. J. Biol. Chem. 266, 10775–10780 (1991).

    CAS  PubMed  Google Scholar 

  46. Tsuzuki, M., Aiba, H. & Mizuno, T. J. Mol. Biol. 242, 607–613 (1994).

    Article  CAS  PubMed  Google Scholar 

  47. Sakabe, N. et al. Rev. Sci. Instrum. 66, 1276–1281 (1995).

    Article  CAS  Google Scholar 

  48. Miyahara, J., Takahashi, K., Amemiya, Y., Kamiya, N. & Satow, Y. Nucl. Instrum. Meths. A246, 572–578 (1985).

    Google Scholar 

  49. Otwinowski, Z. in Proceeding of the CCP4 Study Weekend (eds. Sawyer, L., Isaacs, N. & Bailey, S.) 56–62 (Science and Engineering Research Council, Daresbury Laboratory, Daresbury, UK, 1993).

    Google Scholar 

  50. Collaborative computational project, number 4. Acta Crystallogr. D50, 760–763 (1994).

  51. Otwinowski, Z. in Proceeding of the CCP4 Study Weekend (eds. Wolf, W., Evans, P.R. & Leslie, A.G.W.) 80–86 (Science and Engineering Research Council, Daresbury Laboratory, Daresbury, UK, 1991).

    Google Scholar 

  52. Cowtan, K.D. & Main, P. Acta Crystallogr. D52 43–48 (1996).

    CAS  Google Scholar 

  53. Abrahams, J.P. & Leslie, A.G.W. Acta Crystallogr. D52, 30–42 (1996).

    CAS  Google Scholar 

  54. Jones, T.A., Zou, J.Y., Cowan, S.W. & Kjeldgaard, M. Acta Crystallogr. A47, 110–119 (1991).

    Article  CAS  Google Scholar 

  55. Brünger, A.T. XPLOR Version 3.1 Manual, Yale University, USA (1993).

    Google Scholar 

  56. Murshudov, G.N., Dodson, E.J. & Vagin, A.A. in Proceeding of the CCP4 Study Weekend (eds. Dodson, E., Moore, M., Ralph, A. & Bailey, S.) 93–104 (Council for the Central Laboratory of the Research Councils, Daresbury Laboratory, Daresbury, UK, 1996).

    Google Scholar 

  57. Engh, R.A. & Huber, R. Acta Crystallogr. A47, 392–400 (1991).

    Article  CAS  Google Scholar 

  58. Brünger, A.T. Nature 355, 472–475 (1992).

    Article  PubMed  Google Scholar 

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Kondo, H., Nakagawa, A., Nishihira, J. et al. Escherichia coli positive regulator OmpR has a large loop structure at the putative RNA polymerase interaction site. Nat Struct Mol Biol 4, 28–31 (1997). https://doi.org/10.1038/nsb0197-28

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