A bacterial ATP-dependent, enhancer binding protein that activates the housekeeping RNA polymerase

Genes and Development

Volumn 12, Issue 12, 1998, Pages 1884-1893

  Bowman, William C ^a   Kranz, Robert G ^a  

^a WASHINGTON UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

ATP dependent; Enhancer; Gene regulation; Housekeeping holoenzyme

Indexed keywords

RNA POLYMERASE; SIGMA FACTOR;

ARTICLE; ENHANCER REGION; ENZYME ACTIVATION; GENE EXPRESSION REGULATION; NONHUMAN; OLIGOMERIZATION; PRIORITY JOURNAL; PROMOTER REGION; RHODOBACTER; TRANSCRIPTION INITIATION; TRANSCRIPTION REGULATION;

BACTERIA (MICROORGANISMS); ENTERIC BACTERIA; PHOTOBACTERIA; RHODOBACTER; RHODOBACTER CAPSULATUS; UNIDENTIFIED BACTERIOPHAGE;

EID: 0032525980     PISSN: 08909369     EISSN: None     Source Type: Journal    
DOI: 10.1101/gad.12.12.1884     Document Type: Article

References (56)

1. Austin, S. and R. Dixon. 1992. The prokaryotic enhancer binding protein NtrC has an ATPase activity which is phosphorylation and DNA dependent. EMBO J. 11: 2219-2228.
2. Barne, K.A., J.A. Bown, J.W. Busby, and S.D. Minchin. 1997. Region 2.5 of the Escherichia coli RNA polymerase sigma 70 subunit is responsible for the recognition of the 'extended -10' motif at promoters. EMBO J. 16: 4034-4040.
3. Bauer, C.E. 1995. Regulation of photosynthesis gene expression. In Anoxygenic photosynthetic bacteria (ed. R.E. Blankenship, M.T. Madigan, and C.E. Bauer), pp. 1221-1234. Kluwer, Dordrecht, The Netherlands.
4. Breyer, M.J., N.E. Thompson, and R.R. Burgess. 1997. Identification of the epitope for a highly cross-reactive monoclonal antibody on the major sigma factor of bacterial RNA polymerase. J. Bacteriol. 179: 1404-1408.
5. Buck, M. and W. Cannon. 1992. Specific binding of the transcription factor sigma-54 to promoter DNA. Nature 358: 422-424.
6. Busby, S. and R.H. Ebright. 1994. Promoter structure, promoter recognition, and transcription activation in prokaryotes. Cell 79: 743-746.
7. 54 to promoter DNA. Mol. Microbiol. 8: 287-298.
8. Carmona, M. and B. Magasanik. 1996. Activation of transcription at sigma 54-dependent promoters on linear templates requires intrinsic or induced bending of the DNA. J. Mol. Biol. 261: 348-356.
9. Carmona, M., F. Claverie-Martin, and B. Magasanik. 1997. DNA bending and the initiation of transcription at sigma 54-dependent bacterial promoters. Proc. Natl. Acad. Sci. 94: 9568-9572.
10. Collado-Vides, J., B. Magasanik, and J. Gralla. 1991. Control site-location and transcriptional regulation in Escherichia coli. Microbiol. Rev. 55: 371-394.
11. Cui, J., L. Ni, and R.L. Somerville. 1993. ATPase activity of TyrR, a transcriptional regulatory protein for sigma 70 RNA polymerase. J. Biol. Chem. 268: 13023-13025.
12. Cullen, P.J., D. Foster-Hartnett, K. Gabbert, and R.G. Kranz. 1994. Structure and expression of the alternative sigma factor, RpoN, in Rhodobacter capsulatus; physiological relavance of an autoactivated nifU2-rpoN superoperon. Mol Miciobiol. 11: 51-65.
13. Cullen, P.J., W.C. Bowman, and R.G. Kranz. 1996. In vitro reconstitution and characterization of the Rhodobacter capsulatus NtrB and NtrC two-componet system. J. Biol Chem. 271: 6530-6536.
14. Cullen, P.J., C.K. Kaufman, W.C. Bowman, and R.G. Kranz. 1997. Characterization of the Rhodobacter capsulatus housekeeping RNA polymerase. In vitro transcription of photosynthesis and other genes. J. Biol. Chem. 272: 27266-27273.
15. Danot, O. and O. Raibaud. 1994. Multiple protein-DNA and protein-protein interactions are involved in transcriptional activation by MalT. Mol. Microbiol. 14: 335-346.
16. Foster-Hartnett, D. and R.G. Kranz. 1992. Analysis of the promoters and upstream sequences of nifA1 and nifA2 in Rhodobacter capsulatus; activation requires NtrC but not RpoN. Mol. Microbiol. 6: 1049-1060.
17. _. 1994. The Rhodobacter capsulatus glnB gene is regulated by NtrC at tandem RpoN-independent promoters. J. Bacteriol. 176: 5171-5176.
18. Foster-Hartnett, D., P.J. Cullen, E.M. Monika, and R.G. Kranz. 1994. A new type of NtrC transcriptional activator. J. Bacteriol. 176: 6175-6187.
19. Gentry, D.R. and R.R. Burgess. 1986. The cloning and sequencing of the gene encoding the omega subunit of Escherichia coli RNA polymerase. Gene 48: 33-40.
20. Gralla, J.D. and J. Collado-Vides. 1996. Organization and function of transcription regulatory elements. In Escherichia coli and Salmonella (ed. F.C. Neidhardt) pp. 1232-1245. ASM Press, Washington D.C.
21. Gross, C., J. Hoffman, C. Ward, D. Hager, G. Burdick, H. Berger, and R. Burgess. 1978. Mutation affecting thermostability of sigma subunit of Escherichia coli RNA polymerase lies near the dnaG locus at about 66 min on the E. coli genetic map. Proc. Natl. Acad. Sci. 75: 427-431.
22. Ishihama, A. 1993. Protein-protein communication with the transcription apparatus. J. Bacteriol. 175: 2483-2489.
23. Jones, R. and R. Haselkorn. 1989. The DNA sequence of the Rhodobacter capsulatus ntrA, ntrB and ntrC gene analogues required for nitrogen fixation. Mol. & Gen. Genet. 215: 507-516.
24. Kranz, R.G. and D. Foster-Hartnett. 1990. Transcriptional regulatory cascade of nitrogen-fixation genes in anoxygenic photosynthetic bacteria: Oxygen- and nitrogen-responsive factors. Mol. Microbiol. 4: 1793-1800.
25. Kranz, R.G. and P.J. Cullen. 1995. Regulation of nitrogen fixation genes. In Anoxygenic photosynthetic bacteria (ed. R.E. Blankenship, M. Madigan, and C.E. Bauer), pp. 1191-1208. Kluwer Academic Publishing, Dordrecht, The Netherlands.
26. Kutsche, M., S. Leimkuhler, S. Angermuller, and W. Klipp. 1996. Promoters controlling expression of the alternative nitrogenase and the molybdenum uptake system in Rhodobacter capsulatus are activated by NtrC, independent of sigma 54, and repressed by molybdenum. J. Bacteriol. 178: 2010-2017.
27. 54 and the β subunit of RNA polymerase. Proc. Natl. Acad. Sci. 92: 9702-9706.
28. Lisser, S. and H. Margalit. 1993. Compilation of E. coli mRNA promoter sequences. Nucleic Acids Res. 21: 1507-1516.
29. 70 family: Sequence conservation and evolutionary relationships. J. Bacteriol. 174: 3843-3849.
30. Magasanik, B. 1996. Regulation of nitrogen utilization. In Escherichia coli and Salmonella (ed. F.C. Neidhardt), pp. 1344-1356. ASM Press, Washington D.C.
31. Malek, A.M., S. Izumo, and S.L. Alper. 1997. Quantitative densitometric analysis using a commercially available handheld cd digital camera. BioTechniques 22: 1150-1153.
32. Malhotra, A. and E. Severinova. 1996. Crystal structure of a sigma 70 subunit fragment from E. coli RNA polymerase. Cell 87: 127-136.
33. Masepohl, B. and W. Klipp. 1996. Organization and regulation of genes encoding the molybdenum nitrogenase and the alternative nitrogenase in Rhodobacter capsulatus.Arch. Microbiol. 165: 80-90.
34. Merrick, M.J. 1993. In a class of its own - the RNA polymerase sigma factor sigma 54 (sigma N). Mol. Microbiol. 10: 903-909.
35. 54 bacterial enhancer-binding protein family: Mechanism of action and phylogenetic relationship of their functional domains. J. Bacteriol. 175: 6067-6074.
36. Ninfa, A.J. and B. Magasanik. 1986. Covalent modification of the glnG product, NRI, by the glnL product, NRII, regulates the transcription of the glnALG operon in Escherichia coli. Proc. Natl. Acad. Sci. 83: 5909-5913.
37. Ninfa, A.J., L.J. Reitzer, and B. Magasanik. 1987. Initiation of transcription at the bacterial glnAp2 promoter by purified E. coli components is facilitated by enhancers. Cell 50: 1039-1046.
38. North, A.K., K.E. Klose, K.M. Stedman, and S. Kustu. 1993. Prokaryotic enhancer-binding proteins reflect eukaryote-like modularity: The puzzle of nitrogen regulatory protein C. J. Bacteriol. 175: 4267-1273.
39. Pasternak, C., W. Chen, C. Heck, and G. Klug. 1996. Cloning, nucleotide sequence and characterization of the rpoD gene encoding the primary sigma factor of Rhodobacter capsulants. Gene 176: 177-184.
40. Perez-Martin, J. and V. de Lorenzo. 1996. ATP binding to the sigma 54-dependent Activator XylR triggers a protein multimerization cycle catalyzed by UAS DNA. Cell 86:331-339.
41. Pittard, A.J. and B.E. Davidson. 1991. TyrR protein of Escherichia coli and its role as repressor and activator. Mol. Microbiol. 5: 1585-1592.
42. Popham, D.L., D. Szeto, J. Keener, and S. Kustu. 1989. Function of a bacterial activator protein that binds to transcriptional enhancers. Science 243: 629-635.
43. 54-holoenzyme. J. Bio. Chem. 256: 19510-19518.
44. Preker, P., P. Hübner, M. Schmehl, W. Klipp, and T.A. Bickle. 1992. Mapping and characterization of the promoter elements of the regulatory nif genes rpoN, nifA1 and nifA2 in Rhodobacter capsulatus. Mol. Microbiol. 6: 1035-1048.
45. Richet, E. and O. Raibaud. 1989. MalT, the regulatory protein of the Escherichia coli maltose system, is an ATP-dependant transcriptional activator. EMBO J. 8: 981-987.
46. 54-dependent nifH promoter. J. Mol. Biol. 227: 602-620.
47. Sasse-Dwight, S. and J.D. Gralla. 1988. Probing the Escherichia coli glnALG upstream activation mechanism in vivo. Proc. Natl. Acad. Sci. 85: 8934-8938.
48. Scott, J.R. 1984. Regulation of plasmid replication. Microbiol. Rev. 48: 1-23.
49. Su, W., S. Porter, S. Kustu, and H. Echols. 1990. DNA-looping and enhancer activity: Association between DNA-bound NtrC activator and RNA polymerase at the bacterial glnA promoter. Proc. Natl. Acad. Sci. 87: 5504-5508.
50. Syed, A. and J.D. Gralla. 1997. Isolation and properties of enahncer-bypass mutants of sigma 54. Mol. Microbiol. 23: 987-995.
51. Wang, J.T., A. Syed, M. Hsieh, and J.D. Gralla. 1995. Converting Escherichia coli RNA polymerase into an enhancer-responsive enzyme: Role of an amino-terminal leucine patch in sigma 54. Science 270: 992-994.
52. Wedel, A., D.S. Weiss, D. Popham, P. Droge, and S. Kustu. 1990. A bacterial enhancer functions to tether a transcriptional activator near a promoter. Science 248: 486-490.
53. Weiss, D.S., J. Batut, K.E. Klose, J. Keener, and S. Kustu. 1991. The phosphorylated form of the enhancer-binding protein NTRC has an ATPase activity that is essential for activation of transcription. Cell 67: 155-167.
54. Wilson, T.J., P. Maroudas, G.J. Howlett, and B.E. Davidson. 1994. Ligand-induced self-association of the Escherichia coli regulatory protein TyrR. J. Mol. Biol. 238: 309-318.
55. Wyman, C., I. Rombel, A.K. North, C. Bustamante, and S. Kustu. 1997. Unusual oligomerization required for activity of NtrC, a bacterial enhancer-binding protein. Science 275: 1658-1661.
56. Yang, J., S. Ganesan, J. Sarsero, and A.J. Pittard. 1993. A genetic analysis of various functions of the TyrR protein of Escherichia coli. J. Bacteriol. 175: 1767-1776.