Molecular basis for promoter selectivity of the transcriptional activator OmpR of Escherichia coli: Isolation of mutants that can activate the non-cognate kdpABC promoter

Journal of Biochemistry

Volumn 137, Issue 1, 2005, Pages 51-59

  Ohashi, Kenji ^a   Yamashino, Takafumi ^a   Mizuno, Takeshi ^a  

^a NAGOYA UNIVERSITY   (Japan)

Author keywords

E. coli; Promoter selectivity; Signal transduction; Transcription factor; Two component system

Indexed keywords

CARRIER PROTEIN; DNA; DNA BINDING PROTEIN; OUTER MEMBRANE PROTEIN C; OUTER MEMBRANE PROTEIN REGULATOR; POTASSIUM TRANSPORTER KDP; PROTEIN HISTIDINE KINASE; PROTEIN KDPE; RNA POLYMERASE; TRANSCRIPTION FACTOR; UNCLASSIFIED DRUG;

AMINO ACID SEQUENCE; ARTICLE; BACTERIAL GENE; BACTERIUM ISOLATION; BACTERIUM MUTANT; CARBOXY TERMINAL SEQUENCE; DNA FOOTPRINTING; ESCHERICHIA COLI; GENE ACTIVATION; NONHUMAN; OMPC GENE; OPERON; OSMOLARITY; PROMOTER REGION; PROTEIN DNA BINDING; PROTEIN MOTIF; SIGNAL TRANSDUCTION; STRUCTURE ANALYSIS;

ADENOSINE TRIPHOSPHATASES; BACTERIAL PROTEINS; CATION TRANSPORT PROTEINS; ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; GENE EXPRESSION REGULATION, BACTERIAL; MUTATION; PROMOTER REGIONS (GENETICS); SIGNAL TRANSDUCTION; TRANS-ACTIVATORS; TRANSCRIPTION, GENETIC;

ESCHERICHIA COLI;

EID: 17044434366     PISSN: 0021924X     EISSN: None     Source Type: Journal    
DOI: 10.1093/jb/mvi006     Document Type: Article

References (41)

1. Parkinson, J.S. and Kofoid, E.G. (1992) Communication modules in bacterial signaling proteins. Annu. Rev. Genet. 26, 71-11
2. Mizuno, T. (1998) His-Asp phosphotransfer signal transduction. J. Biochem. 123, 555-563
3. Mizuno, T. and Mizushima, S. (1990) Signal transduction and gene regulation through the phosphorylation of two regulatory components: The molecular basis for the osmotic regulation of porin genes. Mol. Microbiol. 4, 1077-1082
4. Jo, Y.-L., Nara, R, Ichihara, S., Mizuno, T., and Mizushima, S. (1986) Purification and characterization of the OmpR protein, a positive regulator involved in osmoregulatory expression of the ompF and ompC genes in Escheirchia coli. J. Biol. Chem. 261, 15252-152567
5. Mizuno, T., Kato, M., Jo, Y.-L., and Mizushima, S. (1988) Interaction of OmpR, a positive regulator, with the osmoregulated ompC and ompF genes of Escherichia coli. J. Biol. Chem. 263, 1008-1012
6. Aiba, H., Mizuno, T., and Mizushima, S. (1989) Transfer of phosphoryl group between two regulatory proteins involved in osmoregualtory expression of the ompF and ompC genes in Escherichia coli. J. Biol. Chem. 264, 8563-8567
7. Igo, M.M., Ninfa, A.J., Stock, J.B., and Silhavy, T.J. (1989) Phosphorylation and dephosphorylation of a bacterial transcriptional activator by a transmembrane receptor. Genes Dev. 3, 1725-1734
8. Forst, S., Delgado, J., and Inouye, M. (1989) Phosphorylation of OmpR by the osmosensor EnvZ modulates the expression of the ompF and ompC genes in Escherichia coli. Proc. Natl Acad. Sci. USA 86, 6052-6056
9. Kato, M., Aiba, H., Tate, S., Nishimura, Y., and Mizuno, T. (1989) Location of phosphorylation site and DNA-binding site of a positive regulator, OmpR, involved in activation of the osmoregulatory genes of Escherichia coli. FEBS Lett. 249, 168-172
10. Tate, S., Kato, M., Nishimura, Y., Arata, Y., and Mizuno, T. (1988) Identification of DNA-binding domain of a positive regulator, OmpR, involved in activation of the ompF and ompC gene of Escherichia coli. FEBS Lett. 242, 27-30
11. Igarashi, K., Hanamura, K., Makino, K., Aiba, H., Aiba, H., Mizuno, T., Nakata, A., and Ishihama, A. (1991) Functional map of the (subunit of Escherichia coli RNA polymerase: Two modes of transcription by positive factors. Proc. Natl. Acad. Sci. USA 88, 8958-8962
12. Slauch, J.M., Russo, F.D., and Silhavy, T.J. (1991) Suppressor mutations in rpoA suggest that OmpR controls transcription by direct interaction with the (subunit of RNA polymerase. J. Bacteriol. 173, 7501-7510
13. Sharif, T.R. and Igo, M.M. (1993) Mutations in the alpha subunit of RNA polymerase that affect the regulation of porin gene transcription in Escherichia coli K-12. J. Mol. Biol. 210, 281-292
14. Kato, N., Aiba, H., and Mizuno, T. (1996) Suppressor mutations in (-subunit of RNA polymerase for a mutation of the positive regulator, OmpR, in Escherichia coli. FEMS Lett. 139, 175-180
15. Mizuno, T. (1997) Compilation of all genes encoding two-component phosphotransfer signal transducers in the genome of Escherichia coli. DNA Res. 4, 161-168
16. Mizuno, T. and Tanaka, I. (1997) Structure of the DNA-binding domain of the OmpR family of response regulators. Mol. Microbiol. 24, 665-667
17. Mizuno, T., Aiba, H., Oshima, T., Mori, H., and Wanner, B. (2002) Genome-wide analysis of Escherichia coli histidine kinases In Histidine Kinases (Inouye, M. and Dutta, R., eds.) pp. 191-202, Academic Press, New York
18. Mizuno, T., Kaneko, T., and Tabata, S. (1996) Compilation of all genes encoding bacterial two-component signal transducers in the genome of the cyanobacterium, Synechocystis sp. strain PCC 6803. DNA Res. 3, 407-414
19. Hagiwara, D., Yamashino, T., and Mizuno, T. (2004) Genome-wide comparison of the His-to-Asp phosphorelay signaling components of three symbiotic genera of Rhizobia. DNA Res. 11, 57-65
20. Mizuno, T., Wurtzel, E.T., and Inouye M. (1982) Cloning of the regulatory genes (ompR and envZ) for the matrix protein of the Escherichia coli outer membrane. J. Bacteriol. 150, 1462-1466
21. Mizuno, T. and Mizushima, S. (1987) Isolation and characterization of deletion mutants of the ompR and envZ, regulatory genes for expression of the outer membrane proteins, OmpC and OmpF, of Escherichia coli. J. Biochem. 101, 387-396
22. Tokishita, S., Yamada, H., Aiba, H., and Mizuno, T. (1990) Transmembrane signal transduction and osmoregulation in Escheirhcia coli: II. The osmotic sensor, EnvZ, located in the isolated cytoplasmic membrane displays its phosphorylation and dephosphorylation abilities as to the activator protein, OmpR. J. Biochem. 108, 488-493
23. Slauch, J.M. and Silhavy, T.J. (1989) Genetic analysis of the switch that controls porin gene expression in Escherichia coli K-12. J. Mol. Biol. 210, 281-292
24. Aiba, H. and Mizuno, T. (1990) Phosphorylation of a bacterial activator protein, OmpR, by a protein kinase, EnvZ, stimutates the transcription of the ompF and ompC gene in Eschierhcia coli. FEBS Lett. 261, 19-22
25. Maeda, S., Ozawa, Y., Mizuno, T., and Mizushima, S. (1988) Stereospecific positioning of the cis-acting upstream sequence with respect to the canonical promoter is required for activation of the ompC gene by a positive regulator, OmpR, in Escherichia coli. J. Mol. Biol. 202, 433-441
26. Maeda, S. and Mizuno, T. (1988) Activation of the ompC gene by the OmpR protein in Escherichia coli: The cis-acting upstream sequence can function in both orientations with respect to the canonical promoter. J. Biol. Chem. 263, 14629-14633
27. Maeda, S. and Mizuno, T. (1990) Evidence for multiple OmpR-binding sites in the upstream activation sequence of the ompC promoter in Escheirhcia coli: A single OmpR-binding site is capable of activating the promoter. J. Bacteriol. 172, 501-503
28. Maeda, S., Takayanagi, K., Nishimura, Y., Maruyama, T., Sato, K., and Mizuno, T. (1991) Activation of the osmoregulated ompC gene by the OmpR protein in Escherichia coli: A study involving synthetic OmpR-binding sequences. J. Biochem. 110, 324-327
29. Takayanagi, K. and Mizuno, T. (1992) Activation of the osmoregulated ompF and ompC genes by the OmpR protein in Escherichia coli: A study involving chimeric promoters. J. Biochem. 112, 1-6
30. Russo, F.D., Slauch, J.M., and Silhavy, T.J. (1993) Mutations that affect separate functions of OmpR, the phosphorylated regulator of porin transcription in Escherichia coli. J. Mol. Biol. 231, 261-273
31. Rampersaud, A., Harlocher, S.J., and Inouye, M. (1994) The OmpR protein of Escherichia coli binds to sites in the ompF promoter region in a hierarchical manner determined by its degree of phosphorylation. J. Biol. Chem. 269, 12559-12566
32. Pratt, L.A. and Silhavy T.J. (1994) OmpR mutations specifically defective for transcriptional activation. J. Mol. Biol. 243, 579-594
33. Epstein, W. (1986) Osmoregulation by potassium transport in Escherichia coli. FEMS Microbiol. Rev. 39, 73-78
34. Altendorf, K., Siebers, A., and Epstein, W. (1992) The KdpA ATPase of Escherichia coli. Ann. N. Y. Acad. Sci. 671, 228-243
35. Nakashima, K., Sugiura, A., Momoi, H., and Mizuno, T. (1992) Phosphotransfer signal transduction between two regulatory factors involved in the osmoregulated kdp operon in Escherichia coli. Mol. Microbiol. 6, 1777-1784
36. Sugiura, A., Nakashima, K., Tanaka, K., and Mizuno, T. (1992) Clarification of the structural and functional features of the osmoregulated kdp operon of Escherichia coli. Mol. Microbiol. 6, 1769-1776
37. Nakashima, K., Sugiura, A., Kanamaru, K., and Mizuno, T. (1993) Signal transduction between the two components involved in the regulation of the kdpABC operon in Escherichia coli: Phosphorylation-dependent functioning of the positive regulator, KdpE. Mol. Microbiol. 7, 109-116
38. Sugiura, A., Hirokawa, K., Nakashima, K., and Mizuno, T. (1994) Dual-sensing mechanisms of the putative osmosensor, KdpD, in Escherichia coli. Mol. Microbiol. 14, 929-938
39. Tsuzuki, M., Aiba, H., and Mizuno, T. (1994) Mechanism of gene activation by the Escherichia coli positive regulator, OmpR: Phosphorylation-independent mechanism of activation by an OmpR mutant. J. Mol. Biol. 241, 607-613
40. Kato, N, Tsuzuki, M., Aiba, H., and Mizuno, T. (1995) Gene activation by the Eschierhcia coli positive regulator, OmpR: A mutational study on the DNA binding domain of OmpR. Mol. Gen. Genet. 248, 399-406
41. Kondo, H., Nakagawa, A., Nishihara, J., Nishimura, Y., Mizuno, T., and Tanaka, I. (1997) Escherichia coli positive regulator OmpR has a large loop structure at the putative RNA polymerase interaction site. Nature Struc. Biol. 4, 28-31