Abstract
Electrostatic potential profiles were calculated for σ70-specific phage T4 promoters and four consensus-like synthetic promoters. Promoters could be classified according to the presence of specific elements of the electrostatic profile in the farther upstream region (−60 to −100). A correlation was found between the kind of such specific element and the functional behavior of the promoter. A general scheme is proposed whereby the promoter activity is regulated through electrostatic interactions between the upstream region of promoter DNA and the RNA polymerase α-subunit.
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C. B. Harley and R. Reynolds, Nucl. Acids Res. 15, 2343 (1987).
A. J. Dombroski, W. A. Walter, M. T. Record, Jr., et al., Cell 70, 501 (1992).
M. Joneto, M. Gribskov, and C. A. Gross, J. Bacteriol. 174, 3843 (1992).
C. Waldburger, T. Gardella, B. Wong, and M. M. Susskind, J. Mol. Biol. 215, 267 (1990).
P. Zuber, J. Healy, H.L. Carter, et al., J. Mol. Biol. 206, 605 (1989).
A. Malhotra, E. Severinova, and S. A. Darst, Cell 87, 127 (1996).
D. Hawley and W. R. McClure, Nucl. Acids Res. 11, 2237 (1983).
M. E. Mulligan, D. K. Hawley, R. Enriken, and W. R. McClure, Nucl. Acids Res. 12, 789 (1984).
M. S. Horiwitz and L. A. Joeb, J. Biol. Chem. 263, 14724 (1988).
D. Grana, T. Gardella, and M. M. Susskind, Genetics 120, 319 (1988).
H. Bujard, M. Brenner, U. Deusche, et al., in RNA polymerase and the Regulation of Transcription, Ed. by W. S. Reznikoff et al. (Elsevier, New York, 1987), pp. 95–104.
Sh. T. Estrem, T. Gaal, W. Ross, and R.L. Gourse, Proc. Natl. Acad. Sci. USA 95, 9761 (1998).
W. Ross, K. K. Gosink, Y. Solomon, et al., Science 262, 1407 (1993).
D. Negre, C. Bonod-Bidaud, C. Oudot, et al., Nucl. Acids Res. 25, 713 (1997).
P. van Ulsen, M. Hillebrand, M. Kainz, et al., J. Bacteriol. 179, 530 (1997).
P. Jardini, J. A. Bown, M. R. Volkert, and S. J. Busby, J. Biol. Chem. 273, 13307 (1998).
S. G. Kamzolova and G. B. Postnikova, Quart. Rev. Biophys. 14, 223 (1981).
S. G. Kamzolova, N. N. Ivanova, S. S. Kamzalov, and L. V. Yakushevich, Biofizika 43, 433 (1998).
I. Perez-Martin, F. Rojo, and V. de Lorezo, Microbiol Rev. 58, 268 (1994).
S. G. Kamzolova, V. S. Sivozhelezov, A. A. Sorokin, et al., J. Biomol. Struct. Dyn. 18(3), 325 (2000).
S. G. Kamzolova, A. A. Sorokin, A. A. Osipov, and P. M. Beskaravainyi, Biofizika 50, 444 (2005).
S. G. Kamzolova, A. A. Sorokin, T. R. Dzhelyadin, et al., J. Biomol. Struct. Dyn. 23(3), 341 (2005).
S. G. Kamzolova, A. A. Sorokin, P. M. Beskaravainy, and A. A. Osypov, in Bioinformatics of genome regulation and structure II, Ed. by N. Kolchanov, R. Hofestaedt, and Z. Milanesi (Springer Science Business Media Inc., 2006), pp. 67–74.
T. Ellinger, D. Behnke, H. Bujard, and J. D. Gralla, J. Mol. Biol. 239, 455 (1994).
T. Ellinger, D. Behnke, R. Knaus, et al., J. Mol. Biol. 239, 466 (1994).
H. D. Liebig and W. Ruger, J. Mol. Biol. 208(4), 517 (1989).
T. Koch, A. Randonikiene, K. Wilkens, and W. Ruger, Gene Expr. 4(4–5), 253 (1995).
S. G. Kamzolova, Biokhimiya 61, 1128 (1996).
S. G. Kamzolova and O. N. Ozoline, Dokl. Akad. Nauk SSSR 287, 731 (1986).
S. G. Kamzolova, Biokhimiya 60, 387 (1995).
S. G. Kamzolova, N. N. Ivanova, A. A. Sorokin, and S. S. Kamzalov, Dokl. Ross. Akad. Nauk 372, 257 (2000).
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Original Russian Text © S.G. Kamzolova, A.A. Osipov, P.M. Beskaravainyi, T.R. Dzhelyadin, A.A. Sorokin, 2007, published in Biofizika, 2007, Vol. 52, No. 2, pp. 228–236.
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Kamzolova, S.G., Osipov, A.A., Beskaravainyi, P.M. et al. Regulation of promoter activity through electrostatic interactions with RNA polymerase. BIOPHYSICS 52, 172–178 (2007). https://doi.org/10.1134/S0006350907020054
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DOI: https://doi.org/10.1134/S0006350907020054