Abstract
THE three-dimensional structure of RNase H from Escherichia coli was determined at 1.8 Å resolution by X-ray crystallography. The enzyme was found to belong to the α + β class of structures, consisting of two distinct domains. The structure implies a possible region interacting with a DNA–RNA hybrid. The Mg2+-binding site essential for activity is located near a cluster of four acidic amino acids— one glutamic and three aspartic acid residues. These residues are completely conserved in the homology alignment of sequences of RNase H and reverse transcriptases from retro viruses and retrovirus-like entities1,2. The structural motif of β strands around the Mg2+-binding site has similarities to that in DNase I3–6.
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References
Johnson, M. S., McClure, M. A., Feng, D. F. Gray, J. & Doolittle, R. F. Proc. natn. Acad. Sci. U.S.A. 83, 7648–7652 (1986).
Doolittle, R. F., Feng, D.-F., Johnson, M. S. & McClure, M. A. Quart. Rev. Biol. 64, 1–30 (1989).
Suck, D., Oefner, C. & Kabsch, W. EMBO J. 3, 2423–2430 (1984).
Suck, D. & Oefner, C. Nature 321, 620–625 (1986).
Suck, D., Lahm, A. & Oefner, C. Nature 332, 464–468 (1988).
Oefner, C. & Suck, D. J. molec. Biol. 192, 605–623 (1986).
Crouch, R. J. & Dirksen, M.-L. in Nuclease (eds Linn, S. M. & Roberts, R. J.) 211–241 (Cold Spring Harbor Laboratory, New York, (1982).
Itoh, T. & Tomizawa, J. Proc. natn. Acad. Sci. U.S.A. 77, 2450–2454 (1980).
Dasgupta, S., Masukata, H. & Tomizawa, J.-I. Cell 51, 1113–1122 (1987).
Kanaya, S. & Crouch, R. J. J. biol. Chem. 258, 1276–1281 (1983).
Varmus, H. Science 240, 1427–1435 (1988).
Kanaya, S. et al. J. biol. Chem. 264, 11546–11549 (1989).
Nishikawa, K., Ooi, T., Isogi, Y. & Saito, N. J. Phys. Soc. Jpn. 32, 1331–1337 (1972).
Kabsch, W. & Sander, C. Biopolymers 22, 2577–2637 (1983).
Levitt, M. & Chothia, C. Nature 261, 552–557 (1976).
Matthews, B. W. Nature 335, 294–295 (1988).
Nakamura, H. & Nishida, S. J. phys. Soc. Japan. 56, 1609–1622 (1987).
Richards, F. M. & Wyckoff, H. W. in The Enzymes, Vol. 4 (ed. Boyer, P. D.) 647–806 (Academic, New York, 1971).
Carlisle, H. C., Palmer, R. A., Mazmudar, K. S., Gorinsky, B. A. & Yeates, D. G. R. J. molec. Biol. 85, 1–18 (1974).
Arni, R., Heinemann, U., Tokuoka, R. & Saenger, W. J. biol. Chem. 263, 15358–15368 (1988).
Sugio, S., Amisaki, T., Onishi, H. & Tomita, K.-I. J. Biochem. 103, 354–366 (1988).
Mauguen, Y. et al. Nature 297, 162–164 (1982).
Arnone, A. et al. J. biol. Chem. 246, 2302–2316 (1971).
Steigemann, W. thesis, Technische Univ., München (1974).
Jones, T. A. J. appl. Crystallogr. 11, 268–272 (1978).
Hendrickson, W. A. & Konnert, J. H. in Computing in Crystallography (eds Diamond, R., Ramaseshan, S. & Venkatesan, K.) 13.01–13.23 (National Academy of Sciences India, Bangalore, India, 1980).
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Katayanagi, K., Miyagawa, M., Matsushima, M. et al. Three-dimensional structure of ribonuclease H from E. coli. Nature 347, 306–309 (1990). https://doi.org/10.1038/347306a0
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DOI: https://doi.org/10.1038/347306a0
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