Abstract
A comparative study of the solution conformation of yeast tRNAAsp and tRNAPhe was undertaken with chemical reagents as structural probes. The accessibility of phosphates was assayed with ethylnitrosourea, that of N7 positions in guanines and adenines with dimethylsulfate and diethylpyrocarbonate and that of the N3 position in cytosines with dimethylsulfate. Statistical modifications were done on end-labelled tRNAs subsequently split at the modified positions and analyzed using sequencing gel methodologies. The results were correlated with the crystal conformations of both tRNAs which were analyzed with a graphic modelling program. Three particular positions are xiscussed. In all tRNAs so far studied, including tRNAAsp and tRNAPhe, phosphate 60 is protected against alkylation, even in the isolated 3’half-molecule of tRNAAsp. This indicates a common T-loop conformation in tRNA which is correlated with the constant presence of residue C61. A similar conformation is found in turnip yellow mosaic virus tRNA-like structure. Adenosine 21 and guanosine 45, two common residues in tRNAAsp and tRNAPhe, exhibit different reactivities against diethylpyrocarbonate and dimethylsulfate. A21 is reactive in tRNAAsp and protected in tRNAPhe; for G45 the situation is inversed. As to A21, the different reactivity is correlated with the extra-loop structures in the two tRNAs; in the case of G45 the results are explained by a different stacking of A9 between G45 and residue 46.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
Preview
Unable to display preview. Download preview PDF.
References
Gauss, D.H. and Sprinzl, M.: 1983, Nucleic Acids Res., 11, pp. r55–r102.
Quigley, G.J., Wang, A., Seeman, N.C., Suddath, F.L., Rich, A., Sussmann, J.L. and Kim, S.H.: 1975, Proc. Natl. Acad. Sci. USA, 72, pp. 4866–4870.
Jack, A., Ladner, J.E. and Klug, A.: 1976, J. Mol. Biol., 108, pp. 619–649.
Stout, C.D., Mizuno, H., Rao, S.T., Swaminathan, P., Rubin, J., Brennan, T. and Sundaralingam, M.: 1978, Acta Crys. B 54, pp. 1529–1544.
Sussmann, J.L., Holbrook, S.R., Warrant, R.W., Church, G.M. and Kim, S.H.: 1978, J. Mol. Biol., 123, pp. 607–630.
Schevitz, R.W., Podjarny, A.D., Krishnamachar, N., Hugues, T.T., Sigler, P. and Sussman, J.L.: 1979, Nature, 278, pp. 188–190.
Wright, H.T., Manor, P.C, Beurling, K., Karpel, R.L. and Fresco, J.L. in Transfer RNA: Structure Properties and Recognition, pp. 145–160 (Cold Spring Harbor Monogr. Ser. 9A, New York, 1979 ).
Woo, N., Roe, B. and Rich, A.: 1980, Nature, 286, pp. 346–351.
Moras, D., Comarmond, M.B., Fischer, J., Weiss, R., Thierry, J.C., Ebel, J.P. and Giegé, R.: 1980, Nature, 286, pp. 669–674.
Haenni, A.L., Joshi, S. and Chapeville, F.: 1982, Progress in Nucleic Acids Research and Molecular Biology, 27, pp. 85–104.
Moras, D., Dock, A.C., Dumas, P., Westhof, E., Romby, P. and Giegé, R., this issue.
Giegé, R., Briand, J.P., Mengual, R., Ebel, J.P. and Hirth, L.: 1978, Eur. J. Biochem. 84, pp. 251–256.
Schimmel, P.R. and Redfield, A.G.: 1980, Ann. Rev. Biophys. Bioeng., 9, pp. 181–221.
Wrede, P., Woo, N.H. and Rich, A.: 1979, Proc. Natl. Acad. Sci. USA, 76, pp. 3289–3293.
Favorova, O.O., Fasiolo, F., Keith, G., Vassilenko, S.K. and Ebel, J.P.,: 1981, Biochemistry, 20, pp. 1006–1011.
Florentz, C., Briand, J.P., Romby, P., Hirth, L., Ebel, J.P. and Giegé, R.,: 1982, EMBO, J., 1, pp. 269–276.
Peattie, D.A.: 1979, Proc. Natl. Acad. Sci. USA, 76, pp. 1760–1764
Maxam, A.M. and Gilbert, W.: 1980, Methods in Enzymology, 65, pp. 499–459.
Leonard, N.J., Mc Donald, J.J., Henderson, R.E.L. and Reichman, M.E.: 1971, Biochemistry, 10, pp. 3335–3342.
Kusmierek, J.T. and Singer, B.: 1976, Biochim. Biophys. Acta, 142, pp. 536–538.
Vlassov, V.V., Giegé, R. and Ebel, J.P.: 1980, Eur. J. Biochem., 119, pp. 51–59.
Thiyagarayan, P. and Ponnuswamy, P.K.: 1979, Biopolymers, 18, pp. 2233–2247.
Lavery, R., Pullman, A. and Pullman, P.: 1980, Theoret. Chim. Acta (Berl.) 57, pp. 233–243.
Peattie, D.A. and Gilbert, W.: 1980, Proc. Natl. Acad. Sci. USA, 77, pp. 4679–4682.
Lavery, R., Pullman, A., Pullman, B. and de Oliveira, M.: 1980, Nucleic Acids Res., 8, pp. 5095–5111.
Jones, T.A.: 1978, J. Appl. Cryst., 11, pp. 268–272.
Gangloff, J., Keith, G., Ebel, J.P. and Dirheimer, G.: 1971, Nature New Biol., 230, pp. 125–127.
RajBhandary, U.L. and Chang, S.H.: 1968, J. Biol. Chem., 243, pp. 598–608.
Author information
Authors and Affiliations
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 1983 D. Reidel Publishing Company
About this paper
Cite this paper
Giegé, R. et al. (1983). Solution Conformation of tRNAs: Correlation with Crystal Structures. In: Pullman, B., Jortner, J. (eds) Nucleic Acids: The Vectors of Life. The Jerusalem Symposia on Quantum Chemistry and Biochemistry, vol 16. Springer, Dordrecht. https://doi.org/10.1007/978-94-009-7225-4_32
Download citation
DOI: https://doi.org/10.1007/978-94-009-7225-4_32
Publisher Name: Springer, Dordrecht
Print ISBN: 978-94-009-7227-8
Online ISBN: 978-94-009-7225-4
eBook Packages: Springer Book Archive