The hypermodified Y base electrostatic contribution to the energetics of the codon-anticodon pairing in tRNAPhe

Journal of Molecular Structure: THEOCHEM

Volumn 427, Issue 1-3, 1998, Pages 15-23

  Werneck, Araken S ^a   Neto, Marçal De O ^a   Maia, Elaine R ^a  

^a UNIVERSITY OF BRASILIA   (Brazil)

Author keywords

Codon anticodon pairing; Hypermodified Y base; Molecular electrostatic potential; tRNAPhe

Indexed keywords

EID: 0002233692     PISSN: 01661280     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0166-1280(97)00198-X     Document Type: Article

References (32)

1. A. Rich, Acc. Chem. Res. 10 (1977) 388.
2. S.H. Kim, G.J. Quigley. F.L. Suddath, A. Rich, Proc. Nat. Acad. Sci USA 68 (1971) 841.
3. T. Ichikawa, M. Sundaralingam, Nature (London), New Biol. 236 (1972) 174.
4. S.H. Kim, G. Quigley, F.L. Suddath, A. McPherson, D. Sneden, J.J. Kim, J. Weinzierl, A. Rich, J. Mol. Biol. 75 (1973) 429.
5. G.J. Quigley, A. Rich, Science 194 (1976) 796.
6. J.L. Sussman, J.B. Holbrook, R.W. Warrant, G.M. Church, S.H. Kim, J. Mol. Biol. 123 (1978) 607.
7. E. Westhof, M. Sundaralingham, Biochemistry 25 (1986) 4868.
8. E. Westhof, P. Dumas, D. Moras, Acta Crystallogr., Sect. A. 44 (1988) 112.
9. R. Lavery, A. Pullman, B. Pullman, Nucleic Acids Res. 8 (1980) 1061.
10. R. Lavery, M. deOliveira, B. Pullman, J. Comput. Chem. 1 (1980) 301.
11. R. Lavery, A. Pullman, B. Pullman, M. deOliveira, Nucleic Acids Res. 8 (1980) 5095.
12. M.S. deGiambiagi, M. Giambiagi, D.M.S. Esquivel, Z. Naturforsch. 38 (1983) 621.
13. T.A. McCloskey, S. Nishimura, Acc. Chem. Res. 10 (1977) 403.
14. P.A. Limbach, P.F. Crain, J.A. McCloskey, Nucleic Acids Res. 22 (1994) 2183.
15. R.K. Wilson, B.A. Roe, Proc. Nat. Acad. Sci. USA 86 (1989) 409.
16. J. Langlet, P. Claverie, F. Caron, J.C. Boeuve, Int. J. Quantum Chem. 19 (1981) 299.
17. Brookhaven Protein Data Bank, Cambridge University Press, New York, USA.
18. D.H.J. Mackay, A.J. Cross, A.T. Hagler, in: G. Fasmans (Ed.), Prediction of Protein Structure and the Principles of Protein Conformation, Plenum Press, New York, 1989, pp. 317-358.
19. A.T. Hagler, in: J. Meienhofer (Ed.), Conformation in Biology and Drug Design, Vol. 7 The Peptides, Academic Press, New York, 1985, pp. 213-299.
20. U. Dinur, A.T. Hagler, in: K.B. Lipkwowitz and D.B. Boyd (Eds), Review of Computational Chemistry, Vol. 2, VCH, New York, 1991, Ch. 4.
21. A.T. Hagler, C.S. Ewing, Comp. Phys. Commun. 84 (1994) 131.
22. J.R. Maple, U. Dinur, A.T. Hagler, Proc. Nat. Acad. Sci 85 (1988) 5350.
23. J.R. Maple, M.J. Hwang, T.P. Stockfisch, U. Dinur, M. Waldman, C.S. Ewig, A.T. Halgler, J. Comput. Chem. 15 (1994) 162.
24. Insight II, Biopolymers and Discover, BIOSYM/Molecular Simulations, San Diego, CA, USA.
25. D.H.J. Mackay, A.J. Cross, A.T. Hagler, in: G.D. Fasman (Ed.), Prediction of Protein Structure and the Principles of Protein Conformation, Plenum Press, New York and London, 1990, Ch. 7, pp. 317-358.
26. E. Scrocco, J. Tomasi, Top. Current Chem. 42 (1973) 91.
27. E. Scrocco, J. Tomasi, Adv. Quant. Chem. 11 (1978) 115.
28. B. Pullman, in: J.L. Rivail (Ed.), Modelling of Molecular Structure and Properties, Proceedings of International Meeting, Nancy, France; Studies in Physical and Theoretical Chemistry, Vol. 71, Elsevier Science Publishers B.V., Amsterdam, 1990, pp. 1-15.
29. A. Desideri, F. Polticelli, E.M. Falconi, J. Mol. Struct. (Theochem) 256 (1992) 153.
30. M.W. Schmidt, K.K. Baldridge, J.A. Bootz, S.T. Elbert, M.S. Gordon, J.H. Jensen, S. Koseki, N. Matsunaga, K.A. Nguyen, S.J. Su, T.L. Windus, M. Dupuis, J.A. Montgomery, J. Comput. Chem. 14 (1993) 1347.
31. A. Goldblum, D. Perahia, A. Pullman, Int. J. Quantum Chem. 15 (1979) 121.
32. D.W.E. Smith, A.L. Mcnamara, J.F. Mushinsky, D.L. Hatfield, J. Biol. Chem. 260 (1985) 147.