Computer building and folding of fictitious transfer-RNA sequences

Biochimie
P Marlière

Abstract

In order to evaluate the common occurrence with which polynucleotides may adopt the cloverleaf configuration, 1150 random sequences were computer built and folded into their most stable secondary structure. Various constraints modulated the generation of the sequences: i) the base-pairing pattern, ii) the nucleotide composition, iii) the presence of assigned bases (modified or not) at certain sites, and iv) the chain length. In many cases, artificial tRNAs appear to require a more complex organization than a cloverleaf pairing scheme to achieve, as do natural molecules, the corresponding secondary structure. Moreover, the preferred foldings of sequences from 50 to 90 nucleotide long without an imposed pairing pattern usually contain two rather than three hairpin-loops. Implications concerning the emergence and the evolution of the protein-synthesis apparatus are discussed.

References

Jan 1, 1976·Annual Review of Biochemistry·A Rich, U L RajBhandary
Jan 1, 1979·Annual Review of Biochemistry·J Abelson
Sep 1, 1978·Proceedings of the National Academy of Sciences of the United States of America·J J Hopfield
Jan 1, 1979·Nucleic Acids Research·A C LuiM Smith
Jul 13, 1976·Biochemistry·M SprinzlV A Erdmann
Jun 1, 1975·Proceedings of the National Academy of Sciences of the United States of America·J M Pipas, J E McMahon
Dec 1, 1968·Journal of Molecular Biology·L E Orgel
Apr 1, 1981·Proceedings of the National Academy of Sciences of the United States of America·D A Peattie, W Herr
Jan 11, 1982·Nucleic Acids Research·J P Dumas, J Ninio
Jan 10, 1981·Nucleic Acids Research·G AkusjärviU Pettersson
Dec 21, 1981·FEBS Letters·D AlkemaT Neilson

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Citations

Dec 7, 2007·Journal of Molecular Evolution·Feng-Jie Sun, Gustavo Caetano-Anollés
Jan 1, 1996·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·M A HuynenP F Stadler
Apr 18, 1997·Journal of Molecular Biology·M HuynenD Konings

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