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Nucleic Acids Research, 1993, Vol. 21, No. 8 1941-1947
© 1993

MOLECULAR BIOLOGY

Mosaic tile model for tRNA-enzyme recognition

Sergey V. Steinberg1,2,* and Lev L. Kisselev1

1Engelhardt Institute of Molecular Biology Vavilova 32, Moscow 117984, Russia 2Département de Biochimie, Université de Montréal Montréal, Québec H3C 3J7, Canada

* To whom correspondence should be addressed at Départemem de Biochimie, Université de Montréal, Montréal, Quebec H3C 3J7, Canada

Received December 7, 1992. Revised March 15, 1993. Accepted March 15, 1993.

An improved algorithm was elaborated to analyse tRNA interaction with amlnoacyl-tRNA synthetase based on analysis of tRNA sequences. The fundamental element defining the interaction between the tRNA and the synthetase is not a single nucleotide but a nucleotide combination named a tile which comprises of a given nucleotide and its neighbours as they are defined by the tertiary structure of the molecule. Informational content of each tile is calculated as its probability to occur exclusively in a set of cognate tRNAs. Based on this algorithm the identity sites of E.coil tRNAAls and tRNAGin were determined. The results are in a good agreement with the biochemical data and provide new Information about identity sites of these tRNAs.


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