Mosaic tile model for tRNA-enzyme recognition.
An improved algorithm was elaborated to analyse tRNA interaction with aminoacyl-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. coli tRNA(Ala) and tRNA(Gln) were determined. The results are in a good agreement with the biochemical data and provide new information about identity sites of these tRNAs.
Steinberg
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SV
Engelhardt Institute of Molecular Biology, Moscow, Russia.
Kisselev
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LL
D000465:Algorithms; D000596:Amino Acids / Q000378:metabolism; D000604:Amino Acyl-tRNA Synthetases / Q000378:metabolism*; D004926:Escherichia coli / Q000235:genetics; D008957:Models, Genetic; D009711:Nucleotides / Q000378:metabolism; D012329:RNA, Bacterial / Q000378:metabolism; D012343:RNA, Transfer / Q000378:metabolism*; D012344:RNA, Transfer, Ala / Q000378:metabolism; D012351:RNA, Transfer, Gln / Q000378:metabolism
D000596:Amino Acids; D009711:Nucleotides; D012329:RNA, Bacterial; D012344:RNA, Transfer, Ala; D012351:RNA, Transfer, Gln; D012343:RNA, Transfer; D000604:Amino Acyl-tRNA Synthetases