Folding algorithm base pairs

An updated recursive algorithm that minimizes free energy predicts 82.5% of phylogenetically determined base pairs from sequence in four small subunit rRNAs, four group I introns, three group II introns, and 41 tRNAs. The rRNAs and group II introns were folded in phylogenetically determined domains of no more than 500 nucleotides. 

The accuracy of the folding algorithm was tested on a database of structures that contains four small subunit ribosomal RNAs (rRNA), four Group I introns, three Group II introns, and 41 transfer RNAs (tRNA). The rRNAs and Group II introns were folded in domains of less than 500 nucleotides (5). Table III summarizes the percent of correctly predicted base pairs for this version of the algorithm and the last... 

A solution leading to a successful algorithm was recently found for the folding of ribonucleic acid (RNA) [36], Natural RNA polymers (figure C2.14.1) are mainly made up from four different bases . A, C, G and U. As with DNA, multiple hydrogen bonding favours the fonnation of G-C and A-U pairs [16, 37, 38] which leads to the appearance of certain characteristic stmctures. Loop closure is considered to be the most important folding event. 

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