The features are divided into 17 categories based on the source information used including sequence, PSSM, amino-acid frequency, conservation, SS, RSA, torsion angles, DISOPRED2, DISOclust, IUPREDL, IUPREDS, B-factor, signal peptides, purification tag, globular domains, strict flexibility and non-strict flexibility.
Significant opportunities exist to reduce search and transactions costs, improve easement acceptance, and increase environmental protection via increased transaction frequency of conservation easements in this emerging market.
Average frequency of conservation of the allosteric sites examined was found to be fairly low (~ 13%), hinting at the requirement of some degree of conformational flexibility.
Most of the contact sites examined show a frequency of conservation <20%, hinting at the requirement of some degree of conformational versatility, while a limited number of amino acids exhibiting a higher level of conservation reside close to the heme core.
Highest proportion of contact sites, having a mean frequency of conservation of not more than 10%, was detected to be housed in the variable SRS-1 and SRS-2 domains, affording conformational mobility to meet the structural diversity in the bulk of substrates.
So-called "detection dogs" are being used with increasing frequency in conservation programs like this one, because their sensitive noses detect specific targets more quickly and efficiently than people can.
Within a TPR motif, eight amino acids at positions 4 (W/L/F), 7 (L/I/M), 8 (G/A/S), 11 (Y/L/F), 20 (A/S/E), 24 (F/Y/L), 27 (A/S/L), and 32 (P/K/E) have a higher frequency of conservation and these are important in maintaining the α-helical structures within a motif.
The frequency of conservation was determined both inside the region of overrepresentation as well as within a set of intergenic sequences that serve as a neutral proxy.
We have scaled the frequency of conservation by the frequency of occurance, so that only COGs which are maximally represented across the organisms in the dataset are used as markers of each cluster.
To compute the frequency of conservation among real miRNAs, the complete set of real miRNAs were split into two sets, 10% was used as a test set and its conservation at specified positions was checked in the remaining 90%.
There also might be a relationship between frequency and conservation of a motif, and the frequencies of related motifs which could give some indications for the turnover (birth and death rate) of specific motifs.
