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At the same time proteins change their function in evolution and therefore some functional sites are under positive selection to change in order to accommodate new functional specificities.
A substantial number of genes encoding highly variable antigens are identified to undergo adaptive selection particularly on some functional sites for evasion of host immunity [ 1, 4, 14].
Considering the combinatorics of TF binding, rather than being important in order to increase the probability of zeroing in on the right assortment of binding sites, may simply increase the probability of finding some functional sites by virtue of increasing the total number of sites being predicted.
Similar(57)
However, these unbound set of sequences are known to harbour some contaminating functional sites, which can limit the sensitivity and specificity of these networks.
It is hard to explain why for certain cancer types some of the functional sites appear to be less protected.
Figure 9 also shows that after the initial decrease in the correlations, the coupling between the ICL4 and some of the functional sites exhibits positive fluctuations in the hDATdDAT, hDAT3TT1Run1, and hDAT3TT1Run2 systems.
However, it is encouraging that key differences exist in the nucleotidase activity preferences and some amino acid functional sites of the sandfly and human apyrases (Hamasaki et al. 2009), despite the similarities of these calcium-dependent extracellular enzymes.
We expect that the gold standard is missing some, and possibly many, functional sites.
The majority of sites in a genome are assumed to evolve neutrally, whereas some fraction, fc, of functional sites are under strong selective constraint.
This exercise positioned some key residues and functional sites within a predicted highly conserved membrane fold in the human protein which were then validated experimentally in site-directed mutagenesis studies (57).
Some studies have even suggested that functional sites could be transferred with some success between proteins that share structural similarities but no evidence of homology [6,7].
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