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The model for specificity was more complex.
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We use family 10 xylanase from Streptomyces olivaceoviridis as a model for substrate specificity of glycoside hydrolases.
It is, therefore, unknown whether the tetrapeptide is a good model for substrate specificity for 3CLpro.
As a model for the specificity of a transcription factor we use the quantitative binding data obtained for the Mnt protein of phage P22 [3].
In this paper we compare the intrinsic ability of different approaches to determine an accurate model for TF specificity from example binding sites.
10.7554/eLife.03599.024 Figure 7. Simplified schematic model for Ca2+-specificity mechanism within ABA-dependent SLAC1 activation in guard cells.
This model was tested for specificity and ability to identify NRPSs proteins in fungal genomes for which NRPSs have been well characterized (e.g., C. heterostrophus and Gibberella zeae/Fusarium graminearum) and was found to correctly identify all known NRPSs in the genomes of these species as top hits.
Since models for TF specificity are primarily generated from example binding sites, using optimal methods to estimate the specificity can be crucial in maximizing the accuracy of the predictions.
This often includes computational approaches to predict the binding sites of transcription factors, based on models for their specificity [22], [33] [36].
Models for tissue specificity of the expression of nuclear mutations impairing the enzymes required for mtDNA synthesis are proposed by several groups; they are based on interactions of distinct gene products required for this synthesis, enzymes as well as metabolites.
The logistic model for sensitivity and specificity proposed by Coughlin et al. [ 23] was used to estimate sensitivity and specificity by defining the dependent variable as the dichotomous result of the diagnostic test.
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