Tagging a cysteine residue at the terminals not only enhances the binding propensity of the resultant peptide with the silver nanoparticle, but also increases its antimicrobial property against several pathogenic bacterial strains including K. pneumoniae.
When using this coarse distinction, the results presented here fully agree with the earlier conclusions that on average the lipid binding propensity of the 100 N-terminal residues is higher than for the C-terminal tail, with little impact from the disease mutations.
To further evaluate the DNA binding propensity of these mutant proteins, we assayed HSF1 DNA binding at the IL-6 promoter where HSF1 has previously been shown to bind constitutively, even in the absence of stress (Takii et al. 2010).
The maximum discriminant function score across all windows in a protein can be used as the CaM binding propensity of that protein.
We have computed the normalized binding propensity of all the 20 amino acid residues in different organisms (E. coli, H. sapiens, S. cerevisiae, thermophiles and archaea) and the results are shown in Figure 1.
Indirect Binding Assay: The aluminum binding propensity of each sorting round, a population consisting of a single isolate or the empty display vector (negative control) were compared by quantifying the number of cells recovered from the aluminum surface.
On the other hand, Ser, Tyr, Gln, Asn, Lys, Arg and His have the binding propensity of more than 2 in all the organisms showing their preferences at the interface.
We observed that the residues Ala, Val, Leu, Ile, Asp and Glu with the majority of hydrophobic residues have the normalized binding propensity of less than 2 and hence are not preferred at the binding sites.
We have evaluated the influence of RNA base sequence on the binding propensity of amino acid residues in nucleotides.
Once the second stage SVM has been trained, the binding propensity of a test protein can be estimated by first finding its most likely binding site window using MI-1 SVM, and then evaluating the discriminant function value of the second stage SVM for the chosen window.
Interestingly, we noticed few differences in the binding propensity of residues among different organisms.
