Sentence examples for binding models obtained from from inspiring English sources
To confirm the binding models obtained from our molecular docking studies showing that hydrogen bonds are formed between a bioflavonoid molecule and the amino acid residues Q189 and H193 of COX II (Figure 4E), we used the site-directed mutagenesis approach to verify the functional role of these two amino acid residues.
Structural information was taken from Protein Data Bank (PDB) (31) for Mtb and high-confidence structural models obtained from ModBase (32) for proteins with no known structure were used to assess the binding pockets.
Using a database of transcription factors and their binding sites TRANSFAC (7.0 public, Vertebrates), TFBS in the promoters were predicted against a background model obtained from Eukaryotic Promoter Database.
Global fits to a single-site binding model of data obtained from at least two titrations for each site were conducted using SEDPHAT (62).
Global fits to a two-site binding model of data obtained from direct and reverse titrations of each ternary complex were conducted using SEDPHAT (62).
The values of Kd for D2-receptor binding were obtained from the literature, where Emax models were used to fit D2RO and plasma drug concentration data obtained from position emission tomography studies.
The binding mode obtained from the docking simulation was further used for structure optimization of vibralactone.
The kinetic binding results obtained from the data shown in Figure 8. Kinetic parameters were determined by fitting the curves using a Langmuir model.
To identify those promoters with binding sites corresponding to binding motifs obtained from the Biobase Transfac database release 2009.3 (BIOBASE GmbH, Wolfenbuettel, Germany), we used the MotifLocator algorithm [50] with a first order background model [51].
