Sentence examples for by predicting the binding from inspiring English sources
We validate HierDock by predicting the binding site of 11-cis-retinal in the crystal structure of bovine rhodopsin.
Molecular docking is an in silico tool that predicts how a ligand (substrate or drug candidate) interacts with a receptor usually by predicting the binding free energy and the three-dimensional structure of the ligand-receptor complex.
The proposed method was tested by predicting the binding affinity landscape of Gcn4p in Saccharomyces cerevisiae using datasets from HiTS-FLIP.
Most of these tools assess the T cell epitope content in proteins by predicting the binding specificities of peptide fragments from the protein of interest to HLA class II receptors.
Briefly, the force field parameters derived in FFNCAA and SwissSideChain were validated by predicting the binding free energy of a set of analogs and correlating it with experimental values.
Likelihood scores are calculated via criteria from empirically-validated sRNA-target pairs, or by predicting the binding affinity of the sRNA, given the native secondary structure of the target.
Similar analyses were done previously by first predicting the binding sites of the pair of motifs, and then analyzing the co-occurrence pattern of two types of sites [27], [28].
Protein-encoding regions with a minimum size of thirty amino acids were selected and the annotation manually curated by predicting the ribosomal binding site and the start and stop codons using the visualization software, Artemis (v15.0.0.1) [ 48].
We further studied possible overlap between TFBSs and the SNPs by predicting the transcription factor (TF) binding to the SNP regions.
The binding site arrangement obtained from this investigation was validated by mutagenesis and used to predict the binding modes of six other ggTas2r1 agonists.
In contrast, our method predicts the binding sites by considering the binding conformations of the query ligand.
