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Equilibrium dissociation constants (Kd's) and number of binding sites are determined by regression analyses of data.
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The binding strength and the number of binding sites were determined at different ionic strengths.
Furthermore, the inhibitory, divalent, metal ion binding sites were determined by NMR techniques.
Putative Smad binding sites were determined in the 4 kb upstream sequence from the transcription start site of mouse Olig2 using MatInspector and rVista2 [37], [37].
Locations of miRNA binding sites were determined using the mRNA sequence of mouse Mitf 3'UTR and are numbered starting at the first nucleotide after the stop codon.
Overlap with p63 binding sites was determined using the "bedtools intersect" command.
The available surface ligand binding sites were determined with [H]granisetron.
The genomic region to be examined for transcription factor binding sites was determined using BLAST2 [ 50] and FirstEF [ 51].
C. glutamicum IpsA bound strongly to the C. diphtheriae promoters DIP0115 and DIP0021 and the binding sites were determined.
Step 4. Similarity between two binding sites is determined through the combination of geometrical fit, residue conservation and physiochemical similarity.
Conservation of the binding sites was determined using web-based CEAS software of the Cistrome/Galaxy platform [ 37].
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