Abstract
AbstractA theoretical analysis of the binding curves for the bifunctional peptide antibiotic echinomycin and its analogs interacting with a variety of DNAs is presented. The method is an extension of our previous work using the sequence‐generating‐function technique and has been modified to allow for consideration of cooperativity within the framework of the neighbor‐exclusion rule. Binding by both single and double intercalation is included, and the results are, in many cases, superior to the analysis based on single‐mode binding. In all cases the data are consistent with the neighbor‐exclusion principle for intercalation when analyzed with this approach, while data analysis, using a simpler method, often led to violation of this rule. Positive cooperativity is considered in the treatment of data for binding to poly(dA‐dT). Finally, we discuss the relationship between base specificity and binding site size.
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