Statistical relationships among docking scores for different protein binding sites.
This report describes the existence of statistical relationships among scores computed with the DOCK program for a library of small molecules and a panel of protein binding sites. Multivariate relationships are observed in docking scores computed for a constant set of ligands in different binding sites of proteins that are dissimilar in structure and function. The structural basis for the correlations found among scores is analyzed in terms of size, shape and charge characteristics of the binding sites considered. Interestingly, these results parallel a growing body of evidence demonstrating the promiscuous behavior of small molecules in their interactions with macromolecules that could have an impact in future efforts in drug design.
Koehler
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Computational Chemistry Laboratory, Telik, Inc., South San Francisco, CA 94080, USA. koehler@telik.com
Villar
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D001665:Binding Sites; D015195:Drug Design; D008024:Ligands; D046911:Macromolecular Substances; D008958:Models, Molecular; D015999:Multivariate Analysis; D011485:Protein Binding; D011487:Protein Conformation; D011506:Proteins / Q000737:chemistry* / Q000378:metabolism*; D012984:Software; D055672:Static Electricity
D008024:Ligands; D046911:Macromolecular Substances; D011506:Proteins