Biased retrieval of chemical series in receptor-based virtual screening.
Using the kinases in the DUD dataset and an in-house HTS dataset from PI3K-γ, receptor-based virtual screening experiments were performed using Glide SP docking. While significant enrichments were observed for eight of the nine targets in the set, more detailed analyses highlighted that much of the early enrichment (10-80%) is the result of retrieval of a single cluster of active compounds. This biased retrieval was not necessarily due to early enrichment of the cluster containing the co-crystallized ligand. Virtual screening validation studies could thus benefit from including cluster-based analyses to assess enrichment of diverse chemotypes.
Wyeth Research, Chemical Sciences, 401 N. Middletown Road, Pearl River, NY 10965, USA. reprints@prodigy.net
Natasja
N
Brooijmans
Jason B
JB
Cross
Christine
C
Humblet
D003198:Computer Simulation; D003461:Crystallography; D030562:Databases, Protein; D015195:Drug Design; D008024:Ligands; D008958:Models, Molecular; D019869:Phosphatidylinositol 3-Kinases / Q000737:chemistry*; D000081082:Phosphoinositide-3 Kinase Inhibitors; D011485:Protein Binding; D011506:Proteins / Q000737:chemistry
D008024:Ligands; D019869:Phosphatidylinositol 3-Kinases; D000081082:Phosphoinositide-3 Kinase Inhibitors; D011506:Proteins