Analysis and comparisons of 2D and 3D fragments in Drugs using different measures of properties.
Two‐ and Three‐dimensional Rings in Drugs
Matteo Aldeghi, Shipra Malhotra, David L Selwood, and A.W. Edith Chan
Chemical Biology & Drug Design, 2014, 83, 450-461
Using small, flat aromatic rings as components of fragments or molecules is a common practice in fragment-based drug discovery and lead optimization. With an increasing focus on the exploration of novel biological and chemical space, and their improved synthetic accessibility, 3D fragments are attracting increasing interest. This study presents a detailed analysis of 3D and 2D ring fragments in marketed drugs. Several measures of properties were used, such as the type of ring assemblies and molecular shapes. The study also took into account the relationship between protein classes targeted by each ring fragment, providing target-specific information. The analysis shows the high structural and shape diversity of 3D ring systems and their importance in bioactive compounds. Major differences in 2D and 3D fragments are apparent in ligands that bind to the major drug targets such as GPCRs, ion channels, and enzymes.