BMS 794833 activation loop contains the highly conserved Asp Phe Gly motif

catalytic BMS 794833 activity of most kinases when phosphorylated. The , the conformation of which is directly coupled to Corresponding author. Department of Chemistry, University of Washington, Seattle, WA, 98195, Phone: 206 543 1653, [email protected]. NIH Public Access Author Manuscript ACS Chem Biol. Author manuscript, available in PMC 2011 January 15. Published in final edited form as: ACS Chem Biol. 2010 January 15, 5: 121 138. doi:10.1021/cb9002656. NIH PA Author Manuscript NIH PA Author Manuscript NIH PA Author Manuscript the activation state of the kinase. The aspartate residue in the DFG motif of active kinases faces into the ATP binding cleft, while the phenylalanine residue is buried in a hydrophobic pocket adjacent to this site.
While the active conformation of most kinases are very similar due to the necessity of utilizing the same co factor, ATP, as a substrate, their inactive conformations are more heterogeneous in nature. All clinically approved small molecule inhibitors of protein kinases, except for compounds that target mTOR, and most compounds in late stage clinical trials target AT7867 some portion of the ATP binding cleft. Most of these inhibitors recognize the active conformation of their kinase target and make a characteristic set of interactions with the ATP binding cleft . Type I inhibitors tend to make similar hydrophobic contacts as the adenine ring of ATP and form one to three hydrogen bonds with the backbone amides of the hinge region.
Affinity and selectivity is often achieved through specific interactions with hydrophobic pockets adjacent to the site of ATP binding. In contrast, type II inhibitors recognize a specific inactive conformation of protein kinases . Currently, the number of kinases that are able to adopt the DFG out conformation is not known, but for kinases that have been structurally characterized in this conformation, the distinctive orientation of the DFG motif is highly conserved. For kinases in the DFG out conformation, the DFG motif is in a flipped orientation relative to the active form, with the phenylalanine residue rotated almost 180° and the aspartate side chain facing out of the active site. This rearrangement reveals an additional hydrophobic pocket that is exploited by type II inhibitors.
In addition to hydrophobic contacts with the DFG out pocket, type II inhibitors usually make a characteristic set of hydrogen bonds with a conserved glutamate in the C helix and the backbone amide of the aspartate in the DFG motif. Like type I inhibitors, type II inhibitors usually form hydrogenbonding interactions with the amide backbone of the hinge region and hydrophobic contacts with the adenine site. As kinases have become increasingly more prevalent as drug targets in human disease, significant success has been achieved in targeting kinases involved in cancer. In many cases this clinical success has been shown to exist within a limited timeframe, due to the development of drug resistance. As most kinase inhibitors exert their effects by targeting a specific kinase or set of kinases, there is strong selective pressure for the development of mutations that prevent drug binding. However, there is a limited spectrum of mutations that are available to a kinase for developing resistance due to the necessity of maintaining the catalytic activity