Download MendeleyDesign, synthesis, functional and structural characterization of an inhibitor of N-acetylneuraminate-9-phosphate phosphatase: Observation of extensive dynamics in an enzyme/inhibitor complex.
Kim, S.H., Constantine, K.L., Duke, G.J., Goldfarb, V., Hunt, J.T., Johnson, S., Kish, K., Klei, H.E., McDonnell, P.A., Metzler, W.J., Mueller, L., Poss, M.A., Fairchild, C.R., Bhide, R.S.(2013) Bioorg Med Chem Lett 23: 4107-4111
- PubMed: 23747226
- DOI: https://doi.org/10.1016/j.bmcl.2013.05.052
- Primary Citation of Related Structures:
4KNV, 4KNW - PubMed Abstract:
The design, synthesis and characterization of a phosphonate inhibitor of N-acetylneuraminate-9-phosphate phosphatase (HDHD4) is described. Compound 3, where the substrate C-9 oxygen was replaced with a nonlabile CH2 group, inhibits HDHD4 with a binding affinity (IC50 11μM) in the range of the native substrate Neu5Ac-9-P (compound 1, Km 47μM). Combined SAR, modeling and NMR studies are consistent with the phosphonate group in inhibitor 3 forming a stable complex with native Mg(2+). In addition to this key interaction, the C-1 carboxylate of the sugar interacts with a cluster of basic residues, K141, R104 and R72. Comparative NMR studies of compounds 3 and 1 with Ca(2+) and Mg(2+) are indicative of a highly dynamic process in the active site for the HDHD4/Mg(2+)/3 complex. Possible explanations for this observation are discussed.
Organizational Affiliation:
Bristol-Myers Squibb Research and Development, 311 Pennington-Rocky Hill Road, Pennington, NJ 08534, USA. soonghoon.kim@bms.com
