Combined Use of Computational Chemistry, NMR Screening and X-Ray Crystallography for Identification and Characterization of Fluorophilic Protein Environments
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Vulpetti, Anna, Schiering, Nikolaus and Dalvit, Claudio (2010) Combined Use of Computational Chemistry, NMR Screening and X-Ray Crystallography for Identification and Characterization of Fluorophilic Protein Environments. Proteins, 78 (16). pp. 3281-3291. ISSN 1097-0134
Abstract
19F-NMR screening of fluorinated fragments with different Local Environment of Fluorine, a.k.a. LEF library, is an experimental methodology which, beyond providing useful starting fragments for fragment-based drug discovery projects, offers, in combination with crystal structure determination and computational analysis, an approach for the identification of fluorophilic hot-spots in the proteins of interest. The application of this approach in the identification of fluorinated fragments binding to the serine protease trypsin, and the X-Ray structures of the complexes are presented. The specific nature of the observed fluorine-protein interactions is discussed and compared with the interactions detected for other fluorinated ligands reported in the Protein Data Bank. The presence of similar 3D arrangements of protein atoms at the fluorine sub-sites is identified with a newly developed tool. In this approach, protein sub-sites are extracted around each fluorine contained in the Protein Data Bank and compared to the query of interest by using a pharmacophoric description.
| Item Type: | Article |
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| Additional Information: | archiving not allowed on institutional repository |
| Keywords: | trypsin; fragment-based screening; 19F-NMR screening; LEF |
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| Date Deposited: | 13 Oct 2015 13:16 |
| Last Modified: | 13 Oct 2015 13:16 |
| URI: | https://oak.novartis.com/id/eprint/2827 |