5P1D

Automated refinement of diffraction data obtained from an endothiapepsin crystal treated with fragment 96

5P1D の概要

• エントリーDOI: 10.2210/pdb5p1d/pdb
• Group deposition: High-Throughput Crystallography: Reliable and Efficient Identification of Fragment Hits. (G_1002001)
• 分子名称: endothiapepsin (2 entities in total)
• 機能のキーワード: fragment screening, method development, aspartic protease, hydrolase
• 由来する生物種: Cryphonectria parasitica
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 33813.86

構造登録者

Schiebel, J.,Heine, A.,Klebe, G. (登録日: 2016-06-28, 公開日: 2016-08-03, 最終更新日: 2024-11-06)

主引用文献

Schiebel, J.,Krimmer, S.G.,Rower, K.,Knorlein, A.,Wang, X.,Park, A.Y.,Stieler, M.,Ehrmann, F.R.,Fu, K.,Radeva, N.,Krug, M.,Huschmann, F.U.,Glockner, S.,Weiss, M.S.,Mueller, U.,Klebe, G.,Heine, A.
High-Throughput Crystallography: Reliable and Efficient Identification of Fragment Hits.
Structure, 24:1398-1409, 2016

PubMed Abstract: Today the identification of lead structures for drug development often starts from small fragment-like molecules raising the chances to find compounds that successfully pass clinical trials. At the heart of the screening for fragments binding to a specific target, crystallography delivers structural information essential for subsequent drug design. While it is common to search for bound ligands in electron densities calculated directly after an initial refinement cycle, we raise the important question whether this strategy is viable for fragments characterized by low affinities. Here, we describe and provide a collection of high-quality diffraction data obtained from 364 protein crystals treated with diverse fragments. Subsequent data analysis showed that ∼25% of all hits would have been missed without further refining the resulting structures. To enable fast and reliable hit identification, we have designed an automated refinement pipeline that will inspire the development of optimized tools facilitating the successful application of fragment-based methods.

PubMed: 27452405
DOI: 10.1016/j.str.2016.06.010

実験手法

X-RAY DIFFRACTION (1.279 Å)