9C6P

X-ray crystal structure of AmpC beta-lactamase with inhibitor

これはPDB形式変換不可エントリーです。

9C6P の概要

• エントリーDOI: 10.2210/pdb9c6p/pdb
• 分子名称: AmpC Beta-lactamase, 3-chloro-N-(5-chloro-2-methyl-1,3-benzothiazol-6-yl)-2-hydroxybenzene-1-sulfonamide (3 entities in total)
• 機能のキーワード: inhibitor, hydrolase
• 由来する生物種: Escherichia coli
• タンパク質・核酸の鎖数: 2
• 化学式量合計: 83965.27

構造登録者

Liu, F.,Shoichet, B.K. (登録日: 2024-06-08, 公開日: 2024-06-19, 最終更新日: 2025-07-09)

主引用文献

Liu, F.,Mailhot, O.,Glenn, I.S.,Vigneron, S.F.,Bassim, V.,Xu, X.,Fonseca-Valencia, K.,Smith, M.S.,Radchenko, D.S.,Fraser, J.S.,Moroz, Y.S.,Irwin, J.J.,Shoichet, B.K.
The impact of library size and scale of testing on virtual screening.
Nat.Chem.Biol., 21:1039-1045, 2025

PubMed Abstract: Virtual ligand libraries for ligand discovery have recently increased 10,000-fold. Whether this has improved hit rates and potencies has not been directly tested. Meanwhile, typically only dozens of docking hits are assayed, clouding hit-rate interpretation. Here we docked a 1.7 billion-molecule virtual library against β-lactamase, testing 1,521 new molecules and comparing the results to a 99 million-molecule screen where 44 molecules were tested. In a larger screen, hit rates improved twofold, more scaffolds were discovered and potency improved. Fifty-fold more inhibitors were found, supporting the idea that the large libraries harbor many more ligands than are being tested. In sampling smaller sets from the 1,521, hit rates only converged when several hundred molecules were tested. Hit rates and affinities improved steadily with docking score. It may be that as the scale of docking libraries and their testing grows, both ligands and our ability to rank them will improve.

PubMed: 39753705
DOI: 10.1038/s41589-024-01797-w

実験手法

X-RAY DIFFRACTION (1.663 Å)