Centre of New Technologies, University of Warsaw, Banacha 2C, 02-097, Warsaw, Poland.
Faculty of Chemistry, University of Warsaw, Pasteura 1, 02-093, Warsaw, Poland.
Angew Chem Int Ed Engl. 2020 Dec 21;59(52):23496-23499. doi: 10.1002/anie.202009479. Epub 2020 Sep 29.
NMR spectroscopy offers unique benefits for ligand binding studies on isotopically labelled target proteins. These benefits include atomic resolution, direct distinction of binding sites and modes, a lowest detectable affinity limit, and function independent setup. Yet, retracing protein signal assignments from apo to holo states to derive exact dissociation constants and chemical shift perturbation amplitudes (for ligand docking and structure-based optimization) requires lengthy titration series of 2D heteronuclear correlation spectra at variable ligand concentration that may exceed the protein's lifetime and available spectrometer time. We present a novel method to overcome this critical limitation, based on non-stationary complementary non-uniform sampling (NOSCO NUS) combined with a robust particle swarm optimization algorithm. We illustrate its potential in two challenging studies with very distinct protein sizes and binding affinities, showing that NOSCO NUS can reduce measurement times by an order of magnitude to make such highly informative NMR titration studies more broadly feasible.
NMR 光谱学为同位素标记靶蛋白的配体结合研究提供了独特的优势。这些优势包括原子分辨率、直接区分结合位点和模式、最低可检测亲和力极限以及与功能无关的设置。然而,要从apo 状态追溯到 holo 状态的蛋白质信号分配,以得出准确的离解常数和化学位移扰动幅度(用于配体对接和基于结构的优化),需要在可变的配体浓度下进行二维异核相关光谱的冗长滴定系列,这可能超过蛋白质的寿命和可用光谱仪时间。我们提出了一种基于非稳态互补非均匀采样(NOSCO NUS)和强大的粒子群优化算法的新方法来克服这一关键限制。我们在两个具有非常不同蛋白质大小和亲和力的挑战性研究中说明了它的潜力,表明 NOSCO NUS 可以将测量时间缩短一个数量级,从而使这些高度信息丰富的 NMR 滴定研究更广泛地可行。