Journal Article

Generative deep learning enables the discovery of a potent and selective RIPK1 inhibitor

Yang, Xin, Li, Linli, Zhang, Liting, Luo, Xinling, Tian, Chenyu, Yang, Shengyong, Zou, Jun, Yang, Wei, Wu, Chengyong, Wang, Yifei, Xu, Haixing, Li, Yueshan, Yang, Ruicheng, Wang, Falu

2022

Overview

The retrieval of hit/lead compounds with novel scaffolds during early drug development is an important but challenging task. Various generative models have been proposed to create drug-like molecules. However, the capacity of these generative models to design wet-lab-validated and target-specific molecules with novel scaffolds has hardly been verified. We herein propose a generative deep learning (GDL) model, a distribution-learning conditional recurrent neural network (cRNN), to generate tailor-made virtual compound libraries for given biological targets. The GDL model is then applied to RIPK1. Virtual screening against the generated tailor-made compound library and subsequent bioactivity evaluation lead to the discovery of a potent and selective RIPK1 inhibitor with a previously unreported scaffold, RI-962. This compound displays potent in vitro activity in protecting cells from necroptosis, and good in vivo efficacy in two inflammatory models. Collectively, the findings prove the capacity of our GDL model in generating hit/lead compounds with unreported scaffolds, highlighting a great potential of deep learning in drug discovery. Retrieval of a new starting active compound with a novel scaffold during early drug development is an important but challenging task. Here, the authors propose a generative deep learning model and by applying this model they discover a potent and highly selective RIPK1 inhibitor with a previously unreported scaffold.

• Publisher: Nature Publishing Group UK,Nature Publishing Group,Nature Portfolio
• Subject: 13 / 14 / 38 / 49 / 631/154/309/2144 / 631/154/309/2420 / 631/1647/2258/1266 / 631/45/275 / Biological activity / Deep Learning / Drug Design / Drug development / Drug Discovery / Humanities and Social Sciences / Inflammation / Inhibitors / Lead compounds / multidisciplinary / Necroptosis / Neural networks / Neural Networks, Computer / Recurrent neural networks / Retrieval / Scaffolds / Science / Science (multidisciplinary)