A GU-Net-Based Architecture Predicting Ligand-Protein-Binding Atoms.

ABSTRACT:

Background

The first step in developing new drugs is to find binding sites for a protein structure that can be used as a starting point to design new antagonists and inhibitors. The methods relying on convolutional neural network for the prediction of binding sites have attracted much attention. This study focuses on the use of optimized neural network for three-dimensional (3D) non-Euclidean data.

Methods

A graph, which is made from 3D protein structure, is fed to the proposed GU-Net model based on graph convolutional operation. The features of each atom are considered as attributes of each node. The results of the proposed GU-Net are compared with a classifier based on random forest (RF). A new data exhibition is used as the input of RF classifier.

Results

The perfo

SUBMITTER: Nazem F 

PROVIDER: S-EPMC10246592 | biostudies-literature | 2023 Jan-Mar

REPOSITORIES: biostudies-literature