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Adenosine Diphosphate

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Recognizing five molecular ligand-binding sites with similar chemical structure.

Journal of computational chemistry
Accurate identification of ligand-binding sites and discovering the protein-ligand interaction mechanism are important for understanding proteins' functions and designing new drugs. Meanwhile, accurate computational prediction and mechanism research ...

Prediction of protein mononucleotide binding sites using AlphaFold2 and machine learning.

Computational biology and chemistry
In this study, we developed a system that predicts the binding sites of proteins for five mononucleotides (AMP, ADP, ATP, GDP, and GTP). The system comprises two machine learning (ML)-based predictors using a convolutional neural network and a gradie...