BindingDB_BindingDB_Articles_202507 Snapshot – July 2, 2025

This archive contains a snapshot of the BindingDB dataset downloaded from https://www.bindingdb.org on July 2, 2025. Specifically, it includes the file: BindingDB_BindingDB_Articles_202507_tsv.zip, which comprises tab-separated values (TSV) summarizing experimental measurements of protein-ligand binding affinities curated from scientific literature. The dataset is used as input for generating protein-ligand embeddings in a downstream machine learning pipeline. This version is preserved to ensure reproducibility in research relying on a consistent dataset snapshot. BindingDB is a public, curated database of experimentally measured binding affinities for biomolecular complexes. It is maintained by the Gilson Lab and made available under the Creative Commons Attribution 3.0 License. Source: https://www.bindingdb.org/rwd/bind/downloads/BindingDB_BindingDB_Articles_202507_tsv.zip License: Creative Commons Attribution 3.0 (CC BY 3.0) https://creativecommons.org/licenses/by/3.0/ Citation (for BindingDB): Liu, T., Lin, Y., Wen, X., Jorissen, R.N., & Gilson, M.K. (2007). BindingDB: a web-accessible database of experimentally determined protein–ligand binding affinities. Nucleic Acids Research, 35(Database issue), D198–D201. https://doi.org/10.1093/nar/gkl999