BindingDB Database

Overview

BindingDB (https://www.bindingdb.org/) is the primary public database of measured drug-protein binding affinities. It contains roughly 3.2 million binding data records for ~1.4 million compounds tested against ~11,400 protein targets, curated from scientific literature and patent literature. BindingDB stores quantitative binding measurements (Ki, Kd, IC50, EC50) essential for drug discovery, pharmacology, and computational chemistry research.

Key resources:

• BindingDB website: https://www.bindingdb.org/
• REST API base: https://bindingdb.org/rest/ (no key; default response is XML, append response=application/json)
• Downloads page: https://www.bindingdb.org/rwd/bind/chemsearch/marvin/Download.jsp (the full TSV is the dated BindingDB_All_<YYYYMM>_tsv.zip, ~560 MB zipped, refreshed monthly)

When to Use This Skill

Use BindingDB when: