Macrocycle-DB: a comprehensive database for macrocycle-based drug discovery

Nucleic Acids Res. 2025 Nov 3:gkaf1107. doi: 10.1093/nar/gkaf1107. Online ahead of print.

ABSTRACT

Macrocycles have gained significant attention in drug design owing to their distinctive structural and physicochemical features. Despite the abundance of available experimental data, there remains a need for a centralized resource to support macrocycle-based drug discovery. Here, we present Macrocycle-DB, the most extensive online database dedicated to macrocycles, featuring 45 525 compounds, including 76 approved drugs and 105 clinical candidates that target 2533 proteins. The database offers comprehensive structural information, experimental bioactivity data, and physicochemical properties for each macrocycle, along with co-crystal structures to visualize protein-ligand interactions. Additionally, Macrocycle-DB provides specialized descriptors, scaffold and linker details for synthetic macrocycles, and high-quality downloadable datasets to facilitate computational drug design. Macrocycle-DB is freely accessible at https://macro-db.dpbio.tech/ and https://macro-db.cn/.

PMID:41182818 | DOI:10.1093/nar/gkaf1107