ECOD develop291: Evolutionary Classification of Protein Domains, last PDB-only release (classification and database)

ECOD (Evolutionary Classification of protein Domains) release develop291 (2024-04-12, PDB entries up to 2023-10-20), the last ECOD release built from experimentally determined structures in the PDB alone. Later releases (v292 onward) also classify AlphaFold DB models.

This record is the archival copy of the develop291 release files and of the PostgreSQL database behind the legacy ECOD website (prodata.swmed.edu/ecod/, retired 2026).

Contents: 1,083,021 domains from 207,142 PDB entries (21,196 manual representatives; 12,948 F-groups, 3,717 H-groups, 2,459 X-groups).

• ecod.develop291.domains.txt: every domain with its classification, PDB chain and ranges (main list)
• ecod.develop291.fasta.txt: domain sequences
• F99/F70/F40 representative subsets: lists, sequences and coordinates
• ecod.develop291.pdb.tar.gz: coordinates of the manual representatives
• ecod_develop291.pgdump and ecod_develop291.tables.tar.zst: the full website database, as a pg_dump and as per-table TSV

Coordinates for every domain are in the companion record. See README.md for details.