Trained model and embedded databases for Progres, software for searching protein structures using graph embeddings

Progres is software for fast protein structure searching using structure graph embeddings and can be found at https://github.com/greener-group/progres. It is available as a web server at https://progres.mrc-lmb.cam.ac.uk. It is described in the following paper: Greener JG and Jamali K. Fast protein structure searching using structure graph embeddings. Bioinformatics Advances 5:1, vbaf042 (2025) - link The trained neural network model and pre-embedded structural databases for SCOPe, CATH, ECOD, the whole PDB, BFVD, AlphaFold structures for 21 model organisms and the AlphaFold database TED domains are stored here. They are automatically downloaded during software installation.