PANDORA Database

This repository contains the latest update to the PANDORA template database, including pMHCI, pMHCII and reversed-pMHCII templates. PANDORA is an anchor-restrained modelling pipeline for generating peptide-MHC structures. GitHub Repository Software Documentation Publications: Rademaker, D.T., Parizi, F.M., Vreeswijk, M. van, Eerden, S., Marzella, D.F., Xue, L.C., 2025. Bidirectional Peptide Conformation Prediction for MHC Class II using PANDORA. https://doi.org/10.1101/2024.11.04.621877 Parizi, F.M., Marzella, D.F., Ramakrishnan, G., ‘T Hoen, P.A.C., Karimi-Jafari, M.H., Xue, L.C., 2023. PANDORA v2.0: Benchmarking peptide-MHC II models and software improvements. Front. Immunol. 14, 1285899. https://doi.org/10.3389/fimmu.2023.1285899 Marzella, D.F., Parizi, F.M., Tilborg, D.V., Renaud, N., Sybrandi, D., Buzatu, R., Rademaker, D.T., ‘T Hoen, P.A.C., Xue, L.C., 2022. PANDORA: A Fast, Anchor-Restrained Modelling Protocol for Peptide: MHC Complexes. Front. Immunol. 13, 878762. https://doi.org/10.3389/fimmu.2022.878762