{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Kim W"],"funding":["National Research Foundation of Korea (NRF)","EC | Horizon 2020 Framework Programme","National Research Foundation of Korea","Seoul National University","EC | Horizon 2020 Framework Programme (EU Framework Programme for Research and Innovation H2020)"],"pagination":["469-472"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC11903335"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["22(3)"],"pubmed_abstract":["Advances in computational structure prediction will vastly augment the hundreds of thousands of currently available protein complex structures. Translating these into discoveries requires aligning them, which is computationally prohibitive. Foldseek-Multimer computes complex alignments from compatible chain-to-chain alignments, identified by efficiently clustering their superposition vectors. Foldseek-Multimer is 3-4 orders of magnitudes faster than the gold standard, while producing comparable alignments; this allows it to compare billions of complex pairs in 11 h. Foldseek-Multimer is open-source software available at GitHub via https://github.com/steineggerlab/foldseek/ , https://search.foldseek.com/search/ and the BFMD database."],"journal":["Nature methods"],"pubmed_title":["Rapid and sensitive protein complex alignment with Foldseek-Multimer."],"pmcid":["PMC11903335"],"funding_grant_id":["2021-M3A9-I4021220","2021-R1C1-C102065","Creative-Pioneering Researchers Program","819318","RS-2024-00396026","RS-2023-00250470","AI-Bio Research Grant"],"pubmed_authors":["Soding J","Levy Karin E","Kim W","Schweke H","Levy ED","Mirdita M","Gilchrist CLM","Steinegger M"],"additional_accession":[]},"is_claimable":false,"name":"Rapid and sensitive protein complex alignment with Foldseek-Multimer.","description":"Advances in computational structure prediction will vastly augment the hundreds of thousands of currently available protein complex structures. Translating these into discoveries requires aligning them, which is computationally prohibitive. Foldseek-Multimer computes complex alignments from compatible chain-to-chain alignments, identified by efficiently clustering their superposition vectors. Foldseek-Multimer is 3-4 orders of magnitudes faster than the gold standard, while producing comparable alignments; this allows it to compare billions of complex pairs in 11 h. Foldseek-Multimer is open-source software available at GitHub via https://github.com/steineggerlab/foldseek/ , https://search.foldseek.com/search/ and the BFMD database.","dates":{"release":"2025-01-01T00:00:00Z","publication":"2025 Mar","modification":"2026-06-02T21:05:19.114Z","creation":"2025-04-03T23:56:49.38Z"},"accession":"S-EPMC11903335","cross_references":{"pubmed":["39910251"],"doi":["10.1038/s41592-025-02593-7"]}}