Complex portal 2025: predicted human complexes and enhanced visualisation tools for the comparison of orthologous and paralogous complexes
The Complex Portal (www.ebi.ac.uk/complexportal) is a manually curated reference database for molecular complexes. It is a unifying web resource linking aggregated data on composition, topology and the function of macromolecular complexes from 28 species. In addition to significantly extending the number of manually curated complexes, we have massively extended the coverage of the human complexome through the incorporation of high confidence assemblies predicted by machine-learning algorithms trained on large-scale experimental data. The current content of the portal comprising 2150 human complexes has been augmented by 14 964 machine-learning (ML) predicted complexes from hu.MAP3.0. We have refactored the website to enable easy search and filtering of these different classes of protein complexes and have implemented the Complex Navigator, a visualisation tool to facilitate comparison of related complexes in the context of orthology or paralogy. We have embedded the Rhea reaction visualisation tool into the website to enable users to view the catalytic activity of enzyme complexes.
Authors
- Kalpana Panneerselvam (ORCID: https://orcid.org/0000-0003-2534-198X)
- Savvas Kourtis (ORCID: https://orcid.org/0000-0002-3800-0853)
- Eliot Ragueneau (ORCID: https://orcid.org/0000-0002-7876-6503)
- Sandra Orchard (ORCID: https://orcid.org/0000-0002-8878-3972)
- Kevin Drew (ORCID: https://orcid.org/0000-0002-1260-4413)
- Livia Perfetto (ORCID: https://orcid.org/0000-0003-4392-8725)
- Birgit Meldal (ORCID: https://orcid.org/0000-0003-4062-6158)
- Henning Hermjakob (ORCID: https://orcid.org/0000-0001-8479-0262)
- Juan Carlos De los Reyes (ORCID: https://orcid.org/0000-0003-2761-5382)
- Georg Kustatscher (ORCID: https://orcid.org/0000-0001-8955-0866)
- Colin Combe (ORCID: https://orcid.org/0000-0003-2526-2587)
- Juri Rappsilber (ORCID: https://orcid.org/0000-0001-5999-1310)
- Erin R Claussen
- Samantha N Fischer
- Sucharitha Balu (ORCID: https://orcid.org/0000-0001-7456-0594)
- Susie Huget
Institutions
- European Bioinformatics Institute (GB)
- Pfizer (United Kingdom) (GB)
- University of Illinois Chicago (US)
- Wellcome Centre for Cell Biology (GB)
- Centre for Genomic Regulation (ES)
- Technische Universität Berlin (DE)
- Sapienza University of Rome (IT)
- University of Edinburgh (GB)
Publication Details
- Journal
- Nucleic Acids Research
- Published
- 2024-11-18
- DOI
- https://doi.org/10.1093/nar/gkae1085
- Citations
- 26
- Primary Topic
- Bioinformatics and Genomic Networks
- Type
- article
- Field-Weighted Citation Impact
- 6.08
Funders
- National Science Foundation
- European Molecular Biology Laboratory
- Deutsche Forschungsgemeinschaft
- National Institutes of Health
- Directorate for Biological Sciences
- Medical Research Council
- Biotechnology and Biological Sciences Research Council
- National Institute on Aging
- National Heart, Lung, and Blood Institute
- National Human Genome Research Institute
- National Eye Institute
- National Cancer Institute
- National Institute of General Medical Sciences
- National Institute of Allergy and Infectious Diseases
- National Institute of Diabetes and Digestive and Kidney Diseases