CAPRI: A Critical Assessment of PRedicted Interactions
Abstract
CAPRI is a communitywide experiment to assess the capacity of protein‐docking methods to predict protein–protein interactions. Nineteen groups participated in rounds 1 and 2 of CAPRI and submitted blind structure predictions for seven protein–protein complexes based on the known structure of the component proteins. The predictions were compared to the unpublished X‐ray structures of the complexes. We describe here the motivations for launching CAPRI, the rules that we applied to select targets and run the experiment, and some conclusions that can already be drawn. The results stress the need for new scoring functions and for methods handling the conformation changes that were observed in some of the target systems. CAPRI has already been a powerful drive for the community of computational biologists who development docking algorithms. We hope that this issue of Proteins will also be of interest to the community of structural biologists, which we call upon to provide new targets for future rounds of CAPRI, and to all molecular biologists who view protein–protein recognition as an essential process. Proteins 2003;52:2–9. © 2003 Wiley‐Liss, Inc.
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HADDOCK has been consistently ranking among the top predictors and scorers in CAPRI.
“HADDOCK21 is our in‐house docking program, which has been consistently ranking among the top predictors and scorers in CAPRI, a community‐wide experiment for the prediction of biomolecular interactions.22”
From iSEE: Interface structure, evolution, and energy-based machine learning predictor of binding affinity changes upon mutations (2019) · cites this paper as [22]
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- Authors
- Janin, J., Henrick, K., Moult, J., Eyck, L. T., Sternberg, M. J. E., Vajda, S., Vakser, I., & Wodak, S. J.
- Affiliations
- Centre National de la Recherche Scientifique (FR)
- European Bioinformatics Institute (GB)
- University of Maryland Biotechnology Institute (US)
- Imperial College London (GB)
- Stony Brook University (US)
- Université Libre de Bruxelles (BE)
- Corresponding author
- Janin, Joël
- Venue
- Proteins: Structure, Function, and Bioinformatics
- Publisher
- Wiley
- Published
- 2003-05-13
- Volume
- 52
- Issue
- 1
- Pages
- 2-9
- ISSN
- 0887-3585 (ISSN-L)
- 1097-0134
- OpenAlex
- W2137167381
- Cited by
- 703
- References
- 36
- Citations by year
- 2026: 19 · 2025: 31 · 2024: 24 · 2023: 33 · 2022: 26 · 2021: 27 · 2020: 29 · 2019: 44 · 2018: 28 · 2017: 28 · 2016: 31 · 2015: 31 · 2014: 24 · 2013: 35 · 2012: 32
- FWCI
- 11.60
- Type
- journal article
- Language
- en
- Open access
- closed
- Locations
- Proteins Structure Function and Bioinformatics (publishedVersion)
- PubMed (publishedVersion)
- Dépôt institutionnel de l'Université libre de Bruxelles (Université Libre de Bruxelles) (submittedVersion)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Protein Structure and Dynamics
- Physical Sciences › Materials Science › Materials Chemistry › Enzyme Structure and Function
- Physical Sciences › Computer Science › Computational Theory and Mathematics › Computational Drug Discovery Methods
- Keywords
- Capri, protein-protein docking, protein-protein interaction, protein-protein complex, scoring functions, conformational change, X-ray structure comparison
- MeSH terms
- Algorithms, Evaluation Studies as Topic, Forecasting, Models, Molecular, Protein Conformation, Proteins, Reproducibility of Results, Crystallography, X-Ray, Genomics, Protein Interaction Mapping, Macromolecular Substances
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