ArticleBioinformatics (Oxford, England)2021
CATH functional families predict functional sites in proteins.
Article in Bioinformatics (Oxford, England), 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed.
- Gene duplication is associated with gene diversification and potential neofunctionalization in lung cancer evolution.Genome research · 2026Article
- Structural and functional annotation of Glaciozyma antarctica hypothetical proteins using integrated modeling pipelines.Extremophiles : life under extreme conditions · 2025Article
- Better understanding the phenotypic effects of drugs through shared targets in genetic disease networks.Frontiers in pharmacology · 2024Article
- Enzyme function and evolution through the lens of bioinformatics.The Biochemical journal · 2023Review
- AlphaFold2 protein structure prediction: Implications for drug discovery.Current opinion in structural biology · 2023Review
- Annotation of biologically relevant ligands in UniProtKB using ChEBI.Bioinformatics (Oxford, England) · 2023Article
- Current successes and remaining challenges in protein function prediction.Frontiers in bioinformatics · 2023Article
- Evaluating hierarchical machine learning approaches to classify biological databases.Briefings in bioinformatics · 2022Article
- Characterizing and explaining the impact of disease-associated mutations in proteins without known structures or structural homologs.Briefings in bioinformatics · 2022Article
- Odd one out? Functional tuning of Zymomonas mobilis pyruvate kinase is narrower than its allosteric, human counterpart.Protein science : a publication of the Protein Society · 2022Article
- ContactPFP: Protein function prediction using predicted contact information.Frontiers in bioinformatics · 2022Article
- Clustering FunFams using sequence embeddings improves EC purity.Bioinformatics (Oxford, England) · 2021Article
- Prognostic Value of Early Fluorodeoxyglucose-Positron Emission Tomography Response Imaging and Peripheral Immunologic Biomarkers: Substudy of a Phase II Trial of Risk-Adaptive Chemoradiation for Unresectable Non-Small Cell Lung Cancer.Advances in radiation oncologyArticle
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Authors and funding
4 authors.
Funding
Abstract
motivationIdentification of functional sites in proteins is essential for functional characterization, variant interpretation and drug design. Several methods are available for predicting either a generic functional site, or specific types of functional site. Here, we present FunSite, a machine learning predictor that identifies catalytic, ligand-binding and protein-protein interaction functional sites using features derived from protein sequence and structure, and evolutionary data from CATH functional families (FunFams).
resultsFunSite's prediction performance was rigorously benchmarked using cross-validation and a holdout dataset. FunSite outperformed other publicly available functional site prediction methods. We show that conserved residues in FunFams are enriched in functional sites. We found FunSite's performance depends greatly on the quality of functional site annotations and the information content of FunFams in the training data. Finally, we analyze which structural and evolutionary features are most predictive for functional sites. AVAILABILITYAND IMPLEMENTATION: https://github.com/UCL/cath-funsite-predictor. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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