ArticleNucleic acids research2014
iPfam: a database of protein family and domain interactions found in the Protein Data Bank.
Article in Nucleic acids research, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 84 papers.
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Who cites it
84 citing papers in PubMed.
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- Correlated Evolution Drives Structural Convergence of Interacting Proteins.Journal of molecular evolution · 2026Article
- Transcriptomic Comparison of Rice lncRNAs in Response to Feeding by Brown Planthopper Populations with Different Virulence.International journal of molecular sciences · 2025Article
- PPIXpress and PPICompare webservers infer condition-specific and differential PPI networks.Bioinformatics advances · 2025Article
- Exploring Viral-Host Protein Interactions as Antiviral Therapies: A Computational Perspective.Microorganisms · 2024Review
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- ProCogGraph: a graph-based mapping of cognate ligand domain interactions.Bioinformatics advances · 2024Article
- Machine Learning Methods in Protein-Protein Docking.Methods in molecular biology (Clifton, N.J.) · 2024Article
- Comprehensive transcriptomic analysis of three varieties with different brown planthopper-resistance identifies leaf sheath lncRNAs in rice.BMC plant biology · 2023Article
- The genome of sheep ked (Melophagus ovinus) reveals potential mechanisms underlying reproduction and narrower ecological niches.BMC genomics · 2023Article
- Using PlaPPISite to Predict and Analyze Plant Protein-Protein Interaction Sites.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Analysis of Host-Bacteria Protein Interactions Reveals Conserved Domains and Motifs That Mediate Fundamental Infection Pathways.International journal of molecular sciences · 2022Article
- The genome of homosporous maidenhair fern sheds light on the euphyllophyte evolution and defences.Nature plants · 2022Article
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- Genetic Basis of Follicle Development in Dazu Black Goat by Whole-Transcriptome Sequencing.Animals : an open access journal from MDPI · 2021Article
- Computational Assessment of Protein-protein Binding Affinity by Reversely Engineering the Energetics in Protein Complexes.Genomics, proteomics & bioinformatics · 2021Article
- PPIDomainMiner: Inferring domain-domain interactions from multiple sources of protein-protein interactions.PLoS computational biology · 2021Article
- dSPRINT: predicting DNA, RNA, ion, peptide and small molecule interaction sites within protein domains.Nucleic acids research · 2021Article
- Network-based analysis of virulence factors for uncovering Aeromonas veronii pathogenesis.BMC microbiology · 2021Article
- Advances in integrative structural biology: Towards understanding protein complexes in their cellular context.Computational and structural biotechnology journal · 2021Review
24 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
The database iPfam, available at http://ipfam.org, catalogues Pfam domain interactions based on known 3D structures that are found in the Protein Data Bank, providing interaction data at the molecular level. Previously, the iPfam domain-domain interaction data was integrated within the Pfam database and website, but it has now been migrated to a separate database. This allows for independent development, improving data access and giving clearer separation between the protein family and interactions datasets. In addition to domain-domain interactions, iPfam has been expanded to include interaction data for domain bound small molecule ligands. Functional annotations are provided from source databases, supplemented by the incorporation of Wikipedia articles where available. iPfam (version 1.0) contains >9500 domain-domain and 15 500 domain-ligand interactions. The new website provides access to this data in a variety of ways, including interactive visualizations of the interaction data.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.