ArticleNucleic acids research2015
PoSSuM v.2.0: data update and a new function for investigating ligand analogs and target proteins of small-molecule drugs.
Article in Nucleic acids research, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
- Exploring Binding Sites on Proteins for Function Prediction Using the PoSSuM Databases.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Article
- PoSSuM v.3: A Major Expansion of the PoSSuM Database for Finding Similar Binding Sites of Proteins.Journal of chemical information and modeling · 2023Article
- Protein-protein interaction prediction methods: from docking-based to AI-based approaches.Biophysical reviews · 2022Review
- Transposable elements drive intron gain in diverse eukaryotes.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- TargetMine 2022: a new vision into drug target analysis.Bioinformatics (Oxford, England) · 2022Article
- Computational Methods for Drug Repurposing.Advances in experimental medicine and biology · 2022Article
- Biomolecule and Bioentity Interaction Databases in Systems Biology: A Comprehensive Review.Biomolecules · 2021Review
- Therapeutic target database update 2018: enriched resource for facilitating bench-to-clinic research of targeted therapeutics.Nucleic acids research · 2018Article
- In silico identification and experimental validation of hits active against KPC-2 β-lactamase.PloS one · 2018Article
- Asymmetric interactions between doublesex and tissue- and sex-specific target genes mediate sexual dimorphism in beetles.Nature communications · 2017Article
- Molecular docking analysis of curcumin analogues against kinase domain of ALK5.In silico pharmacology · 2017Article
- MANORAA (Mapping Analogous Nuclei Onto Residue And Affinity) for identifying protein-ligand fragment interaction, pathways and SNPs.Nucleic acids research · 2016Article
- PDID: database of molecular-level putative protein-drug interactions in the structural human proteome.Bioinformatics (Oxford, England) · 2016Article
- PatchSurfers: Two methods for local molecular property-based binding ligand prediction.Methods (San Diego, Calif.) · 2016Article
- Effects of the difference in similarity measures on the comparison of ligand-binding pockets using a reduced vector representation of pockets.Biophysics and physicobiology · 2016Article
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Authors and funding
5 authors.
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No grant is acknowledged in the PubMed record.
Abstract
PoSSuM (http://possum.cbrc.jp/PoSSuM/) is a database for detecting similar small-molecule binding sites on proteins. Since its initial release in 2011, PoSSuM has grown to provide information related to 49 million pairs of similar binding sites discovered among 5.5 million known and putative binding sites. This enlargement of the database is expected to enhance opportunities for biological and pharmaceutical applications, such as predictions of new functions and drug discovery. In this release, we have provided a new service named PoSSuM drug search (PoSSuMds) at http://possum.cbrc.jp/PoSSuM/drug_search/, in which we selected 194 approved drug compounds retrieved from ChEMBL, and detected their known binding pockets and pockets that are similar to them. Users can access and download all of the search results via a new web interface, which is useful for finding ligand analogs as well as potential target proteins. Furthermore, PoSSuMds enables users to explore the binding pocket universe within PoSSuM. Additionally, we have improved the web interface with new functions, including sortable tables and a viewer for visualizing and downloading superimposed pockets.
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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.