PoSSuM: Pocket Similarity Search using Multiple-Sketches
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| Database name: | |
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| Database maintenance site: | AIST (National Institute of Advanced Industrial Science and Technology) (Link to J-Global) |
| Country/Region: | Japan |
| Database description: | This site contains a database of protein-ligand binding sites that have been compared and numbered according to resemblance in structure. Comparing the huge amounts of small molecule binding sites of proteins available in the PDB (Protein Data Bank) is important in order to determine anticipated protein functions, the knowledge of which may then be applied in the research and discovery of new drugs. The software program used, "SketchSort", proved to be an extremely fast method. All-pair similarity searches were done for 3.4 million binding sites and over 24 million analogous pairs were found. The results, presented as a PoSSuM (Pocket Similarity Search using Multiple-Sketches) database contain all pairs identified and include commentary notes of various types, namely CATH (protein structure classification according to Class, Architecture, Topology and Homologous superfamily), SCOP (Structural Classification of Proteins), EC number (Enzyme Commission number) and gene ontology. Two search modes are provided: Search K, to find analogous binding sites to a familiar ligand-binding site entered and Search P, to predict ligands that show potential to bind to a protein structure entered. |
| Organism(s) covered: | - |
| Tag - Target: | Protein |
| Tag - Information type: | Image/Movie |
| Reference(s) - PubMed ID/DOI: | PubMed ID: DOI: |
| Language(s): | English |
| Operational status: | Active |
| Link(s) to Downloadable data: | https://dbarchive.biosciencedbc.jp/en/possum/download.html |
| Link(s) to Metadata of downloadable data: | https://dbarchive.biosciencedbc.jp/data/possum/LATEST/README_e.html |
| Link(s) to Terms of use: | https://dbarchive.biosciencedbc.jp/en/possum/lic.html |
| Link(s) to "How to use": | - |
| Contact information of database: | - |
| Link(s) to API / SPARQL endpoint | - |
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Link to LSDB Archive:
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https://dbarchive.biosciencedbc.jp/en/possum/desc.html |
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Link to MEDALS Database list:
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http://medals.jp/elist/detail/175.html |
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Link to TogoTV:
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- |
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Link to FAIRsharing:
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https://fairsharing.org/biodbcore-000127 |
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Similar databases:
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TMIG-2DPAGE Database SWISS-2DPAGE World-2DPAGE Repository BriX Protein-Chemical Structural Interactions HSG Database Conserved Domains and Protein Classification Mouse Basement Membrane Bodymap SARS-Cov2NMR Protein DB |
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Record maintainer
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Integbio Database Catalog |
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Record source:
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Date of creation of this record:
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2013-06-17 |
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Last update date of this record:
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2022-01-16 |
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Record license:
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Creative Commons CC0 license |