{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,30]],"date-time":"2026-03-30T07:08:13Z","timestamp":1774854493059,"version":"3.50.1"},"reference-count":9,"publisher":"Oxford University Press (OUP)","issue":"9","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2009,5,1]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>Summary: The PLATINUM (Protein\u2013Ligand ATtractions Investigation NUMerically) web service is designed for analysis and visualization of hydrophobic\/hydrophilic properties of biomolecules supplied as 3D-structures. Furthermore, PLATINUM provides a number of tools for quantitative characterization of the hydrophobic\/hydrophilic match in biomolecular complexes e.g. in docking poses. These complement standard scoring functions. The calculations are based on the concept of empirical Molecular Hydrophobicity Potential (MHP).<\/jats:p><jats:p>Availability: The PLATINUM web tool as well as detailed documentation and tutorial are available free of charge for academic users at http:\/\/model.nmr.ru\/platinum\/. PLATINUM requires Java 5 or higher and Adobe Flash Player 9.<\/jats:p><jats:p>Contact: \u00a0pyrkov@nmr.ru<\/jats:p><jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btp111","type":"journal-article","created":{"date-parts":[[2009,2,26]],"date-time":"2009-02-26T02:28:17Z","timestamp":1235615297000},"page":"1201-1202","source":"Crossref","is-referenced-by-count":159,"title":["PLATINUM: a web tool for analysis of hydrophobic\/hydrophilic organization of biomolecular complexes"],"prefix":"10.1093","volume":"25","author":[{"given":"Timothy V.","family":"Pyrkov","sequence":"first","affiliation":[{"name":"1 M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Ul. Miklukho-Maklaya, 16\/10, 117997 GSP, Moscow V-437 and 2Moscow Institute of Physics and Technology (State University), 141700, Institutskii per., 9, Dolgoprudny, Moscow region, Russia"},{"name":"1 M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Ul. Miklukho-Maklaya, 16\/10, 117997 GSP, Moscow V-437 and 2Moscow Institute of Physics and Technology (State University), 141700, Institutskii per., 9, Dolgoprudny, Moscow region, Russia"}]},{"given":"Anton O.","family":"Chugunov","sequence":"additional","affiliation":[{"name":"1 M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Ul. Miklukho-Maklaya, 16\/10, 117997 GSP, Moscow V-437 and 2Moscow Institute of Physics and Technology (State University), 141700, Institutskii per., 9, Dolgoprudny, Moscow region, Russia"}]},{"given":"Nikolay A.","family":"Krylov","sequence":"additional","affiliation":[{"name":"1 M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Ul. Miklukho-Maklaya, 16\/10, 117997 GSP, Moscow V-437 and 2Moscow Institute of Physics and Technology (State University), 141700, Institutskii per., 9, Dolgoprudny, Moscow region, Russia"},{"name":"1 M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Ul. Miklukho-Maklaya, 16\/10, 117997 GSP, Moscow V-437 and 2Moscow Institute of Physics and Technology (State University), 141700, Institutskii per., 9, Dolgoprudny, Moscow region, Russia"}]},{"given":"Dmitry E.","family":"Nolde","sequence":"additional","affiliation":[{"name":"1 M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Ul. Miklukho-Maklaya, 16\/10, 117997 GSP, Moscow V-437 and 2Moscow Institute of Physics and Technology (State University), 141700, Institutskii per., 9, Dolgoprudny, Moscow region, Russia"}]},{"given":"Roman G.","family":"Efremov","sequence":"additional","affiliation":[{"name":"1 M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Ul. Miklukho-Maklaya, 16\/10, 117997 GSP, Moscow V-437 and 2Moscow Institute of Physics and Technology (State University), 141700, Institutskii per., 9, Dolgoprudny, Moscow region, Russia"}]}],"member":"286","published-online":{"date-parts":[[2009,2,25]]},"reference":[{"key":"2023013110282351300_B1","doi-asserted-by":"crossref","first-page":"392","DOI":"10.2174\/092986707779941050","article-title":"Molecular lipophilicity in protein modeling and drug design","volume":"14","author":"Efremov","year":"2007","journal-title":"Curr. Med. Chem."},{"key":"2023013110282351300_B2","doi-asserted-by":"crossref","first-page":"3762","DOI":"10.1021\/jp980230o","article-title":"Prediction of hydrophobic (lipophilic) properties of small organic molecules using fragmental methods: an analysis of ALOGP and CLOGP methods","volume":"102","author":"Ghose","year":"1998","journal-title":"J. Phys. Chem. A"},{"key":"2023013110282351300_B3","doi-asserted-by":"crossref","first-page":"51","DOI":"10.1016\/0263-7855(96)00009-4","article-title":"MOLMOL: a program for display and analysis of macromolecular structures","volume":"14","author":"Koradi","year":"1996","journal-title":"J. Mol. Graph."},{"key":"2023013110282351300_B4","doi-asserted-by":"crossref","first-page":"S7","DOI":"10.1038\/sj.bjp.0707515","article-title":"Towards the development of universal, fast and highly accurate docking\/scoring methods: a long way to go","volume":"153","author":"Moitessier","year":"2008","journal-title":"Br. J. Pharmacol."},{"key":"2023013110282351300_B5"},{"key":"2023013110282351300_B6","doi-asserted-by":"crossref","first-page":"1120","DOI":"10.1021\/jp803641x","article-title":"Adaptation of a membrane-active peptide to heterogeneous environment. II. The role of mosaic nature of the membrane surface","volume":"113","author":"Polyansky","year":"2009","journal-title":"J. Phys. Chem. B"},{"key":"2023013110282351300_B7","doi-asserted-by":"crossref","first-page":"1171","DOI":"10.1021\/ci700067f","article-title":"Docking of ATP to Ca-ATPase: considering protein domain motions","volume":"47","author":"Pyrkov","year":"2007","journal-title":"J. Chem. Inf. Model."},{"key":"2023013110282351300_B8","doi-asserted-by":"crossref","first-page":"288","DOI":"10.1002\/prot.21122","article-title":"Complementarity of hydrophobic properties in ATP-protein binding: a new criterion to rank docking solutions","volume":"66","author":"Pyrkov","year":"2007","journal-title":"PROTEINS"},{"key":"2023013110282351300_B9","doi-asserted-by":"crossref","first-page":"91","DOI":"10.1080\/10629360701844092","article-title":"Ligand-specific scoring functions: improved ranking of docking solutions","volume":"19","author":"Pyrkov","year":"2008","journal-title":"SAR QSAR Environ. Res."}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/25\/9\/1201\/48985143\/bioinformatics_25_9_1201.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/25\/9\/1201\/48985143\/bioinformatics_25_9_1201.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,3,10]],"date-time":"2024-03-10T22:58:24Z","timestamp":1710111504000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/25\/9\/1201\/203843"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2009,2,25]]},"references-count":9,"journal-issue":{"issue":"9","published-print":{"date-parts":[[2009,5,1]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btp111","relation":{},"ISSN":["1367-4811","1367-4803"],"issn-type":[{"value":"1367-4811","type":"electronic"},{"value":"1367-4803","type":"print"}],"subject":[],"published-other":{"date-parts":[[2009,5,1]]},"published":{"date-parts":[[2009,2,25]]}}}