{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2024,9,16]],"date-time":"2024-09-16T11:12:09Z","timestamp":1726485129943},"reference-count":6,"publisher":"Oxford University Press (OUP)","issue":"3","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2013,2,1]]},"abstract":"Abstract<\/jats:title>\n Motivation: A large fraction of the entries contained in the Protein Data Bank describe proteins in complex with low molecular weight molecules such as physiological compounds or synthetic drugs. In many cases, the same molecule is found in distinct protein-ligand complexes. There is an increasing interest in Medicinal Chemistry in comparing protein binding sites to get insight on interactions that modulate the binding specificity, as this structural information can be correlated with other experimental data of biochemical or physiological nature and may help in rational drug design.<\/jats:p>\n Results: The web service protein-ligand interaction presented here provides a tool to analyse and compare the binding pockets of homologous proteins in complex with a selected ligand. The information is deduced from protein-ligand complexes present in the Protein Data Bank and stored in the underlying database.<\/jats:p>\n Availability: Freely accessible at http:\/\/bioinformatics.istge.it\/pli\/.<\/jats:p>\n Contact: \u00a0domenico.bordo@istge.it<\/jats:p>","DOI":"10.1093\/bioinformatics\/bts691","type":"journal-article","created":{"date-parts":[[2012,11,30]],"date-time":"2012-11-30T03:17:56Z","timestamp":1354245476000},"page":"395-397","source":"Crossref","is-referenced-by-count":16,"title":["PLI: a web-based tool for the comparison of protein-ligand interactions observed on PDB structures"],"prefix":"10.1093","volume":"29","author":[{"given":"Anna Maria","family":"Gallina","sequence":"first","affiliation":[{"name":"1 IRCCS Azienda Ospedaliera Universitaria San Martino\u2014IST\u2014Istituto Nazionale Ricerca sul Cancro, 16132 Genova, Italy, 2Istituto Italiano di Tecnologia, 16163 Genova, Italy and 3Dipartimento di Fisica, Universita\u2019 di Genova, 16146 Genova, Italy"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Paola","family":"Bisignano","sequence":"additional","affiliation":[{"name":"1 IRCCS Azienda Ospedaliera Universitaria San Martino\u2014IST\u2014Istituto Nazionale Ricerca sul Cancro, 16132 Genova, Italy, 2Istituto Italiano di Tecnologia, 16163 Genova, Italy and 3Dipartimento di Fisica, Universita\u2019 di Genova, 16146 Genova, Italy"},{"name":"1 IRCCS Azienda Ospedaliera Universitaria San Martino\u2014IST\u2014Istituto Nazionale Ricerca sul Cancro, 16132 Genova, Italy, 2Istituto Italiano di Tecnologia, 16163 Genova, Italy and 3Dipartimento di Fisica, Universita\u2019 di Genova, 16146 Genova, Italy"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Maurizio","family":"Bergamino","sequence":"additional","affiliation":[{"name":"1 IRCCS Azienda Ospedaliera Universitaria San Martino\u2014IST\u2014Istituto Nazionale Ricerca sul Cancro, 16132 Genova, Italy, 2Istituto Italiano di Tecnologia, 16163 Genova, Italy and 3Dipartimento di Fisica, Universita\u2019 di Genova, 16146 Genova, Italy"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Domenico","family":"Bordo","sequence":"additional","affiliation":[{"name":"1 IRCCS Azienda Ospedaliera Universitaria San Martino\u2014IST\u2014Istituto Nazionale Ricerca sul Cancro, 16132 Genova, Italy, 2Istituto Italiano di Tecnologia, 16163 Genova, Italy and 3Dipartimento di Fisica, Universita\u2019 di Genova, 16146 Genova, Italy"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2012,11,29]]},"reference":[{"key":"2023012810182143500_bts691-B1","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1007\/s12033-008-9127-7","article-title":"Data deposition and annotation at the worldwide Protein Data Bank","volume":"42","author":"Dutta","year":"2009","journal-title":"Mol. 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