{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,29]],"date-time":"2026-04-29T14:38:53Z","timestamp":1777473533127,"version":"3.51.4"},"reference-count":47,"publisher":"Oxford University Press (OUP)","issue":"22","license":[{"start":{"date-parts":[[2016,10,2]],"date-time":"2016-10-02T00:00:00Z","timestamp":1475366400000},"content-version":"vor","delay-in-days":2189,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/2.0\/uk\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2010,11,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Motivation: Membrane proteins (MPs) are important drug targets but knowledge of their exact structure is limited to relatively few examples. Existing homology-based structure prediction methods are designed for globular, water-soluble proteins. However, we are now beginning to have enough MP structures to justify the development of a homology-based approach specifically for them.<\/jats:p>\n               <jats:p>Results: We present a MP-specific homology-based coordinate generation method, MEDELLER, which is optimized to build highly reliable core models. The method outperforms the popular structure prediction programme Modeller on MPs. The comparison of the two methods was performed on 616 target\u2013template pairs of MPs, which were classified into four test sets by their sequence identity. Across all targets, MEDELLER gave an average backbone root mean square deviation (RMSD) of 2.62 \u00c5 versus 3.16 \u00c5 for Modeller. On our \u2018easy\u2019 test set, MEDELLER achieves an average accuracy of 0.93 \u00c5 backbone RMSD versus 1.56 \u00c5 for Modeller.<\/jats:p>\n               <jats:p>Availability and Implementation: \u00a0http:\/\/medeller.info; Implemented in Python, Bash and Perl CGI for use on Linux systems; Supplementary data are available at http:\/\/www.stats.ox.ac.uk\/proteins\/resources.<\/jats:p>\n               <jats:p>Contact: \u00a0kelm@stats.ox.ac.uk<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btq554","type":"journal-article","created":{"date-parts":[[2010,10,19]],"date-time":"2010-10-19T04:15:50Z","timestamp":1287461750000},"page":"2833-2840","source":"Crossref","is-referenced-by-count":99,"title":["MEDELLER: homology-based coordinate generation for membrane proteins"],"prefix":"10.1093","volume":"26","author":[{"given":"Sebastian","family":"Kelm","sequence":"first","affiliation":[{"name":"1 Department of Statistics, University of Oxford, 1 South Parks Road, Oxford OX1 3TG and 2UCB Celltech, Branch of UCB Pharma S.A., 208 Bath Road, Slough SL1 3WE, UK"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jiye","family":"Shi","sequence":"additional","affiliation":[{"name":"1 Department of Statistics, University of Oxford, 1 South Parks Road, Oxford OX1 3TG and 2UCB Celltech, Branch of UCB Pharma S.A., 208 Bath Road, Slough SL1 3WE, UK"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Charlotte M.","family":"Deane","sequence":"additional","affiliation":[{"name":"1 Department of Statistics, University of Oxford, 1 South Parks Road, Oxford OX1 3TG and 2UCB Celltech, Branch of UCB Pharma S.A., 208 Bath Road, Slough SL1 3WE, UK"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2010,10,5]]},"reference":[{"key":"2023012507552908700_B1","doi-asserted-by":"crossref","first-page":"1409","DOI":"10.1073\/pnas.0808323106","article-title":"Prediction of membrane protein structures with complex topologies using limited constraints","volume":"106","author":"Barth","year":"2009","journal-title":"Proc. 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