{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,5]],"date-time":"2026-03-05T22:27:11Z","timestamp":1772749631200,"version":"3.50.1"},"reference-count":10,"publisher":"Oxford University Press (OUP)","issue":"20","license":[{"start":{"date-parts":[[2016,10,2]],"date-time":"2016-10-02T00:00:00Z","timestamp":1475366400000},"content-version":"vor","delay-in-days":1863,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/2.5"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2011,10,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: We developed a fast and accurate side-chain modeling program [Optimized Side Chain Atomic eneRgy (OSCAR)-star] based on orientation-dependent energy functions and a rigid rotamer model. The average computing time was 18 s per protein for 218 test proteins with higher prediction accuracy (1.1% increase for \u03c71 and 0.8% increase for \u03c71+2) than the best performing program developed by other groups. We show that the energy functions, which were calibrated to tolerate the discrete errors of rigid rotamers, are appropriate for protein loop selection, especially for decoys without extensive structural refinement.<\/jats:p>\n               <jats:p>Availability: OSCAR-star and the 218 test proteins are available for download at http:\/\/sysimm.ifrec.osaka-u.ac.jp\/OSCAR<\/jats:p>\n               <jats:p>Contact: \u00a0standley@ifrec.osaka-u.ac.jp<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btr482","type":"journal-article","created":{"date-parts":[[2011,8,28]],"date-time":"2011-08-28T00:36:05Z","timestamp":1314491765000},"page":"2913-2914","source":"Crossref","is-referenced-by-count":59,"title":["Fast and accurate prediction of protein side-chain conformations"],"prefix":"10.1093","volume":"27","author":[{"given":"Shide","family":"Liang","sequence":"first","affiliation":[{"name":"1 Systems Immunology Lab, Immunology Frontier Research Center, Osaka University, Suita, Osaka 565-0871, Japan, 2Department of Radiation Oncology, Massey Cancer Center, Virginia Commonwealth University, Richmond, VA 23298 and 3School of Biological Sciences, Center for Plant Science and Innovation, University of Nebraska, Lincoln, NE 68588, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Dandan","family":"Zheng","sequence":"additional","affiliation":[{"name":"1 Systems Immunology Lab, Immunology Frontier Research Center, Osaka University, Suita, Osaka 565-0871, Japan, 2Department of Radiation Oncology, Massey Cancer Center, Virginia Commonwealth University, Richmond, VA 23298 and 3School of Biological Sciences, Center for Plant Science and Innovation, University of Nebraska, Lincoln, NE 68588, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Chi","family":"Zhang","sequence":"additional","affiliation":[{"name":"1 Systems Immunology Lab, Immunology Frontier Research Center, Osaka University, Suita, Osaka 565-0871, Japan, 2Department of Radiation Oncology, Massey Cancer Center, Virginia Commonwealth University, Richmond, VA 23298 and 3School of Biological Sciences, Center for Plant Science and Innovation, University of Nebraska, Lincoln, NE 68588, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Daron M.","family":"Standley","sequence":"additional","affiliation":[{"name":"1 Systems Immunology Lab, Immunology Frontier Research Center, Osaka University, Suita, Osaka 565-0871, Japan, 2Department of Radiation Oncology, Massey Cancer Center, Virginia Commonwealth University, Richmond, VA 23298 and 3School of Biological Sciences, Center for Plant Science and Innovation, University of Nebraska, Lincoln, NE 68588, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2011,8,27]]},"reference":[{"key":"2023012512014356200_B1","doi-asserted-by":"crossref","first-page":"785","DOI":"10.1093\/bioinformatics\/btr009","article-title":"Improved side-chain modeling by coupling clash-detection guided iterative search with rotamer relaxation","volume":"27","author":"Cao","year":"2011","journal-title":"Bioinformatics"},{"key":"2023012512014356200_B2","doi-asserted-by":"crossref","first-page":"10172","DOI":"10.1073\/pnas.94.19.10172","article-title":"Probing the role of packing specificity in protein design","volume":"94","author":"Dahiyat","year":"1997","journal-title":"Proc. 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