{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,7]],"date-time":"2026-07-07T10:57:08Z","timestamp":1783421828432,"version":"3.54.6"},"reference-count":41,"publisher":"Oxford University Press (OUP)","issue":"W1","license":[{"start":{"date-parts":[[2019,5,2]],"date-time":"2019-05-02T00:00:00Z","timestamp":1556755200000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Saudi Arabian Government"},{"name":"Republic of Turkey Ministry of National Education"},{"name":"Malaysian Government"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2019,7,2]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>The IntFOLD server provides a unified resource for the automated prediction of: protein tertiary structures with built-in estimates of model accuracy (EMA), protein structural domain boundaries, natively unstructured or disordered regions in proteins, and protein\u2013ligand interactions. The component methods have been independently evaluated via the successive blind CASP experiments and the continual CAMEO benchmarking project. The IntFOLD server has established its ranking as one of the best performing publicly available servers, based on independent official evaluation metrics. Here, we describe significant updates to the server back end, where we have focused on performance improvements in tertiary structure predictions, in terms of global 3D model quality and accuracy self-estimates (ASE), which we achieve using our newly improved ModFOLD7_rank algorithm. We also report on various upgrades to the front end including: a streamlined submission process, enhanced visualization of models, new confidence scores for ranking, and links for accessing all annotated model data. Furthermore, we now include an option for users to submit selected models for further refinement via convenient push buttons. The IntFOLD server is freely available at: http:\/\/www.reading.ac.uk\/bioinf\/IntFOLD\/.<\/jats:p>","DOI":"10.1093\/nar\/gkz322","type":"journal-article","created":{"date-parts":[[2019,4,23]],"date-time":"2019-04-23T19:14:51Z","timestamp":1556046891000},"page":"W408-W413","source":"Crossref","is-referenced-by-count":130,"title":["IntFOLD: an integrated web resource for high performance protein structure and function prediction"],"prefix":"10.1093","volume":"47","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-4501-4767","authenticated-orcid":false,"given":"Liam J","family":"McGuffin","sequence":"first","affiliation":[{"name":"School of Biological Sciences, University of Reading, Whiteknights, Reading RG6 6AS, UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Recep","family":"Adiyaman","sequence":"additional","affiliation":[{"name":"School of Biological Sciences, University of Reading, Whiteknights, Reading RG6 6AS, UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ali H A","family":"Maghrabi","sequence":"additional","affiliation":[{"name":"School of Biological Sciences, University of Reading, Whiteknights, Reading RG6 6AS, UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ahmad N","family":"Shuid","sequence":"additional","affiliation":[{"name":"School of Biological Sciences, University of Reading, Whiteknights, Reading RG6 6AS, UK"},{"name":"Infectomics cluster, Advanced Medical and Dental Institute, University of Science, Malaysia, Bertam, 13200, Kepala Batas, Pulau Pinang, Malaysia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Danielle A","family":"Brackenridge","sequence":"additional","affiliation":[{"name":"School of Biological Sciences, University of Reading, Whiteknights, Reading RG6 6AS, UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"John O","family":"Nealon","sequence":"additional","affiliation":[{"name":"School of Biological Sciences, University of Reading, Whiteknights, Reading RG6 6AS, UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Limcy S","family":"Philomina","sequence":"additional","affiliation":[{"name":"School of Biological Sciences, University of Reading, Whiteknights, Reading RG6 6AS, UK"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2019,5,2]]},"reference":[{"key":"2019062808131131800_B1","doi-asserted-by":"crossref","first-page":"D506","DOI":"10.1093\/nar\/gky1049","article-title":"UniProt: a worldwide hub of protein knowledge","volume":"47","author":"UniProt, C.","year":"2019","journal-title":"Nucleic Acids Res."},{"key":"2019062808131131800_B2","doi-asserted-by":"crossref","first-page":"235","DOI":"10.1093\/nar\/28.1.235","article-title":"The protein data bank","volume":"28","author":"Berman","year":"2000","journal-title":"Nucleic Acids 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