{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,26]],"date-time":"2026-03-26T11:26:35Z","timestamp":1774524395499,"version":"3.50.1"},"reference-count":12,"publisher":"Oxford University Press (OUP)","issue":"22","license":[{"start":{"date-parts":[[2016,7,16]],"date-time":"2016-07-16T00:00:00Z","timestamp":1468627200000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"the University of Michigan, National Institutes of Health","award":["GM070862"],"award-info":[{"award-number":["GM070862"]}]},{"name":"the University of Bergen"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2016,11,15]]},"abstract":"<jats:p>Summary: Bio3D-web is an online application for analyzing the sequence, structure and conformational heterogeneity of protein families. Major functionality is provided for identifying protein structure sets for analysis, their alignment and refined structure superposition, sequence and structure conservation analysis, mapping and clustering of conformations and the quantitative comparison of their predicted structural dynamics.<\/jats:p>\n               <jats:p>Availability: Bio3D-web is based on the Bio3D and Shiny R packages. All major browsers are supported and full source code is available under a GPL2 license from http:\/\/thegrantlab.org\/bio3d-web.<\/jats:p>\n               <jats:p>Contact: \u00a0bjgrant@umich.edu or lars.skjarven@uib.no<\/jats:p>","DOI":"10.1093\/bioinformatics\/btw482","type":"journal-article","created":{"date-parts":[[2016,7,17]],"date-time":"2016-07-17T00:17:50Z","timestamp":1468714670000},"page":"3510-3512","source":"Crossref","is-referenced-by-count":44,"title":["Online interactive analysis of protein structure ensembles with Bio3D-web"],"prefix":"10.1093","volume":"32","author":[{"given":"Lars","family":"Skj\u00e6rven","sequence":"first","affiliation":[{"name":"1Department of Biomedicine, University of Bergen, Bergen, Norway"}]},{"given":"Shashank","family":"Jariwala","sequence":"additional","affiliation":[{"name":"2Department of Computational Medicine and Bioinformatics, University of Michigan Medical School, Ann Arbor, MI, USA"}]},{"given":"Xin-Qiu","family":"Yao","sequence":"additional","affiliation":[{"name":"2Department of Computational Medicine and Bioinformatics, University of Michigan Medical School, Ann Arbor, MI, USA"}]},{"given":"Barry J.","family":"Grant","sequence":"additional","affiliation":[{"name":"2Department of Computational Medicine and Bioinformatics, University of Michigan Medical School, Ann Arbor, MI, USA"}]}],"member":"286","published-online":{"date-parts":[[2016,7,16]]},"reference":[{"key":"2023020114083048400_btw482-B1","doi-asserted-by":"crossref","first-page":"1575","DOI":"10.1093\/bioinformatics\/btr168","article-title":"ProDy: protein dynamics inferred from theory and experiments","volume":"27","author":"Bakan","year":"2011","journal-title":"Bioinformatics"},{"key":"2023020114083048400_btw482-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 Res"},{"key":"2023020114083048400_btw482-B3","doi-asserted-by":"crossref","first-page":"1487","DOI":"10.1093\/bioinformatics\/btu847","article-title":"The anisotropic network model web server at 2015 (ANM 2.0)","volume":"31","author":"Eyal","year":"2015","journal-title":"Bioinformatics"},{"key":"2023020114083048400_btw482-B4","doi-asserted-by":"crossref","first-page":"D222","DOI":"10.1093\/nar\/gkt1223","article-title":"Pfam: the protein families database","volume":"42","author":"Finn","year":"2014","journal-title":"Nucleic Acids Res"},{"key":"2023020114083048400_btw482-B5","doi-asserted-by":"crossref","first-page":"2695","DOI":"10.1093\/bioinformatics\/btl461","article-title":"Bio3d: an R package for the comparative analysis of protein structures","volume":"22","author":"Grant","year":"2006","journal-title":"Bioinformatics"},{"key":"2023020114083048400_btw482-B6","doi-asserted-by":"crossref","first-page":"D423","DOI":"10.1093\/nar\/gkv1316","article-title":"PDBFlex: exploring flexibility in protein structures","volume":"44","author":"Hrabe","year":"2016","journal-title":"Nucleic Acids Res"},{"key":"2023020114083048400_btw482-B7","doi-asserted-by":"crossref","first-page":"11","DOI":"10.1186\/s12859-014-0399-6","article-title":"Integrating protein structural dynamics and evolutionary analysis with Bio3D","volume":"15","author":"Skj\u00e6rven","year":"2014","journal-title":"BMC Bioinf"},{"key":"2023020114083048400_btw482-B8","doi-asserted-by":"crossref","first-page":"W610","DOI":"10.1093\/nar\/gkh368","article-title":"ElNemo: a normal mode web server for protein movement analysis and the generation of templates for molecular replacement","volume":"32","author":"Suhre","year":"2004","journal-title":"Nucleic Acids Res"},{"key":"2023020114083048400_btw482-B9","doi-asserted-by":"crossref","first-page":"427","DOI":"10.1186\/s12859-014-0427-6","article-title":"WEBnm@ v2.0: Web server and services for comparing protein flexibility","volume":"15","author":"Tiwari","year":"2014","journal-title":"BMC Bioinf"},{"key":"2023020114083048400_btw482-B10","doi-asserted-by":"crossref","first-page":"943","DOI":"10.1146\/annurev-biochem-062708-134043","article-title":"Structure-function relationships of the G domain, a canonical switch motif","volume":"80","author":"Wittinghofer","year":"2011","journal-title":"Annu. Rev. Biochem"},{"key":"2023020114083048400_btw482-B11","doi-asserted-by":"crossref","DOI":"10.1021\/acs.jpcb.6b01991","article-title":"Rapid Characterization of Allosteric Networks with Ensemble Normal Mode Analysis","author":"Yao","year":"2016","journal-title":"J. Phys. Chem. B"},{"key":"2023020114083048400_btw482-B12","doi-asserted-by":"crossref","first-page":"264","DOI":"10.1186\/1471-2105-12-264","article-title":"MAVENs: motion analysis and visualization of elastic networks and structural ensembles","volume":"12","author":"Zimmermann","year":"2011","journal-title":"BMC Bioinf"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/32\/22\/3510\/49027207\/bioinformatics_32_22_3510.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/32\/22\/3510\/49027207\/bioinformatics_32_22_3510.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,2,1]],"date-time":"2023-02-01T23:59:20Z","timestamp":1675295960000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/32\/22\/3510\/2525600"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2016,7,16]]},"references-count":12,"journal-issue":{"issue":"22","published-print":{"date-parts":[[2016,11,15]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btw482","relation":{},"ISSN":["1367-4803","1367-4811"],"issn-type":[{"value":"1367-4803","type":"print"},{"value":"1367-4811","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2016,11,15]]},"published":{"date-parts":[[2016,7,16]]}}}