{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,7,25]],"date-time":"2025-07-25T10:19:29Z","timestamp":1753438769729},"reference-count":10,"publisher":"Oxford University Press (OUP)","issue":"18","license":[{"start":{"date-parts":[[2016,10,2]],"date-time":"2016-10-02T00:00:00Z","timestamp":1475366400000},"content-version":"vor","delay-in-days":2249,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/2.0\/uk\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2010,9,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: RefProtDom provides a set of divergent query domains, originally selected from Pfam, and full-length proteins containing their homologous domains, with diverse architectures, for evaluating pair-wise and iterative sequence similarity searches. Pfam homology and domain boundary annotations in the target library were supplemented using local and semi-global searches, PSI-BLAST searches, and SCOP and CATH classifications.<\/jats:p>\n               <jats:p>Availability: RefProtDom is available from http:\/\/faculty.virginia.edu\/wrpearson\/fasta\/PUBS\/gonzalez09a<\/jats:p>\n               <jats:p>Contact: \u00a0miledywgonzalez@gmail.com; pearson@virginia.edu<\/jats:p>","DOI":"10.1093\/bioinformatics\/btq426","type":"journal-article","created":{"date-parts":[[2010,8,7]],"date-time":"2010-08-07T02:17:53Z","timestamp":1281147473000},"page":"2361-2362","source":"Crossref","is-referenced-by-count":12,"title":["RefProtDom: a protein database with improved domain boundaries and homology relationships"],"prefix":"10.1093","volume":"26","author":[{"given":"Mileidy W.","family":"Gonzalez","sequence":"first","affiliation":[{"name":"1 Department of Biological Sciences, University of Maryland Baltimore County, 1000 Hilltop Circle, Baltimore, MD 21250 and 2Department of Biochemistry and Molecular Genetics, Jordan Hall Box 800733, 1340 Jefferson Park Ave., Charlottesville, VA 22908, USA"}]},{"given":"William R.","family":"Pearson","sequence":"additional","affiliation":[{"name":"1 Department of Biological Sciences, University of Maryland Baltimore County, 1000 Hilltop Circle, Baltimore, MD 21250 and 2Department of Biochemistry and Molecular Genetics, Jordan Hall Box 800733, 1340 Jefferson Park Ave., Charlottesville, VA 22908, USA"}]}],"member":"286","published-online":{"date-parts":[[2010,8,6]]},"reference":[{"key":"2023012508225501200_B1","doi-asserted-by":"crossref","first-page":"3389","DOI":"10.1093\/nar\/25.17.3389","article-title":"Gapped BLAST and PSI-BLAST: a new generation of protein database search programs","volume":"25","author":"Altschul","year":"1997","journal-title":"Nucleic Acids Res"},{"key":"2023012508225501200_B2","doi-asserted-by":"crossref","first-page":"809","DOI":"10.1093\/bioinformatics\/btm034","article-title":"SCOOP: a simple method for identification of novel protein superfamily relationships","volume":"23","author":"Bateman","year":"2007","journal-title":"Bioinformatics"},{"key":"2023012508225501200_B3","doi-asserted-by":"crossref","DOI":"10.1017\/CBO9780511790492","volume-title":"Biological sequence analysis: probabilistic models of proteins and nucleic acids","author":"Durbin","year":"1998"},{"key":"2023012508225501200_B4","doi-asserted-by":"crossref","first-page":"D211","DOI":"10.1093\/nar\/gkp985","article-title":"The Pfam protein families database","volume":"38","author":"Finn","year":"2010","journal-title":"Nucleic Acids Res"},{"key":"2023012508225501200_B5","doi-asserted-by":"crossref","first-page":"377","DOI":"10.1016\/S0959-440X(96)80058-3","article-title":"Surprising similarities in structure comparison","volume":"6","author":"Gibrat","year":"1996","journal-title":"Curr. 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