{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,9,19]],"date-time":"2025-09-19T09:30:42Z","timestamp":1758274242973},"reference-count":12,"publisher":"Oxford University Press (OUP)","issue":"19","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2006,10,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: The APDB webserver uses structural information to evaluate the alignment of sequences with known structures. It returns a score correlated to the overall alignment accuracy as well as a local evaluation. Any sequence alignment can be analyzed with APDB provided it includes at least two proteins with known structures. Sequences without a known structure are simply ignored and do not contribute to the scoring procedure.<\/jats:p>\n               <jats:p>Availability: APDB is part of the T-Coffee suite of tools for alignment analysis, it is available on . A standalone version of the package is also available as a freeware open source from the same address.<\/jats:p>\n               <jats:p>Contact: \u00a0cedric.notredame@europe.com<\/jats:p>","DOI":"10.1093\/bioinformatics\/btl404","type":"journal-article","created":{"date-parts":[[2006,10,10]],"date-time":"2006-10-10T07:46:27Z","timestamp":1160466387000},"page":"2439-2440","source":"Crossref","is-referenced-by-count":2,"title":["APDB: a web server to evaluate the accuracy of sequence alignments using structural information"],"prefix":"10.1093","volume":"22","author":[{"given":"Fabrice","family":"Armougom","sequence":"first","affiliation":[{"name":"CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy 1 \u00a0 1 \u00a0 \u00a0 163 Avenue de Luminy, FR-13288, Marseille cedex 09, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Olivier","family":"Poirot","sequence":"additional","affiliation":[{"name":"CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy 1 \u00a0 1 \u00a0 \u00a0 163 Avenue de Luminy, FR-13288, Marseille cedex 09, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"S\u00e9bastien","family":"Moretti","sequence":"additional","affiliation":[{"name":"CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy 1 \u00a0 1 \u00a0 \u00a0 163 Avenue de Luminy, FR-13288, Marseille cedex 09, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Desmond G.","family":"Higgins","sequence":"additional","affiliation":[{"name":"The Conway Institute of Biomolecular and Biomedical Research, University College Dublin 2 \u00a0 2 \u00a0 \u00a0 Ireland"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Phillip","family":"Bucher","sequence":"additional","affiliation":[{"name":"Institut Suisse de Recherche et d'Experimentation sur le Cancer, Ch. des Boveresses 155 CH-1066 Epalinges 3 \u00a0 3 \u00a0 \u00a0 Switzerland"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Vladimir","family":"Keduas","sequence":"additional","affiliation":[{"name":"CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy 1 \u00a0 1 \u00a0 \u00a0 163 Avenue de Luminy, FR-13288, Marseille cedex 09, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Cedric","family":"Notredame","sequence":"additional","affiliation":[{"name":"CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy 1 \u00a0 1 \u00a0 \u00a0 163 Avenue de Luminy, FR-13288, Marseille cedex 09, France"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2006,10,1]]},"reference":[{"key":"2023012409241771700_b1","doi-asserted-by":"crossref","first-page":"823","DOI":"10.1002\/j.1460-2075.1986.tb04288.x","article-title":"The relation between the divergence of sequence and structure in proteins","volume":"5","author":"Chothia","year":"1986","journal-title":"EMBO J."},{"key":"2023012409241771700_b2","doi-asserted-by":"crossref","first-page":"1792","DOI":"10.1093\/nar\/gkh340","article-title":"MUSCLE: multiple sequence alignment with high accuracy and high throughput","volume":"32","author":"Edgar","year":"2004","journal-title":"Nucleic Acids Res."},{"key":"2023012409241771700_b3","doi-asserted-by":"crossref","first-page":"595","DOI":"10.1126\/science.273.5275.595","article-title":"Mapping the protein universe","volume":"283","author":"Holm","year":"1996","journal-title":"Science"},{"key":"2023012409241771700_b4","doi-asserted-by":"crossref","first-page":"941","DOI":"10.1107\/S0907444999001031","article-title":"Software for handling macromolecular envelopes","volume":"55","author":"Kleywegt","year":"1999","journal-title":"Acta Crystallogr. 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