{"id":4,"date":"2012-10-12T11:35:39","date_gmt":"2012-10-12T09:35:39","guid":{"rendered":"https:\/\/protsci-us2b.univ-nantes.fr\/FP2B\/?page_id=4"},"modified":"2023-05-05T16:55:24","modified_gmt":"2023-05-05T14:55:24","slug":"fp2b-fold-prediction-using-protein-blocks","status":"publish","type":"page","link":"https:\/\/protsci-us2b.univ-nantes.fr\/forsa\/?page_id=4","title":{"rendered":"FoRSA"},"content":{"rendered":"<p>FoRSA is a server for protein fold recognition from amino acid sequence.<\/p>\n<form action=\"\/cgi-bin\/FP2B\/fold_recognition.cgi\" enctype=\"multipart\/form-data\" method=\"post\">Enter an amino acid sequence in fasta format :<br \/>\n<textarea style=\"font-family: courier;\" cols=\"70\" name=\"aaseq\" rows=\"5\"><\/textarea><\/p>\n<h4> Exemple of input sequence<\/h4>\n<p>&gt;d1a4sa_<br \/>\naqlvdsmpsastgsvvvtddlnywggrrikskdgattepvfepatgrvlcqmvpcgaeevdqavqsaqaaylkwskmagiersrvmleaariirerrdniaklevinngktiteaeydidaawqcieyyaglaptlsgqhiqlpggafaytrreplgvcagilawnypfmiaawkcapalacgnavvfkpspmtpvgvilaeifheagvpvglvnvvqggaetgsllchhpnvakvsftgsvptgkkvmemsaktvkhvtlelggkspllifkdcelenavrgalmanfltqgqvctngtrvfvqreimpqfleevvkrtkaivvgdplltetrmggliskpqldkvlgfvaqakkegarvlcggepltpsdpklkngyfmspcvldncrddtcvkeeifgpvmsvlpfdteeevlqrannttfglasgvftrdisrahrvaanleagtcyintysispvevpfggykmsgfgrengqatvdyysqlktvivemgdvdslf<\/p>\n<h5>Or<\/h5>\n<p>Upload an amino acid sequence file in fasta format :<br \/>\n<input name=\"upaaseq\" type=\"file\"><\/p>\n<table class=\"my-table\" style=\"height: 108px;\" width=\"273\" border=\"0\">\n<tbody>\n<tr>\n<td>Length Threshold(in %)<br \/>\n<select name=\"length\"><option value=\"20\">20<\/option><option value=\"30\">30<\/option><option value=\"40\">40<\/option><option selected=\"selected\" value=\"50\">50<\/option><option value=\"60\">60<\/option><option value=\"70\">70<\/option><option value=\"80\">80<\/option><option value=\"90\">90<\/option><option value=\"100\">100<\/option><\/select><\/td>\n<td>Gap penalty<br \/>\n<select name=\"gap\"><option selected=\"selected\" value=\"-4.00\">-4.00<\/option><option value=\"-15.00\">-15.00<\/option><option value=\"-20.00\">-20.00<\/option><\/select><\/td>\n<\/tr>\n<tr>\n<td>Alignment<br \/>\n<select name=\"alignment\"><option value=\"GA\">Global<\/option><option value=\"LA\">Local<\/option><\/select><\/td>\n<td>Fold library<br \/>\n<select name=\"fold_lib\"><option value=\"scop1.75A_fam\">scop1.75A_fam<\/option><option value=\"scop40_1.75A\">scop40_1.75A<\/option><option value=\"scop70_1.75A\">scop70_1.75A<\/option><option value=\"scop95_1.75A\">scop95_1.75A<\/option><option selected=\"selected\" value=\"scop100_1.75A\">scop100_1.75A<\/option><option value=\"PDB_fold_library\">PDB_fold_library<\/option><\/select><\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n<p><strong>Ranks<\/strong><\/p>\n<p><textarea class=\"my-textarea-score\" style=\"font-family: courier;\" cols=\"10\" name=\"rank\" rows=\"1\">20<\/textarea><\/p>\n<p><strong>Email address<\/strong><\/p>\n<p><textarea class=\"my-textarea-texte\" id=\"email_address\" style=\"font-family: courier;\" cols=\"10\" name=\"email_address\" rows=\"1\"><\/textarea><\/p>\n<p><center><input type=\"submit\" value=\"submit\"> <input name=\".reset\" type=\"reset\" value=\"reset\"><\/center><\/form>\n<hr>\n<form action=\"\/cgi-bin\/FP2B\/results_fp2b.cgi\" enctype=\"multipart\/form-data\" method=\"get\">To obtain the results of completed jobs, enter the assigned JOBID :<br \/>\n<textarea class=\"my-textarea-texte\" id=\"job_id\" style=\"font-family: courier;\" cols=\"20\" name=\"job_id\" rows=\"1\"><\/textarea><\/p>\n<p><center><input type=\"submit\" value=\"submit\"><\/center><\/form>\n<p><script><br \/>\nvar form = document.querySelector('form');<br \/>\nvar job_id_input = document.getElementById('job_id');<br \/>\nform.addEventListener('submit', function() {<br \/>\nvar new_url = form.action + '?job_id=' + encodeURIComponent(job_id_input.value);<br \/>\nform.action = new_url;<br \/>\n});<br \/>\n<\/script><\/p>\n<p><center><i>Your results are saved on the server for 21days.<\/i><\/center><\/p>\n<p style=\"text-align: center;\">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<strong>&nbsp;&nbsp; <\/strong><\/p>\n<p style=\"text-align: center;\"><strong>To cite this paper :<\/strong><br \/>\nUse of a structural alphabet to find compatible folds for amino acid sequences.<br \/>\nMahajan S, de Brevern AG, Sanejouand YH, Srinivasan N, Offmann B.<br \/>\n<em>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; Protein Sci. <\/em>2015 Jan;24(1):145-53. doi: 10.1002\/pro.2581. Epub 2014 Oct 25.<br \/>\nPMID: 25297700<br \/>\n<a style=\"pointer-events: none;\" href=\"http:\/\/onlinelibrary.wiley.com\/doi\/10.1002\/pro.2581\/abstract\" target=\"_blank\" rel=\"noopener\">http:\/\/onlinelibrary.wiley.com\/doi\/10.1002\/pro.2581\/abstract<\/a><\/p>\n","protected":false},"excerpt":{"rendered":"<p>FoRSA is a server for protein fold recognition from amino acid sequence. Enter an amino acid sequence in fasta format : Exemple of input sequence &gt;d1a4sa_ aqlvdsmpsastgsvvvtddlnywggrrikskdgattepvfepatgrvlcqmvpcgaeevdqavqsaqaaylkwskmagiersrvmleaariirerrdniaklevinngktiteaeydidaawqcieyyaglaptlsgqhiqlpggafaytrreplgvcagilawnypfmiaawkcapalacgnavvfkpspmtpvgvilaeifheagvpvglvnvvqggaetgsllchhpnvakvsftgsvptgkkvmemsaktvkhvtlelggkspllifkdcelenavrgalmanfltqgqvctngtrvfvqreimpqfleevvkrtkaivvgdplltetrmggliskpqldkvlgfvaqakkegarvlcggepltpsdpklkngyfmspcvldncrddtcvkeeifgpvmsvlpfdteeevlqrannttfglasgvftrdisrahrvaanleagtcyintysispvevpfggykmsgfgrengqatvdyysqlktvivemgdvdslf Or Upload an amino acid sequence file in fasta format : Length Threshold(in %) 2030405060708090100 Gap penalty -4.00-15.00-20.00 Alignment GlobalLocal Fold library scop1.75A_famscop40_1.75Ascop70_1.75Ascop95_1.75Ascop100_1.75APDB_fold_library Ranks 20 Email address To [&hellip;]<\/p>\n","protected":false},"author":2,"featured_media":0,"parent":0,"menu_order":1,"comment_status":"closed","ping_status":"closed","template":"full-width-page.php","meta":{"footnotes":""},"class_list":["post-4","page","type-page","status-publish","hentry"],"blocksy_meta":[],"jetpack_sharing_enabled":true,"_links":{"self":[{"href":"https:\/\/protsci-us2b.univ-nantes.fr\/forsa\/index.php?rest_route=\/wp\/v2\/pages\/4","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/protsci-us2b.univ-nantes.fr\/forsa\/index.php?rest_route=\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/protsci-us2b.univ-nantes.fr\/forsa\/index.php?rest_route=\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/protsci-us2b.univ-nantes.fr\/forsa\/index.php?rest_route=\/wp\/v2\/users\/2"}],"replies":[{"embeddable":true,"href":"https:\/\/protsci-us2b.univ-nantes.fr\/forsa\/index.php?rest_route=%2Fwp%2Fv2%2Fcomments&post=4"}],"version-history":[{"count":264,"href":"https:\/\/protsci-us2b.univ-nantes.fr\/forsa\/index.php?rest_route=\/wp\/v2\/pages\/4\/revisions"}],"predecessor-version":[{"id":582,"href":"https:\/\/protsci-us2b.univ-nantes.fr\/forsa\/index.php?rest_route=\/wp\/v2\/pages\/4\/revisions\/582"}],"wp:attachment":[{"href":"https:\/\/protsci-us2b.univ-nantes.fr\/forsa\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=4"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}