{"id":56,"date":"2022-11-10T11:25:37","date_gmt":"2022-11-10T08:25:37","guid":{"rendered":"http:\/\/bioproteom.protres.ru\/mainw\/?page_id=56"},"modified":"2026-03-17T16:51:19","modified_gmt":"2026-03-17T13:51:19","slug":"resources","status":"publish","type":"page","link":"http:\/\/bioproteom.protres.ru\/mainw\/resources\/","title":{"rendered":"\u0420\u0435\u0441\u0443\u0440\u0441\u044b"},"content":{"rendered":"<div class=\"razdel\">Mirrors of Protein Data Banks<\/div>\n<ul class=\"nonums\">\n<li><a class=\"a1\" href=\"ftp:\/\/mirror.protres.ru\/pub\/pdb\">PDB<\/a> \u00a0 (The base of protein structures. Syncronization with <a class=\"a6\" href=\"http:\/\/www.wwpdb.org\">WorldWide Protein Data Bank)<\/a><\/li>\n<li><a class=\"a1\" href=\"ftp:\/\/mirror.protres.ru\/pub\/hssp\">HSSP<\/a><\/li>\n<li><a class=\"a1\" href=\"ftp:\/\/mirror.protres.ru\/pub\/fssp\">FSSP<\/a><\/li>\n<li><a class=\"a1\" href=\"ftp:\/\/mirror.protres.ru\/pub\/dssp\">DSSP<\/a> \u00a0 (DSSP, program <a class=\"paper\">[Kabsch and Sander (1983)Biopolymers, 22, 2577\u20132637]<\/a> for localization of secondary structure elements and energy of hydrogen connections in main chain)<\/li>\n<li><a class=\"a1\" href=\"http:\/\/scop.protres.ru\/\">SCOP<\/a> \u00a0(Structure Classification of Proteins)<\/li>\n<\/ul>\n<div class=\"razdel\">Our Resources<\/div>\n<ul class=\"nonums\">\n<li><a class=\"a1\" href=\"http:\/\/bioinfo.protres.ru\/q\/pdb.cgi\">PDB<\/a> \u00a0(PDB \u0432 \u043e\u0431\u0440\u0430\u0431\u043e\u0442\u043a\u0435 \u041c.\u041b\u043e\u0431\u0430\u043d\u043e\u0432\u0430 &#8212; \u0440\u0443\u0447\u043d\u043e\u0435 \u043e\u0431\u043d\u043e\u0432\u043b\u0435\u043d\u0438\u0435, \u0438\u0441\u043f\u0440\u0430\u0432\u043b\u0435\u043d\u0438\u0435 \u043e\u0448\u0438\u0431\u043e\u043a)<\/li>\n<li><a class=\"a1\" href=\"http:\/\/bioinfo.protres.ru\/IsUnstruct\/\"> IsUnstruct<\/a> \u00a0\u043f\u0440\u0435\u0434\u0441\u043a\u0430\u0437\u0430\u043d\u0438\u0435 \u043d\u0435\u0441\u0442\u0440\u0443\u043a\u0442\u0443\u0440\u0438\u0440\u043e\u0432\u0430\u043d\u043d\u044b\u0445 \u0443\u0447\u0430\u0441\u0442\u043a\u043e\u0432 \u0431\u0435\u043b\u043a\u043e\u0432\u043e\u0439 \u0446\u0435\u043f\u0438 \u043f\u043e \u0430\u043c\u0438\u043d\u043e\u043a\u0438\u0441\u043b\u043e\u0442\u043d\u043e\u0439 \u043f\u043e\u0441\u043b\u0435\u0434\u043e\u0432\u0430\u0442\u0435\u043b\u044c\u043d\u043e\u0441\u0442\u0438<\/li>\n<li><a class=\"a1\" href=\"http:\/\/bioinfo.protres.ru\/ogu\/\"> OGU<\/a> \u00a0\u043f\u0440\u0435\u0434\u0441\u043a\u0430\u0437\u0430\u043d\u0438\u0435 \u043d\u0435\u0441\u0442\u0440\u0443\u043a\u0442\u0443\u0440\u0438\u0440\u043e\u0432\u0430\u043d\u043d\u044b\u0445 \u0443\u0447\u0430\u0441\u0442\u043a\u043e\u0432 \u0431\u0435\u043b\u043a\u043e\u0432\u043e\u0439 \u0446\u0435\u043f\u0438 \u043f\u043e \u0430\u043c\u0438\u043d\u043e\u043a\u0438\u0441\u043b\u043e\u0442\u043d\u043e\u0439 \u043f\u043e\u0441\u043b\u0435\u0434\u043e\u0432\u0430\u0442\u0435\u043b\u044c\u043d\u043e\u0441\u0442\u0438<\/li>\n<li><a class=\"a1\" href=\"http:\/\/phys.protres.ru\/resources\/compact.html\">Compact <\/a> \u00a0 \u0431\u0430\u0437\u0430 \u0434\u0430\u043d\u043d\u044b\u0445 \u043f\u043e \u043a\u0438\u043d\u0435\u0442\u0438\u043a\u0435 \u0441\u0432\u043e\u0440\u0430\u0447\u0438\u0432\u0430\u043d\u0438\u044f \u0431\u0435\u043b\u043a\u043e\u0432\u044b\u0445 \u0441\u0442\u0440\u0443\u043a\u0442\u0443\u0440<br \/>\n<a class=\"paper\">Nucleic Acids Res. 2009 Jan; 37(Database issue):D342-6<\/a><\/li>\n<li><a class=\"a1\" href=\"http:\/\/kineticdb.protres.ru\/db\/index.pl\">KineticDB <\/a> \u00a0 \u0431\u0430\u0437\u0430 \u0434\u0430\u043d\u043d\u044b\u0445 \u043f\u043e \u043a\u0438\u043d\u0435\u0442\u0438\u043a\u0435 \u0441\u0432\u043e\u0440\u0430\u0447\u0438\u0432\u0430\u043d\u0438\u044f \u0431\u0435\u043b\u043a\u043e\u0432\u044b\u0445 \u0441\u0442\u0440\u0443\u043a\u0442\u0443\u0440<br \/>\n<a class=\"paper\">Nucleic Acids Res. 2009 Jan; 37(Database issue):D342-6<\/a><\/li>\n<li><a class=\"a1\" href=\"http:\/\/bioinfo.protres.ru\/fold-amyloid\/amyloid_base.html\"> Fold Amyloid Base<\/a> \u00a0 \u0431\u0430\u0437\u0430 \u0434\u0430\u043d\u043d\u044b\u0445 \u0430\u043c\u0438\u043b\u043e\u0438\u0434\u043e\u0433\u0435\u043d\u043d\u044b\u0445 \u0444\u0440\u0430\u0433\u043c\u0435\u043d\u0442\u043e\u0432, \u0438\u0437\u0432\u0435\u0441\u0442\u043d\u044b\u0445 \u0438\u0437 \u044d\u043a\u0441\u043f\u0435\u0440\u0438\u043c\u0435\u043d\u0442\u0430\u043b\u044c\u043d\u044b\u0445 \u0434\u0430\u043d\u043d\u044b\u0445<\/li>\n<li><a class=\"a1\" href=\"http:\/\/bioinfo.protres.ru\/fold-amyloid\/\"> Fold Amyloid<\/a> \u00a0 \u0441\u0435\u0440\u0432\u0435\u0440 \u0434\u043b\u044f \u043f\u0440\u0435\u0434\u0441\u043a\u0430\u0437\u0430\u043d\u0438\u044f \u0430\u043c\u0438\u043b\u043e\u0438\u0434\u043e\u0433\u0435\u043d\u043d\u044b\u0445 \u0443\u0447\u0430\u0441\u0442\u043a\u043e\u0432 \u043f\u043e \u0430\u043c\u0438\u043d\u043e\u043a\u0438\u0441\u043b\u043e\u0442\u043d\u043e\u0439 \u043f\u043e\u0441\u043b\u0435\u0434\u043e\u0432\u0430\u0442\u0435\u043b\u044c\u043d\u043e\u0441\u0442\u0438<\/li>\n<li><a class=\"a1\" href=\"http:\/\/bioinfo.protres.ru\/comsin\"> ComSin<\/a> \u00a0 base of protein structures in bound (Complex) and unbound (Single) states in relation to their intrinsic disorder.<br \/>\n<a class=\"paper\">Nucleic Acids Res. 2010 Jan;38(Database issue): D283-7.<\/a> <a class=\"a61\" href=\"http:\/\/www.pathguide.org\/fullrecord.php?DBID=321\">http:\/\/www.pathguide.org\/fullrecord.php?DBID=321<\/a><\/li>\n<li><a class=\"a1\" href=\"http:\/\/bioinfo.protres.ru\/og3\/og3.cgi\"> OG3<\/a> \u00a0 \u043f\u0440\u0435\u0434\u0441\u043a\u0430\u0437\u0430\u043d\u0438\u0435 \u0433\u0440\u0430\u043d\u0438\u0446 \u0434\u043e\u043c\u0435\u043d\u043e\u0432 \u043f\u043e \u0430\u043c\u0438\u043d\u043e\u043a\u0438\u0441\u043b\u043e\u0442\u043d\u043e\u0439 \u043f\u043e\u0441\u043b\u0435\u0434\u043e\u0432\u0430\u0442\u0435\u043b\u044c\u043d\u043e\u0441\u0442\u0438<\/li>\n<li><a class=\"a1\" href=\"http:\/\/bioinfo.protres.ru\/bm_og\/bm_og.cgi\"> BM_OG<\/a> \u00a0 \u043f\u0440\u0435\u0434\u0441\u043a\u0430\u0437\u0430\u043d\u0438\u0435 \u0433\u0440\u0430\u043d\u0438\u0446 \u0434\u043e\u043c\u0435\u043d\u043e\u0432 \u043f\u043e \u0430\u043c\u0438\u043d\u043e\u043a\u0438\u0441\u043b\u043e\u0442\u043d\u043e\u0439 \u043f\u043e\u0441\u043b\u0435\u0434\u043e\u0432\u0430\u0442\u0435\u043b\u044c\u043d\u043e\u0441\u0442\u0438<\/li>\n<li><a class=\"a1\" href=\"http:\/\/bioinfo.protres.ru\/ogp\/\">H-Protection<\/a> \u00a0 \u043f\u0440\u0435\u0434\u0441\u043a\u0430\u0437\u0430\u043d\u0438\u0435 \u0437\u0430\u0449\u0438\u0449\u0435\u043d\u043d\u043e\u0441\u0442\u0438 \u0430\u043c\u0438\u043d\u043e\u043a\u0438\u0441\u043b\u043e\u0442\u043d\u044b\u0445 \u043e\u0441\u0442\u0430\u0442\u043a\u043e\u0432 \u043e\u0442 \u0432\u043e\u0434\u043e\u0440\u043e\u0434\u043d\u043e-\u0434\u0435\u0439\u0442\u0435\u0440\u0438\u0435\u0432\u043e\u0433\u043e \u043e\u0431\u043c\u0435\u043d\u0430<\/li>\n<li><a class=\"a1\" href=\"http:\/\/phys.protres.ru\/resources\/termo_meso_base.html\"> Thermo- and mesophilic<\/a> \u00a0 Database of structural pairs of proteins from thermo- and mesophilic organisms<\/li>\n<li><a class=\"a1\" href=\"http:\/\/bioinfo.protres.ru\/resources\/phi_values.htm\"> Phi-values<\/a> \u00a0 Experimentally measured and theoretically predicted phi-values.<br \/>\n<a class=\"paper\">Pereyaslavets LB, Sokolovsky IV, Galzitskaya OV. FoldNucleus: web server for the prediction of RNA and protein folding nuclei from their 3D structures. Bioinformatics. 2015 Oct 15;31(20):3374-6. doi: 10.1093\/bioinformatics\/btv369. <\/a><\/li>\n<li><a class=\"a1\" href=\"http:\/\/bioproteom.protres.ru\/mlobanov\/prot-base\/ideal-base\/\"> Ideal-base<\/a> \u00a0 Database of 3D structures of &#171;ideally&#187; folded proteins.<br \/>\n<a class=\"paper\">Garbuzynskiy S.O., Lobanov M.Yu., Galzitskaya O.V. (2004). To be folded or to be unfolded? Protein Science, v.13 (11), pp. 2871-2877.<\/a><\/li>\n<li><a class=\"a1\" href=\"http:\/\/phys.protres.ru\/resources\/scop_1.61.html\"> scop_1.61<\/a> \u00a0 Database of 3D structures with identity below 80%.<br \/>\n<a class=\"paper\">Galzitskaya O.V., Garbuzynskiy S.O., Lobanov M.Yu. (2006). Prediction of natively unfolded regions in protein chains. Molecular Biology, v.40 (2), pp. 298-304.<\/a><\/li>\n<li><a class=\"a1\" href=\"http:\/\/phys.protres.ru\/resources\/unfolded_90.html\"> Natively unfolded<\/a> \u00a0 Database of natively unfolded proteins.<br \/>\n<a class=\"paper\">Galzitskaya O.V., Garbuzynskiy S.O., Lobanov M.Yu. (2006). Prediction of natively unfolded regions in protein chains. Molecular Biology, v.40 (2), pp. 298-304.<\/a><\/li>\n<li><a class=\"a1\" href=\"http:\/\/phys.protres.ru\/resources\/folded_559.html\"> Folded 559<\/a> \u00a0 Database of 559 globular proteins.<br \/>\n<a class=\"paper\">Galzitskaya O.V., Garbuzynskiy S.O., Lobanov M.Yu. (2006). Prediction of natively unfolded regions in protein chains. Molecular Biology, v.40 (2), pp. 298-304.<\/a><\/li>\n<li><a class=\"a1\" href=\"http:\/\/phys.protres.ru\/resources\/folded_80.html\"> Folded 80<\/a> \u00a0 Database of 80 globular proteins.<br \/>\n<a class=\"paper\">Galzitskaya O.V., Garbuzynskiy S.O., Lobanov M.Yu. (2006). Prediction of natively unfolded regions in protein chains. Molecular Biology, v.40 (2), pp. 298-304<\/a>.<\/li>\n<li><a class=\"a1\" href=\"http:\/\/bioinfo.protres.ru\/hrap\/\"> HRAP<\/a> \u00a0 Database HRAP.<br \/>\n<a class=\"paper\">Nucleic Acids Res. 2014 Jan;42(Database issue):D273-8. doi: 10.1093\/nar\/gkt927. Lobanov MY, Sokolovskiy IV, Galzitskaya OV. HRaP: database of occurrence of HomoRepeats and patterns in proteomes. <\/a><\/li>\n<li><a class=\"a1\" href=\"http:\/\/bioinfo.protres.ru\/hradis\/\"> HRADIS<\/a> \u00a0 Database HRADIS.<br \/>\n<a class=\"paper\">Lobanov MY, Klus P, Sokolovsky IV, Tartaglia GG, Galzitskaya OV. Non-random distribution of homo-repeats: links with biological functions and human diseases, Sci Rep. 2016 Jun 3;6:26941. doi: 10.1038\/srep26941.<\/a><\/li>\n<li><a class=\"a1\" href=\"http:\/\/bioinfo.protres.ru\/foldnucleus\/\"> foldnucleus<\/a> \u00a0 Server foldnucleus.<br \/>\n<a class=\"paper\">Pereyaslavets LB, Sokolovsky IV, Galzitskaya OV. Bioinformatics. 2015 Oct 15;31(20):3374-6. doi: 10.1093\/bioinformatics\/btv369. FoldNucleus: web server for the prediction of RNA and protein folding nuclei from their 3D structures.<\/a><\/li>\n<li><a class=\"a1\" href=\"http:\/\/bioinfo.protres.ru\/foldhandedness\/\"> foldhandedness<\/a> \u00a0 Server foldhandedness.<br \/>\n<a class=\"paper\">Pereyaslavets LB, Glyakina AV, Dovidchenko NV, Sokolovskiy IV, Galzitskaya OV. What handedness and angles between helices has the studied three-helical protein domain? Bioinformatics. 2015 Mar 15;31(6):963-5. doi: 10.1093\/bioinformatics\/btu737.<\/a><\/li>\n<li><a class=\"a1\" href=\"http:\/\/oka.protres.ru\/cluster_pdb\/\"> Clustered PDB<\/a> \u00a0 Server Clustered PDB.<br \/>\n<a class=\"paper\">Lobanov M.Yu., Galzitskaya O.V., Likhachev I.V.<\/a><\/li>\n<li><a class=\"a1\" href=\"http:\/\/bioinfo.protres.ru\/antimicrob\/\">Antimicrob-I<\/a> Prediction of antibacterial regions in the protein chain.<br \/>\n<a class=\"paper\">Lobanov M.Yu., Galzitskaya O.V., Likhachev I.V.<\/a><\/li>\n<li><a class=\"a1\" href=\"http:\/\/bioproteom.protres.ru\/antimicrob\/\">Antimicrob-II<\/a> Prediction of antibacterial regions in the protein chain.<br \/>\n<a class=\"paper\">Lobanov M.Yu., Galzitskaya O.V., Likhachev I.V.<\/a><\/li>\n<li><a class=\"a1\" href=\"http:\/\/bioproteom.protres.ru\/arom_q_prog\/\">C.A.R.P.<\/a> Contacts of Aromatic Residues in Proteins.<br \/>\n<a class=\"paper\">Galzitskaya O.V., Lobanov M.Yu., Likhachev I.V.<\/a><\/li>\n<li><a class=\"a1\" href=\"http:\/\/bioproteom.protres.ru\/prod_scale\/\">Production Scale<\/a><br \/>\n<a class=\"paper\" href=\"https:\/\/doi.org\/10.1002\/minf.202200181\">M.Y. Lobanov, M.V. Slizen, N.V. Dovidchenko, A.V. Panfilov, A.A. Surin, I.V. Likhachev, O.V. Galzitskaya. Comparison of deep learning models with simple method to assess the problem of antimicrobial peptides prediction. Molecular Informatics 2023, 42, e202200181<\/a><\/li>\n<li><a class=\"a1\" href=\"http:\/\/oka.protres.ru\/SARS-CoV-2Ligands\/\">SARS-CoV-2 Ligands Database<\/a><\/li>\n<li><a class=\"a1\" href=\"http:\/\/bioinfo.protres.ru\/ogp\/\">H-Protection<\/a>  Prediction of residue status to be protected or unprotected from hydrogen-deuterium exchange in a protein chain<\/li>\n<li><a class=\"a1\" href=\"http:\/\/oka.protres.ru\/antimicweb\/\">BERT-MLP<\/a>  Lobanov MY, Slizen MV, Dovidchenko NV, Panfilov AV, Surin AA, Likhachev IV, Galzitskaya OV. Comparison of deep learning models with simple method to assess the problem of antimicrobial peptides prediction. Mol Inform. 2024 May;43(5):e202200181. <a href=\"https:\/\/onlinelibrary.wiley.com\/doi\/10.1002\/minf.202200181\">doi: 10.1002\/minf.202200181<\/a>. Epub 2023 Apr 7. PMID: 36961202.<\/li>\n<\/ul>\n","protected":false},"excerpt":{"rendered":"<p>Mirrors of Protein Data Banks PDB \u00a0 (The base of protein structures. Syncronization with WorldWide Protein Data Bank) HSSP FSSP DSSP \u00a0 (DSSP, program [Kabsch and Sander (1983)Biopolymers, 22, 2577\u20132637] for localization of secondary structure elements and energy of hydrogen connections in main chain) SCOP \u00a0(Structure Classification of Proteins) Our Resources PDB \u00a0(PDB \u0432 \u043e\u0431\u0440\u0430\u0431\u043e\u0442\u043a\u0435 &#8230; <a href=\"http:\/\/bioproteom.protres.ru\/mainw\/resources\/\" class=\"more-link\">Read More<span class=\"screen-reader-text\"> &#171;\u0420\u0435\u0441\u0443\u0440\u0441\u044b&#187;<\/span> &raquo;<\/a><\/p>\n","protected":false},"author":1,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-56","page","type-page","status-publish","hentry"],"jetpack_sharing_enabled":true,"_links":{"self":[{"href":"http:\/\/bioproteom.protres.ru\/mainw\/wp-json\/wp\/v2\/pages\/56","targetHints":{"allow":["GET"]}}],"collection":[{"href":"http:\/\/bioproteom.protres.ru\/mainw\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"http:\/\/bioproteom.protres.ru\/mainw\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"http:\/\/bioproteom.protres.ru\/mainw\/wp-json\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"http:\/\/bioproteom.protres.ru\/mainw\/wp-json\/wp\/v2\/comments?post=56"}],"version-history":[{"count":16,"href":"http:\/\/bioproteom.protres.ru\/mainw\/wp-json\/wp\/v2\/pages\/56\/revisions"}],"predecessor-version":[{"id":127,"href":"http:\/\/bioproteom.protres.ru\/mainw\/wp-json\/wp\/v2\/pages\/56\/revisions\/127"}],"wp:attachment":[{"href":"http:\/\/bioproteom.protres.ru\/mainw\/wp-json\/wp\/v2\/media?parent=56"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}