{"id":7337,"date":"2015-01-14T10:43:20","date_gmt":"2015-01-14T09:43:20","guid":{"rendered":"http:\/\/www.h-its.org\/?p=7337"},"modified":"2019-03-22T16:39:24","modified_gmt":"2019-03-22T15:39:24","slug":"protein-structures-in-systems-biology-4","status":"publish","type":"hits-project","link":"https:\/\/www.h-its.org\/de\/projects\/protein-structures-in-systems-biology-4\/","title":{"rendered":"Protein structures in systems biology"},"content":{"rendered":"\n<p>We are working on developing approaches to bridge between protein structures and biochemical networks, from the molecular to the cellular level.<br>We have recently released <a title=\"LigDig\" href=\"http:\/\/mcm.h-its.org\/ligdig\/\" target=\"_blank\" rel=\"noopener\">LigDig, a webserver for querying ligand-protein interactions<\/a>. It has been designed to assist users in systems biology projects with queries that require access to multiple data sources as well as basic manipulations of the structures of protein-ligand complexes, and can be used together with <a title=\"SYCAMORE\" href=\"http:\/\/sycamore.eml.org\/sycamore\/\" target=\"_blank\" rel=\"noopener\">SYCAMORE<\/a> (SYstems biology&#8217;s Computational Analysis and MOdeling Research Environment).<\/p>\n\n\n\n<p>In the <a title=\"Human Brain Project\" href=\"https:\/\/www.humanbrainproject.eu\/\" target=\"_blank\" rel=\"noopener\">Human Brain Project<\/a>, we are contributing to the development of multi-scale molecular simulation techniques for the brain simulation platform.<\/p>\n\n\n\n<p>In the <a title=\"Sysmolab\" href=\"https:\/\/seek.sysmo-db.org\/projects\/5\" target=\"_blank\" rel=\"noopener\">Sysmolab<\/a> (Comparative systems biology of lactic acid bacteria) projects, we have explored how differences in the allosteric regulation of key metabolic enzymes can be related to differences in the environment in which the bacteria live (<a title=\"Feldman-Salit, 2013\" href=\"http:\/\/www.jbc.org\/content\/288\/29\/21295\" target=\"_blank\" rel=\"noopener\">Feldman-Salit, 2013<\/a>; <a title=\"Veith, 2013\" href=\"http:\/\/www.ploscompbiol.org\/article\/info%3Adoi%2F10.1371%2Fjournal.pcbi.1003159\" target=\"_blank\" rel=\"noopener\">Veith, 2013<\/a>). These studies made use of our <a title=\"PIPSA\" href=\"http:\/\/pipsa.h-its.org\/pipsa\/\" target=\"_blank\" rel=\"noopener\">PIPSA<\/a> (Protein Interaction Property Similarity Analysis) webserver and software.<\/p>\n","protected":false},"author":6,"featured_media":29725,"template":"","hits-research-group":[1298],"hits-project-category":[],"class_list":["post-7337","hits-project","type-hits-project","status-publish","has-post-thumbnail","hentry","hits-research-group-mcm-de"],"acf":[],"yoast_head":"<!-- This site is optimized with the Yoast SEO plugin v27.4 - https:\/\/yoast.com\/product\/yoast-seo-wordpress\/ -->\n<title>Protein structures in systems biology - HITS gGmbH<\/title>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/www.h-its.org\/de\/projects\/protein-structures-in-systems-biology-4\/\" \/>\n<meta property=\"og:locale\" content=\"de_DE\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"Protein structures in systems biology - HITS gGmbH\" \/>\n<meta property=\"og:description\" content=\"We are working on developing approaches to bridge between protein structures and biochemical networks, from the molecular to the cellular level....\" \/>\n<meta property=\"og:url\" content=\"https:\/\/www.h-its.org\/de\/projects\/protein-structures-in-systems-biology-4\/\" \/>\n<meta property=\"og:site_name\" content=\"HITS gGmbH\" \/>\n<meta property=\"article:modified_time\" content=\"2019-03-22T15:39:24+00:00\" \/>\n<meta property=\"og:image\" content=\"https:\/\/www.h-its.org\/de\/wp-content\/uploads\/sites\/2\/2015\/01\/10.1093_bioinformatics_btu784_ref.png\" \/>\n\t<meta property=\"og:image:width\" content=\"2600\" \/>\n\t<meta property=\"og:image:height\" content=\"1548\" \/>\n\t<meta property=\"og:image:type\" content=\"image\/png\" \/>\n<meta name=\"twitter:card\" content=\"summary_large_image\" \/>\n<meta name=\"twitter:label1\" content=\"Gesch\u00e4tzte Lesezeit\" \/>\n\t<meta name=\"twitter:data1\" content=\"1\u00a0Minute\" \/>\n<script type=\"application\/ld+json\" class=\"yoast-schema-graph\">{\"@context\":\"https:\\\/\\\/schema.org\",\"@graph\":[{\"@type\":\"WebPage\",\"@id\":\"https:\\\/\\\/www.h-its.org\\\/de\\\/projects\\\/protein-structures-in-systems-biology-4\\\/\",\"url\":\"https:\\\/\\\/www.h-its.org\\\/de\\\/projects\\\/protein-structures-in-systems-biology-4\\\/\",\"name\":\"Protein structures in systems biology - 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