{"id":711,"date":"2011-04-04T10:23:44","date_gmt":"2011-04-04T17:23:44","guid":{"rendered":"http:\/\/blogs.oregonstate.edu\/psquared\/?p=711"},"modified":"2011-04-04T10:31:08","modified_gmt":"2011-04-04T17:31:08","slug":"the-big-picture","status":"publish","type":"post","link":"https:\/\/blogs.oregonstate.edu\/psquared\/2011\/04\/04\/the-big-picture\/","title":{"rendered":"The big picture"},"content":{"rendered":"<p>Today let&#8217;s discuss <em>protein <span style=\"text-decoration: underline\">form<\/span><\/em> from the top down. \u00a0That is not the conventional direction taken in biochemistry courses where we usually begin with the elementary building blocks and work our way up. \u00a0(I&#8217;m fighting laryngitis this morning, so for this discussion, I&#8217;ll need all the \u00a0&#8220;media crutches&#8221; I can find.)<\/p>\n<h4>The birth of a protein<\/h4>\n<div id=\"attachment_712\" style=\"width: 309px\" class=\"wp-caption alignnone\"><a href=\"http:\/\/blogs.oregonstate.edu\/psquared\/files\/2011\/04\/ribosomeP.jpg\"><img loading=\"lazy\" decoding=\"async\" aria-describedby=\"caption-attachment-712\" class=\"size-medium wp-image-712\" title=\"ribosomeP\" src=\"http:\/\/blogs.oregonstate.edu\/psquared\/files\/2011\/04\/ribosomeP-299x300.jpg\" alt=\"\" width=\"299\" height=\"300\" srcset=\"https:\/\/osu-wams-blogs-uploads.s3.amazonaws.com\/blogs.dir\/150\/files\/2011\/04\/ribosomeP-299x300.jpg 299w, https:\/\/osu-wams-blogs-uploads.s3.amazonaws.com\/blogs.dir\/150\/files\/2011\/04\/ribosomeP-150x150.jpg 150w, https:\/\/osu-wams-blogs-uploads.s3.amazonaws.com\/blogs.dir\/150\/files\/2011\/04\/ribosomeP.jpg 440w\" sizes=\"auto, (max-width: 299px) 100vw, 299px\" \/><\/a><p id=\"caption-attachment-712\" class=\"wp-caption-text\">From Waltz of the Polypeptides, by Mara Haseltine<\/p><\/div>\n<h4>Protein structure classification<\/h4>\n<p><a href=\"http:\/\/blogs.oregonstate.edu\/psquared\/files\/2011\/04\/scop_logo_small2.gif\"><img loading=\"lazy\" decoding=\"async\" class=\"alignnone size-full wp-image-720\" title=\"scop_logo_small\" src=\"http:\/\/blogs.oregonstate.edu\/psquared\/files\/2011\/04\/scop_logo_small2.gif\" alt=\"\" width=\"325\" height=\"143\" srcset=\"https:\/\/osu-wams-blogs-uploads.s3.amazonaws.com\/blogs.dir\/150\/files\/2011\/04\/scop_logo_small2.gif 325w, https:\/\/osu-wams-blogs-uploads.s3.amazonaws.com\/blogs.dir\/150\/files\/2011\/04\/scop_logo_small2-300x132.gif 300w\" sizes=\"auto, (max-width: 325px) 100vw, 325px\" \/><\/a><\/p>\n<p><a href=\"http:\/\/blogs.oregonstate.edu\/psquared\/files\/2011\/04\/header_cath_logo1.png\"><img loading=\"lazy\" decoding=\"async\" class=\"alignnone size-full wp-image-719\" title=\"header_cath_logo\" src=\"http:\/\/blogs.oregonstate.edu\/psquared\/files\/2011\/04\/header_cath_logo1.png\" alt=\"\" width=\"186\" height=\"100\" \/><\/a><\/p>\n<h4>How many folds?<\/h4>\n<p><a href=\"http:\/\/www.lbl.gov\/Publications\/Currents\/Archive\/Apr-01-2005.html#story4\"><img loading=\"lazy\" decoding=\"async\" class=\"alignnone size-full wp-image-730\" title=\"protein universe\" src=\"http:\/\/blogs.oregonstate.edu\/psquared\/files\/2011\/04\/protein-universe2.jpg\" alt=\"\" width=\"400\" height=\"427\" srcset=\"https:\/\/osu-wams-blogs-uploads.s3.amazonaws.com\/blogs.dir\/150\/files\/2011\/04\/protein-universe2.jpg 400w, https:\/\/osu-wams-blogs-uploads.s3.amazonaws.com\/blogs.dir\/150\/files\/2011\/04\/protein-universe2-281x300.jpg 281w\" sizes=\"auto, (max-width: 400px) 100vw, 400px\" \/><\/a><\/p>\n<h4>From 1D to 3D structure: \u00a0The protein folding problem.<\/h4>\n<p><a href=\"http:\/\/www.infobiotics.org\/PSPbenchmarks\/about.html\"><img loading=\"lazy\" decoding=\"async\" class=\"alignnone size-thumbnail wp-image-716\" title=\"from 1D to 3D\" src=\"http:\/\/blogs.oregonstate.edu\/psquared\/files\/2011\/04\/from-1D-to-3D-150x150.jpg\" alt=\"\" width=\"150\" height=\"150\" \/><\/a><\/p>\n<h4>The hierarchy of protein structure<\/h4>\n<p><a href=\"http:\/\/bioinf.mpi-inf.mpg.de\/conferences\/ismb99\/WWW\/TUTORIALS\/Brutlag\/brutlag.html\"><img loading=\"lazy\" decoding=\"async\" class=\"alignnone size-full wp-image-724\" title=\"Geiss hierarchy\" src=\"http:\/\/blogs.oregonstate.edu\/psquared\/files\/2011\/04\/Geiss-hierarchy.gif\" alt=\"\" width=\"709\" height=\"370\" srcset=\"https:\/\/osu-wams-blogs-uploads.s3.amazonaws.com\/blogs.dir\/150\/files\/2011\/04\/Geiss-hierarchy.gif 886w, https:\/\/osu-wams-blogs-uploads.s3.amazonaws.com\/blogs.dir\/150\/files\/2011\/04\/Geiss-hierarchy-300x156.gif 300w\" sizes=\"auto, (max-width: 709px) 100vw, 709px\" \/><\/a><\/p>\n<h4>Details<\/h4>\n<p><a href=\"http:\/\/www.tulane.edu\/~biochem\/med\/second.htm\"><img loading=\"lazy\" decoding=\"async\" class=\"alignnone size-thumbnail wp-image-722\" title=\"chainbox\" src=\"http:\/\/blogs.oregonstate.edu\/psquared\/files\/2011\/04\/chainbox-150x150.gif\" alt=\"\" width=\"150\" height=\"150\" \/><\/a><\/p>\n<p><a href=\"http:\/\/www.tulane.edu\/~biochem\/med\/second.htm\"><img loading=\"lazy\" decoding=\"async\" class=\"alignnone size-thumbnail wp-image-723\" title=\"phipsi\" src=\"http:\/\/blogs.oregonstate.edu\/psquared\/files\/2011\/04\/phipsi-150x150.gif\" alt=\"\" width=\"150\" height=\"150\" \/><\/a><\/p>\n","protected":false},"excerpt":{"rendered":"<p>Today let&#8217;s discuss protein form from the top down. \u00a0That is not the conventional direction taken in biochemistry courses where we usually begin with the elementary building blocks and work our way up. \u00a0(I&#8217;m fighting laryngitis this morning, so for &hellip; <a href=\"https:\/\/blogs.oregonstate.edu\/psquared\/2011\/04\/04\/the-big-picture\/\">Continue reading <span class=\"meta-nav\">&rarr;<\/span><\/a><\/p>\n","protected":false},"author":196,"featured_media":0,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[4797],"tags":[],"class_list":["post-711","post","type-post","status-publish","format-standard","hentry","category-student-posts"],"_links":{"self":[{"href":"https:\/\/blogs.oregonstate.edu\/psquared\/wp-json\/wp\/v2\/posts\/711","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/blogs.oregonstate.edu\/psquared\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/blogs.oregonstate.edu\/psquared\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/blogs.oregonstate.edu\/psquared\/wp-json\/wp\/v2\/users\/196"}],"replies":[{"embeddable":true,"href":"https:\/\/blogs.oregonstate.edu\/psquared\/wp-json\/wp\/v2\/comments?post=711"}],"version-history":[{"count":8,"href":"https:\/\/blogs.oregonstate.edu\/psquared\/wp-json\/wp\/v2\/posts\/711\/revisions"}],"predecessor-version":[{"id":728,"href":"https:\/\/blogs.oregonstate.edu\/psquared\/wp-json\/wp\/v2\/posts\/711\/revisions\/728"}],"wp:attachment":[{"href":"https:\/\/blogs.oregonstate.edu\/psquared\/wp-json\/wp\/v2\/media?parent=711"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/blogs.oregonstate.edu\/psquared\/wp-json\/wp\/v2\/categories?post=711"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/blogs.oregonstate.edu\/psquared\/wp-json\/wp\/v2\/tags?post=711"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}