var jmolApplet346_1; // set up in HTML table, below // logic is set by indicating order of USE — default is HTML5 var use = “HTML5”; // JAVA HTML5 WEBGL IMAGE are all options var s = document.location.search; // Developers: The _debugCode flag is checked in j2s/core/core.z.js, // and, if TRUE, skips loading the core methods, forcing those // to be read from their individual directories. Set this // true if you want to do some code debugging by inserting // System.out.println, document.title, or alert commands // anywhere in the Java or Jmol code. Jmol._debugCode = (s.indexOf(“debugcode”) >= 0); jmol_isReady = function(applet) { Jmol._getElement(applet, “appletdiv”).style.border=”1px solid blue”; }; // _load_ is replaced in getTemplate() to supply a set of load and default format commands script = ‘set echo top left;echo loading mcg8…;refresh;load /wp-content/uploads/sites/20/2015/02/mcg8.pdb; spacefill off;wireframe off;cartoons on;color structure;spin off;set echo top center; echo mcg8;’; var Info = { width: 400, height: 400, debug: false, color: “white”, addSelectionOptions: false, serverURL: “/wp-content/plugins/jsmol2wp/php/jsmol.php”, use: “HTML5”, j2sPath: “/wp-content/plugins/jsmol2wp/j2s”, readyFunction: jmol_isReady, script: script, disableInitialConsole: true }; // these are conveniences that mimic behavior of Jmol.js function jmolCheckbox(script1, script0,text,ischecked) {Jmol.jmolCheckbox(jmolApplet346_1,script1, script0, text, ischecked);} function jmolButton(script, text) {Jmol.jmolButton(jmolApplet346_1, script,text);} function jmolHtml(s) { document.write(s); } function jmolBr() { jmolHtml(“
“); } function jmolMenu(a) {Jmol.jmolMenu(jmolApplet346_1, a);}

MCG8 or any caption you like jmolApplet346_1 = Jmol.getApplet(“jmolApplet346_1”, Info); Jmol._Canvas2D (Jmol) “jmolApplet346_1”[x]     /wp-content/plugins/jsmol2wp/j2s/core/package.js — required by ClazzNode ajax=false async=true     /wp-content/plugins/jsmol2wp/j2s/core/core.z.js — required by ClazzNode ajax=false async=true JSmol exec jmolApplet346_0 start applet null Jmol JavaScript applet jmolApplet346_0__6373431669814811__ initializing Jmol getValue debug null Jmol getValue logLevel null Jmol getValue allowjavascript null AppletRegistry.checkIn(jmolApplet346_0__6373431669814811__) vwrOptions: { “name”:”jmolApplet346_0″,”applet”:true,”documentBase”:”https://xray.//wpprod.chem.ufl.edu/pdb-test/”,”platform”:”J.awtjs2d.Platform”,”fullName”:”jmolApplet346_0__6373431669814811__”,”codePath”:”https:/wp-content/plugins/jsmol2wp/j2s/”,”display”:”jmolApplet346_0_canvas2d”,”signedApplet”:”true”,”appletReadyCallback”:”Jmol._readyCallback”,”statusListener”:”[J.appletjs.Jmol object]”,”syncId”:”6373431669814811″,”bgcolor”:”white” } setting document base to “https://xray.//wpprod.chem.ufl.edu/pdb-test/” (C) 2012 Jmol Development Jmol Version: 14.3.12_2015.01.28 2015-01-28 11:05 java.vendor: Java2Script (HTML5) java.version: 2014-12-19 08:17:57 (JSmol/j2s) os.name: Mozilla/5.0 (Windows NT 6.1; WOW64; rv:37.0) Gecko/20100101 Firefox/37.0 Access: ALL memory: 0.0/0.0 processors available: 1 useCommandThread: false appletId:jmolApplet346_0 (signed)     /wp-content/plugins/jsmol2wp/j2s/core/corescript.z.js — required by ClazzNode ajax=true async=false Jmol getValue emulate null defaults = “Jmol” Jmol getValue boxbgcolor null Jmol getValue bgcolor white backgroundColor = “white” Jmol getValue ANIMFRAMECallback null Jmol getValue APPLETREADYCallback Jmol._readyCallback APPLETREADYCallback = “Jmol._readyCallback” callback set for APPLETREADYCallback Jmol._readyCallback APPLETREADY Jmol getValue ATOMMOVEDCallback null Jmol getValue CLICKCallback null Jmol getValue DRAGDROPCallback null Jmol getValue ECHOCallback null Jmol getValue ERRORCallback null Jmol getValue EVALCallback null Jmol getValue HOVERCallback null Jmol getValue LOADSTRUCTCallback null Jmol getValue MEASURECallback null Jmol getValue MESSAGECallback null Jmol getValue MINIMIZATIONCallback null Jmol getValue SERVICECallback null Jmol getValue PICKCallback null Jmol getValue RESIZECallback null Jmol getValue SCRIPTCallback null Jmol getValue SYNCCallback null Jmol getValue STRUCTUREMODIFIEDCallback null Jmol getValue doTranslate null language=en_US Jmol getValue popupMenu null Jmol getValue script null Jmol getValue loadInline null Jmol getValue load null Jmol applet jmolApplet346_0__6373431669814811__ ready script 1 started loading mcg8…      FileManager.getAtomSetCollectionFromFile(/wp-content/uploads/sites/20/2015/02/rajan1.pdb) FileManager opening 1 https://xray.//wpprod.chem.ufl.edu/wp-content/uploads/sites/20/2015/02/rajan1.pdb The Resolver thinks Pdb     /wp-content/plugins/jsmol2wp/j2s/core/corebio.z.js — required by ClazzNode ajax=true async=false     /wp-content/plugins/jsmol2wp/j2s/J/render/MeshRenderer.js — required by J.renderbio.BioShapeRenderer ajax=true async=false     /wp-content/plugins/jsmol2wp/j2s/J/shape/Mesh.js — required by J.renderbio.BioShapeRenderer ajax=true async=false     /wp-content/plugins/jsmol2wp/j2s/J/renderbio/RocketRenderer.js — required by J.renderbio.RocketsRenderer ajax=true async=false Time for openFile(/wp-content/uploads/sites/20/2015/02/rajan1.pdb): 824 ms reading 62 atoms ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false 1 model in this collection. Use getProperty “modelInfo” or getProperty “auxiliaryInfo” to inspect them. Default Van der Waals type for model set to Babel 62 atoms created ModelSet: not autobonding; use forceAutobond=true to force automatic bond creation null rajan1 Script completed Jmol script terminated      FileManager.getAtomSetCollectionFromFile(/wp-content/uploads/sites/20/2015/02/mcg8.pdb) FileManager opening 1 https://xray.//wpprod.chem.ufl.edu/wp-content/uploads/sites/20/2015/02/mcg8.pdb The Resolver thinks Pdb Time for openFile(/wp-content/uploads/sites/20/2015/02/mcg8.pdb): 540 ms reading 230 atoms ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false 1 model in this collection. Use getProperty “modelInfo” or getProperty “auxiliaryInfo” to inspect them. Default Van der Waals type for model set to Babel 230 atoms created ModelSet: not autobonding; use forceAutobond=true to force automatic bond creation null mcg8 Script completed Jmol script terminated     /wp-content/plugins/jsmol2wp/j2s/J/g3d/HermiteRenderer.js — required by ClazzNode ajax=true async=false

Jmol.setButtonCss(null,”style=’width:100px'”); jmolButton(“if(_spinning);spin off;spinflag = false;else;spin on;spinflag = true;endif”,”toggle spin”); Jmol.script(jmolApplet346_1,”spacefill 23%;wireframe 0.15; color cpk;”); jmolButton(‘reset;select all;load /wp-content/uploads/sites/20/2015/02/mcg8.pdb; spacefill off;wireframe off;cartoons on;color structure;spin off;set echo top center; echo mcg8;spacefill 23%;wireframe 0.15; color cpk;’,’reset’) jmolBr(); Jmol.setButtonCss(null,”style=’width:100px'”) jmolButton(“color cpk”);jmolButton(“color group”);jmolButton(“color amino”);jmolButton(“color structure”);jmolBr(); jmolButton(“trace only”);jmolButton(“cartoon only”);jmolButton(“backbone only”);jmolButton(“spacefill 23%;wireframe 0.15″,”ball&stick”); About/Help