JSmol is an HTML5-only version of Jmol. For a zip file containing all the files in this directory, see http://chemapps.stolaf.edu/jmol/zip/Jmol.zip. This page demonstrates HTML5-only Jmol. See test2.htm for a version that can use the signed Jmol applet, the unsigned Jmol applet, or JavaScript/HTML5 with or without WebGL. Credits: WebGL interface written by Takanori Nakane. Java2Script written by Zhou Renjian, et al. Jzlib written by Atsuhiko Yamanaka. Jmol code conversion to JavaScript by Bob Hanson.

Jmol._Canvas2D (Jmol) "jmolApplet0"[x] loading... j2s/core/package.js loading... j2s/core/core.z.js -- required by ClazzNode loading... j2s/J/modelset/Bond/BondSet.js loading... j2s/core/corebinary.z.js loading... j2s/core/coreconsole.z.js loading... j2s/javajs/api/ZInputStream.js loading... j2s/J/util/ModulationSet.js loading... j2s/J/modelset/Bond/BondSet.js -- required by w3c script failed Jmol JavaScript applet jmolApplet0_object__539087494993161__ initializing getValue debug = null getValue logLevel = null getValue allowjavascript = true AppletRegistry.checkIn(jmolApplet0_object__539087494993161__) viewerOptions: { "name":"jmolApplet0_object","allowJavaScript":true,"applet":true,"documentBase":"https://chemapps.stolaf.edu/jmol/jsmol-2013-11-25/jsmol.htm","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0_object__539087494993161__","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol.MyStatusListener object]","codeBase":"https://chemapps.stolaf.edu/jmol/jsmol-2013-11-25/j2s/","syncId":"539087494993161","bgcolor":"#FFFFFF" } setting document base to "https://chemapps.stolaf.edu/jmol/jsmol-2013-11-25/jsmol.htm" (C) 2012 Jmol Development Jmol Version: 13.3.9 2013-11-22 09:07: java.vendor: j2s java.version: 0.0 os.name: j2s Access: ALL memory: 0.0/0.0 processors available: 1 useCommandThread: false appletId:jmolApplet0_object (signed) starting HoverWatcher_1 getValue emulate = null defaults = "Jmol" getValue boxbgcolor = null getValue bgcolor = #FFFFFF backgroundColor = "#FFFFFF" getValue ANIMFRAMECallback = null getValue APPLETREADYCallback = Jmol._readyCallback APPLETREADYCallback = "Jmol._readyCallback" getValue ATOMMOVEDCallback = null getValue CLICKCallback = null getValue ECHOCallback = null getValue ERRORCallback = null getValue EVALCallback = null getValue HOVERCallback = null getValue LOADSTRUCTCallback = null getValue MEASURECallback = null getValue MESSAGECallback = null getValue MINIMIZATIONCallback = null getValue PICKCallback = null getValue RESIZECallback = null getValue SCRIPTCallback = null getValue SYNCCallback = null getValue STRUCTUREMODIFIEDCallback = null getValue doTranslate = null language=en_US getValue popupMenu = null getValue script = null Jmol applet jmolApplet0_object__539087494993161__ ready loading... j2s/core/corescript.z.js loading... j2s/J/api/JmolParallelProcessor.js starting QueueThread0_2 script 1 started antialiasDisplay = true loading... j2s/core/corestate.z.js   FileManager.getAtomSetCollectionFromFile(data/caffeine.mol) starting HoverWatcher_3 FileManager opening 1 https://chemapps.stolaf.edu/jmol/jsmol-2013-11-25/data/caffeine.mol The Resolver thinks Mol C8H10N4O2 APtclcactv10291122543D 0 0.00000 0.00000   Time for openFile(data/caffeine.mol): 208 ms reading 24 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 24 atoms created ModelSet: not autobonding; use forceAutobond=true to force automatic bond creation Script completed Jmol script terminated NCI(small molecules)PubChem(small molecules)RCSB(macromolecules)Search console image display faster sharper platformSpeed: 8 7 6 5 4 3 2 1 info show clear hide spacefill wire ball&stick cartoons fancy not flat color atomno color cpk color structure isosurface vdw off mep translucent opaque labels on off echo larger smaller

Try various buttons. If anything doesn't work please let me know. Enter "!" and a command into the search box and press ENTER or open the applet console to execute a script command. keyword searches =caffeine? (RCSB) =1blu? (RCSB) =1crn? (RCSB) this-domain calls 2.2MB EDM test local file reading writing saving(PNGJ) make a nanotube minimize drag-minimize !quit flexible fit PyMOL session - dna estron.cml vasp.xml water.xodydata thread test pause resume !quit !exit moveto delay/hover animation spin/vibration mo homo SQUARED load data/1hxw.png (image) load data/square_planar.spartan load data/water.xyz.gz load data/no2_nbo.log.gz pmesh "data/sage.pmesh" load data/caffeine.mol isosurface "caffeine.jvxl" load data/1crn.pdb load data/k04041.cif {1 1 1} load data/cl2o.gamess (load +) mo homo mo lumo mesh fill image x 0.5 x 1.0 x 2.0 off on front mid back cyclflip2.spt !quit direct database calls(unless MSIE) load $caffeine (from NCI) load =1blu (from RCSB) load =1d66 (from RCSB) load =4tra (from RCSB) load :1983 (PubChem CID) load :aspirin (PubChem name) load :smiles:CC/C=C/CC (PubChem SMILES) load $CC/C=C/CC (NCI SMILES) load :caffeine (PubChem, with mep) load $caffeine (NCI, with MMFF94 mep) load ==HEM (RCSB ligand)