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This page visualizes
validation
data brought into Jmol using the LOAD /val option. For example: load *1cbs/val  Zoom out automatically Add labels raw data (JSON) summary report (PDF) full report (PDF) Click on an atom to center it and show the electron density within Angstroms of its group. zoom out set platformSpeed... 8 7 6 5 4 3 2 1 |
 Jmol._Canvas2D (Jmol) "jmolApplet0"[x] loadScript j2s/core/package.js loadScript j2s/core/corejmol.z.js loadScript j2s/J/translation/PO.js loadScript j2s/core/corescript.z.js JSmol exec jmolApplet0 start applet null Jmol JavaScript applet jmolApplet0__41607214858144__ initializing Jmol getValue debug null Jmol getValue logLevel null Jmol getValue allowjavascript null AppletRegistry.checkIn(jmolApplet0__41607214858144__) vwrOptions: { "LOADSTRUCTCallback":"fileLoaded","appletReadyCallback":"Jmol._readyCallback","applet":true,"name":"jmolApplet0","syncId":"41607214858144","bgcolor":"white","signedApplet":"true","platform":"J.awtjs2d.Platform","display":"jmolApplet0_canvas2d","documentBase":"https://chemapps.stolaf.edu/jmol/jsmol/validation.htm","codePath":"https://chemapps.stolaf.edu/jmol/jsmol/j2s/","fullName":"jmolApplet0__41607214858144__","statusListener":"[J.appletjs.Jmol object]" } setting document base to "https://chemapps.stolaf.edu/jmol/jsmol/validation.htm" (C) 2015 Jmol Development Jmol Version: 16.2.31 2024-09-14 12:17 java.vendor: Java2Script (HTML5) java.version: 2022-06-24 05:54:49 (JSmol/j2s) os.name: Mozilla/5.0 AppleWebKit/537.36 (KHTML, like Gecko; compatible; ClaudeBot/1.0; +claudebot@anthropic.com) Access: ALL memory: 0.0/0.0 processors available: 1 useCommandThread: false appletId:jmolApplet0 (signed) 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" StatusManager APPLETREADYcallback set f=Jmol._readyCallback Jmol getValue ATOMMOVEDCallback null Jmol getValue AUDIOCallback 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 IMAGECallback null Jmol getValue LOADSTRUCTCallback fileLoaded LOADSTRUCTCallback = "fileLoaded" StatusManager LOADSTRUCTcallback set f=fileLoaded Jmol getValue MEASURECallback null Jmol getValue MESSAGECallback null Jmol getValue MINIMIZATIONCallback null Jmol getValue MODELKITCallback null Jmol getValue PICKCallback null Jmol getValue RESIZECallback null Jmol getValue SCRIPTCallback null Jmol getValue SELECTCallback null Jmol getValue SERVICECallback null Jmol getValue STRUCTUREMODIFIEDCallback null Jmol getValue SYNCCallback 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 jmolApplet0__41607214858144__ ready script 1 started StatusManager PICKcallback set f=jmolOnClick pickcallback = "jmolOnClick" measurementUnits = "angstroms" zoomLarge = false loadScript j2s/core/coretext.z.js loading 1cbs... loadScript j2s/J/io/FilesReader.js loadScript j2s/J/api/JmolFilesReaderInterface.js FileManager opening url https://www.ebi.ac.uk/pdbe/entry-files/download/1cbs.cif FileManager opening url https://www.ebi.ac.uk/pdbe/api/validation/outliers/all/1cbs?pretty=false&metadata=true The Resolver thinks MMCif loadScript j2s/J/adapter/readers/cif/MMCifReader.js loadScript j2s/J/adapter/readers/cif/CifReader.js loadScript j2s/JU/CifDataParser.js loadScript j2s/core/corebio.z.js TITLE: Crystal structures of cellular retinoic acid binding proteins I and II in complex with all-trans-retinoic acid and a synthetic retinoid. TITLE: Lipid-Binding Proteins: A Family of Fatty Acid and Retinoid Transport Proteins TITLE: Crystallisation and Preliminary X-Ray Analysis of Recombinant Bovine Cellular Retinoic Acid-Binding Protein TITLE: Crystallographic Studies on a Family of Lipophilic Transport Proteins. Refinement of P2 Myelin Protein and the Structure Determination and Refinement of Cellular Retinol-Binding Protein in Complex with All-Trans-Retinol TITLE: The Three-Dimensional Structure of P2 Myelin Protein HOH = WATER REA = RETINOIC ACID Setting space group name to HM:P 21 21 21 biomolecule 1 operators 1 ASYM_IDs A,B,C found biomolecule 1: A,B,C 1CBS loadScript j2s/J/adapter/readers/cif/MMCifValidationParser.js loadScript j2s/J/dssx/AnnotationParser.js Validations loaded: property_sidechains (residues: 3) property_clashes (atoms: 14, max: 1.46) property_types_of_outliers (residues: 16) loadScript j2s/core/coresym.z.js SpaceGroup - 661 settings generated Precision set to 4; packing set to 0.02 openFiles(2) 4970 ms reading 1213 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 Jmol 1213 atoms created ModelSet: autobonding; use autobond=false to not generate bonds automatically creating property_sidechains for model 1CBS loadScript j2s/JV/DataManager.js loadScript j2s/J/api/JmolDataManager.js creating property_clashes for model 1CBS creating property_types_of_outliers for model 1CBS loadScript j2s/core/coreprop.z.js Time for creating model: 156 ms TITLE: Crystal structures of cellular retinoic acid binding proteins I and II in complex with all-trans-retinoic acid and a synthetic retinoid. TITLE: Lipid-Binding Proteins: A Family of Fatty Acid and Retinoid Transport Proteins TITLE: Crystallisation and Preliminary X-Ray Analysis of Recombinant Bovine Cellular Retinoic Acid-Binding Protein TITLE: Crystallographic Studies on a Family of Lipophilic Transport Proteins. Refinement of P2 Myelin Protein and the Structure Determination and Refinement of Cellular Retinol-Binding Protein in Complex with All-Trans-Retinol TITLE: The Three-Dimensional Structure of P2 Myelin Protein HOH = WATER REA = RETINOIC ACID found biomolecule 1: A,B,C 1CBS Validations loaded: property_sidechains (residues: 3) property_clashes (atoms: 14, max: 1.46) property_types_of_outliers (residues: 16) Precision set to 4; packing set to 0.02 loadScript j2s/core/corescriptmath.z.js 1cbs Script completed Jmol script terminated | |||
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