Jmol._Canvas2D (Jmol) "jmolAppletA"[x] script 1 started FileManager.getAtomSetCollectionFromFile(https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/data/1crn.pdb) FileManager opening url https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/data/1crn.pdb The Resolver thinks Pdb loadScript ./j2s/core/corebio.z.js JSmol exec jmolAppletB start applet null Jmol JavaScript applet jmolAppletB__799124567590677__ initializing Jmol getValue debug null Jmol getValue logLevel null Jmol getValue allowjavascript null AppletRegistry.checkIn(jmolAppletB__799124567590677__) vwrOptions: { "name":"jmolAppletB","applet":true,"documentBase":"https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/sync4.htm","platform":"J.awtjs2d.Platform","fullName":"jmolAppletB__799124567590677__","codePath":"https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/./j2s/","display":"jmolAppletB_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"799124567590677","bgcolor":"#FFFFFF" } setting document base to "https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/sync4.htm" (C) 2015 Jmol Development Jmol Version: 14.31.7 2020-09-22 08:42 java.vendor: Java2Script (HTML5) java.version: 2019-06-08 00:17:46 (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:jmolAppletB (signed) Jmol getValue emulate null defaults = "Jmol" Jmol getValue boxbgcolor null Jmol getValue bgcolor #FFFFFF backgroundColor = "#FFFFFF" Jmol getValue ANIMFRAMECallback null Jmol getValue APPLETREADYCallback Jmol._readyCallback APPLETREADYCallback = "Jmol._readyCallback" StatusManager callback set for APPLETREADYCallback f=Jmol._readyCallback cb=APPLETREADY 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 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 jmolAppletB__799124567590677__ ready Script completed Jmol script terminated JSmol exec jmolAppletD start applet null Jmol JavaScript applet jmolAppletD__799124567590677__ initializing Jmol getValue debug null Jmol getValue logLevel null Jmol getValue allowjavascript null AppletRegistry.checkIn(jmolAppletD__799124567590677__) vwrOptions: { "name":"jmolAppletD","applet":true,"documentBase":"https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/sync4.htm","platform":"J.awtjs2d.Platform","fullName":"jmolAppletD__799124567590677__","codePath":"https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/./j2s/","display":"jmolAppletD_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"799124567590677","bgcolor":"#FFFFFF" } setting document base to "https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/sync4.htm" (C) 2015 Jmol Development Jmol Version: 14.31.7 2020-09-22 08:42 java.vendor: Java2Script (HTML5) java.version: 2019-06-08 00:17:46 (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:jmolAppletD (signed) Jmol getValue emulate null defaults = "Jmol" Jmol getValue boxbgcolor null Jmol getValue bgcolor #FFFFFF backgroundColor = "#FFFFFF" Jmol getValue ANIMFRAMECallback null Jmol getValue APPLETREADYCallback Jmol._readyCallback APPLETREADYCallback = "Jmol._readyCallback" StatusManager callback set for APPLETREADYCallback f=Jmol._readyCallback cb=APPLETREADY 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 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 jmolAppletD__799124567590677__ ready Script completed Jmol script terminated Jmol 14.31.7 2020-09-22 08:42 DSSP analysis for model 1.1 - 1CRN W. Kabsch and C. Sander, Biopolymers, vol 22, 1983, pp 2577-2637 We thank Wolfgang Kabsch and Chris Sander for writing the DSSP software, and we thank the CMBI for maintaining it to the extent that it was easy to re-engineer in Java for our purposes. Second generation DSSP 2.0 is used in this analysis. See Int. J. Mol. Sci. 2014, 15, 7841-7864; doi:10.3390/ijms15057841. All bioshapes have been deleted and must be regenerated. ------------------------------ 65.1.8: 65.1.7: 1 2 3 4 65.1.6: 1234567890123456789012345678901234567890123456 65.1.5: ...............>5555<......................... 65.1.4: .....>>>>XXXXX<<<<...>>>>XX<<<<............... 65.1.3: ..............>3><3<.>33<...............>>3<<. 65.1.1: .EE...HHHHHHHHHHHTTT..HHHHHHHH..EE.......GGG.. 65.1.0: TTCCPSIVARSNFNVCRLPGTPEAICATYTGCIIIPGATCPGDYAN SUMMARY: E : A:2_A:3 H : A:7_A:17 T : A:18_A:20 H : A:23_A:30 E : A:33_A:34 G : A:42_A:44 Script completed Jmol script terminated PLANT SEED PROTEIN 30-APR-81 1CRN WATER STRUCTURE OF A HYDROPHOBIC PROTEIN AT ATOMIC RESOLUTION. PENTAGON RINGS OF WATER MOLECULES IN CRYSTALS OF CRAMBIN found biomolecule 1: A biomolecule 1: number of transforms: 1 Setting space group name to P 1 21 1 1CRN Time for openFile(https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/data/1crn.pdb): 166 ms reading 327 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 327 atoms created ModelSet: autobonding; use autobond=false to not generate bonds automatically Time for creating model: 15 ms PLANT SEED PROTEIN 30-APR-81 1CRN WATER STRUCTURE OF A HYDROPHOBIC PROTEIN AT ATOMIC RESOLUTION. PENTAGON RINGS OF WATER MOLECULES IN CRYSTALS OF CRAMBIN found biomolecule 1: A 1CRN Script completed Jmol script terminated script 2 started Script completed Jmol script terminated script 3 started Script completed Jmol script terminated script 4 started Script completed Jmol script terminated script 5 started Script completed Jmol script terminated loadScript ./j2s/J/g3d/HermiteRenderer.js File-derived structure |
Jmol._Canvas2D (Jmol) "jmolAppletB"[x] script 1 started FileManager.getAtomSetCollectionFromFile(https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/data/1crn.pdb) FileManager opening url https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/data/1crn.pdb The Resolver thinks Pdb PLANT SEED PROTEIN 30-APR-81 1CRN WATER STRUCTURE OF A HYDROPHOBIC PROTEIN AT ATOMIC RESOLUTION. PENTAGON RINGS OF WATER MOLECULES IN CRYSTALS OF CRAMBIN found biomolecule 1: A biomolecule 1: number of transforms: 1 Setting space group name to P 1 21 1 1CRN Time for openFile(https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/data/1crn.pdb): 94 ms reading 327 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 327 atoms created ModelSet: autobonding; use autobond=false to not generate bonds automatically Time for creating model: 45 ms PLANT SEED PROTEIN 30-APR-81 1CRN WATER STRUCTURE OF A HYDROPHOBIC PROTEIN AT ATOMIC RESOLUTION. PENTAGON RINGS OF WATER MOLECULES IN CRYSTALS OF CRAMBIN found biomolecule 1: A 1CRN loadScript ./j2s/core/corescriptcmd.z.js JSmol exec jmolAppletC start applet null Jmol JavaScript applet jmolAppletC__799124567590677__ initializing Jmol getValue debug null Jmol getValue logLevel null Jmol getValue allowjavascript null AppletRegistry.checkIn(jmolAppletC__799124567590677__) vwrOptions: { "name":"jmolAppletC","applet":true,"documentBase":"https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/sync4.htm","platform":"J.awtjs2d.Platform","fullName":"jmolAppletC__799124567590677__","codePath":"https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/./j2s/","display":"jmolAppletC_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"799124567590677","bgcolor":"#FFFFFF" } setting document base to "https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/sync4.htm" (C) 2015 Jmol Development Jmol Version: 14.31.7 2020-09-22 08:42 java.vendor: Java2Script (HTML5) java.version: 2019-06-08 00:17:46 (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:jmolAppletC (signed) Jmol getValue emulate null defaults = "Jmol" Jmol getValue boxbgcolor null Jmol getValue bgcolor #FFFFFF backgroundColor = "#FFFFFF" Jmol getValue ANIMFRAMECallback null Jmol getValue APPLETREADYCallback Jmol._readyCallback APPLETREADYCallback = "Jmol._readyCallback" StatusManager callback set for APPLETREADYCallback f=Jmol._readyCallback cb=APPLETREADY 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 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 jmolAppletC__799124567590677__ ready Jmol-derived structure |
Jmol._Canvas2D (Jmol) "jmolAppletC"[x] script 1 started FileManager.getAtomSetCollectionFromFile(https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/data/1crn.pdb) FileManager opening url https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/data/1crn.pdb The Resolver thinks Pdb PLANT SEED PROTEIN 30-APR-81 1CRN WATER STRUCTURE OF A HYDROPHOBIC PROTEIN AT ATOMIC RESOLUTION. PENTAGON RINGS OF WATER MOLECULES IN CRYSTALS OF CRAMBIN found biomolecule 1: A biomolecule 1: number of transforms: 1 Setting space group name to P 1 21 1 1CRN Time for openFile(https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/data/1crn.pdb): 59 ms reading 327 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 327 atoms created ModelSet: autobonding; use autobond=false to not generate bonds automatically Time for creating model: 37 ms PLANT SEED PROTEIN 30-APR-81 1CRN WATER STRUCTURE OF A HYDROPHOBIC PROTEIN AT ATOMIC RESOLUTION. PENTAGON RINGS OF WATER MOLECULES IN CRYSTALS OF CRAMBIN found biomolecule 1: A 1CRN wireframe (independently rotatable follower) |
Jmol._Canvas2D (Jmol) "jmolAppletD"[x] loadScript ./j2s/core/package.js loadScript ./j2s/core/corejmol.z.js JSmol exec jmolAppletA start applet null Jmol JavaScript applet jmolAppletA__799124567590677__ initializing Jmol getValue debug null Jmol getValue logLevel null Jmol getValue allowjavascript null AppletRegistry.checkIn(jmolAppletA__799124567590677__) vwrOptions: { "name":"jmolAppletA","applet":true,"documentBase":"https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/sync4.htm","platform":"J.awtjs2d.Platform","fullName":"jmolAppletA__799124567590677__","codePath":"https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/./j2s/","display":"jmolAppletA_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"799124567590677","bgcolor":"#FFFFFF" } setting document base to "https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/sync4.htm" (C) 2015 Jmol Development Jmol Version: 14.31.7 2020-09-22 08:42 java.vendor: Java2Script (HTML5) java.version: 2019-06-08 00:17:46 (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:jmolAppletA (signed) Jmol getValue emulate null defaults = "Jmol" Jmol getValue boxbgcolor null Jmol getValue bgcolor #FFFFFF backgroundColor = "#FFFFFF" Jmol getValue ANIMFRAMECallback null Jmol getValue APPLETREADYCallback Jmol._readyCallback APPLETREADYCallback = "Jmol._readyCallback" StatusManager callback set for APPLETREADYCallback f=Jmol._readyCallback cb=APPLETREADY 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 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 jmolAppletA__799124567590677__ ready script 1 started FileManager.getAtomSetCollectionFromFile(https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/data/1crn.pdb) FileManager opening url https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/data/1crn.pdb The Resolver thinks Pdb PLANT SEED PROTEIN 30-APR-81 1CRN WATER STRUCTURE OF A HYDROPHOBIC PROTEIN AT ATOMIC RESOLUTION. PENTAGON RINGS OF WATER MOLECULES IN CRYSTALS OF CRAMBIN found biomolecule 1: A biomolecule 1: number of transforms: 1 Setting space group name to P 1 21 1 1CRN Time for openFile(https://chemapps.stolaf.edu/jmol/jsmol-2020.11.22/data/1crn.pdb): 67 ms reading 327 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 327 atoms created ModelSet: autobonding; use autobond=false to not generate bonds automatically Time for creating model: 59 ms PLANT SEED PROTEIN 30-APR-81 1CRN WATER STRUCTURE OF A HYDROPHOBIC PROTEIN AT ATOMIC RESOLUTION. PENTAGON RINGS OF WATER MOLECULES IN CRYSTALS OF CRAMBIN found biomolecule 1: A 1CRN spacefill (independently rotatable follower) |