loadScript /jsmol/jsmol_14.29.46/j2s/core/package.js
loadScript /jsmol/jsmol_14.29.46/j2s/core/corejmol.z.js
loadScript /jsmol/jsmol_14.29.46/j2s/J/translation/PO.js
loadScript /jsmol/jsmol_14.29.46/j2s/core/corescript.z.js
JSmol exec jmolApplet0 start applet null
Jmol JavaScript applet jmolApplet0__961944699323476__ initializing
Jmol getValue debug null
Jmol getValue logLevel null
Jmol getValue allowjavascript null
AppletRegistry.checkIn(jmolApplet0__961944699323476__)
vwrOptions:
{ "name":"jmolApplet0","applet":true,"documentBase":"https://bmrb.io/data_library/summary/index.php?bmrbId=17896","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__961944699323476__","codePath":"https:/jsmol/jsmol_14.29.46/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"961944699323476","bgcolor":"white" }
setting document base to "https://bmrb.io/data_library/summary/index.php?bmrbId=17896"
(C) 2015 Jmol Development
Jmol Version: 14.29.46
java.vendor: Java2Script (HTML5)
java.version: $Date$
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 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 jmolApplet0__961944699323476__ ready
script 1 started
FileManager.getAtomSetCollectionFromFile(https://bmrb.io/data_library/summary/special/get_rep_pdb.php?pdb=2lyj)
FileManager opening url https://bmrb.io/data_library/summary/special/get_rep_pdb.php?pdb=2lyj
The Resolver thinks Pdb
loadScript /jsmol/jsmol_14.29.46/j2s/core/corebio.z.js
Time for openFile(https://bmrb.io/data_library/summary/special/get_rep_pdb.php?pdb=2lyj): 1128 ms
reading 2234 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
2234 atoms created
ModelSet: autobonding; use autobond=false to not generate bonds automatically
Jmol 14.29.46 DSSP analysis for model 1.1 - null
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.
NOTE: Backbone amide hydrogen positions are present and will be ignored. Their positions will be approximated, as in standard DSSP analysis.
Use SET dsspCalculateHydrogenAlways FALSE to not use this approximation.
Time for creating model: 122 ms
Script completed
Jmol script terminated
script 2 started
FileManager.getAtomSetCollectionFromFile(https://bmrb.io/data_library/summary/special/get_rep_pdb.php?pdb=2lyk)
FileManager opening url https://bmrb.io/data_library/summary/special/get_rep_pdb.php?pdb=2lyk
The Resolver thinks Pdb
Time for openFile(https://bmrb.io/data_library/summary/special/get_rep_pdb.php?pdb=2lyk): 312 ms
reading 2234 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 models in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Babel
2234 atoms created
ModelSet: autobonding; use autobond=false to not generate bonds automatically
Jmol 14.29.46 DSSP analysis for model 2.1 - null
NOTE: Backbone amide hydrogen positions are present and will be ignored. Their positions will be approximated, as in standard DSSP analysis.
Use SET dsspCalculateHydrogenAlways FALSE to not use this approximation.
Time for creating model: 117 ms
2 models
Script completed
Jmol script terminated
script 3 started
FileManager.getAtomSetCollectionFromFile(https://bmrb.io/data_library/summary/special/get_rep_pdb.php?pdb=2lyl)
FileManager opening url https://bmrb.io/data_library/summary/special/get_rep_pdb.php?pdb=2lyl
The Resolver thinks Pdb
Time for openFile(https://bmrb.io/data_library/summary/special/get_rep_pdb.php?pdb=2lyl): 652 ms
reading 2234 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 models in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Babel
2234 atoms created
ModelSet: autobonding; use autobond=false to not generate bonds automatically
Jmol 14.29.46 DSSP analysis for model 3.1 - null
NOTE: Backbone amide hydrogen positions are present and will be ignored. Their positions will be approximated, as in standard DSSP analysis.
Use SET dsspCalculateHydrogenAlways FALSE to not use this approximation.
Time for creating model: 78 ms
3 models
Script completed
Jmol script terminated
script 4 started
FileManager.getAtomSetCollectionFromFile(https://bmrb.io/data_library/summary/special/get_rep_pdb.php?pdb=2lyp)
FileManager opening url https://bmrb.io/data_library/summary/special/get_rep_pdb.php?pdb=2lyp
The Resolver thinks Pdb
Time for openFile(https://bmrb.io/data_library/summary/special/get_rep_pdb.php?pdb=2lyp): 825 ms
reading 1117 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 models in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Babel
1117 atoms created
ModelSet: autobonding; use autobond=false to not generate bonds automatically
Jmol 14.29.46 DSSP analysis for model 4.1 - null
NOTE: Backbone amide hydrogen positions are present and will be ignored. Their positions will be approximated, as in standard DSSP analysis.
Use SET dsspCalculateHydrogenAlways FALSE to not use this approximation.
Time for creating model: 41 ms
4 models
Script completed
Jmol script terminated
script 5 started
FileManager.getAtomSetCollectionFromFile(https://bmrb.io/data_library/summary/special/get_rep_pdb.php?pdb=2lyq)
FileManager opening url https://bmrb.io/data_library/summary/special/get_rep_pdb.php?pdb=2lyq
The Resolver thinks Pdb
Time for openFile(https://bmrb.io/data_library/summary/special/get_rep_pdb.php?pdb=2lyq): 319 ms
reading 1117 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 models in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Babel
1117 atoms created
ModelSet: autobonding; use autobond=false to not generate bonds automatically
Jmol 14.29.46 DSSP analysis for model 5.1 - null
NOTE: Backbone amide hydrogen positions are present and will be ignored. Their positions will be approximated, as in standard DSSP analysis.
Use SET dsspCalculateHydrogenAlways FALSE to not use this approximation.
Time for creating model: 52 ms
5 models
Script completed
Jmol script terminated
script 6 started
FileManager.getAtomSetCollectionFromFile(https://bmrb.io/data_library/summary/special/get_rep_pdb.php?pdb=2lyr)
FileManager opening url https://bmrb.io/data_library/summary/special/get_rep_pdb.php?pdb=2lyr
The Resolver thinks Pdb
Time for openFile(https://bmrb.io/data_library/summary/special/get_rep_pdb.php?pdb=2lyr): 618 ms
reading 1117 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 models in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Babel
1117 atoms created
ModelSet: autobonding; use autobond=false to not generate bonds automatically
Jmol 14.29.46 DSSP analysis for model 6.1 - null
NOTE: Backbone amide hydrogen positions are present and will be ignored. Their positions will be approximated, as in standard DSSP analysis.
Use SET dsspCalculateHydrogenAlways FALSE to not use this approximation.
Time for creating model: 37 ms
6 models
Script completed
Jmol script terminated
script 7 started
FileManager.getAtomSetCollectionFromFile(https://bmrb.io/data_library/summary/special/get_rep_pdb.php?pdb=2lys)
FileManager opening url https://bmrb.io/data_library/summary/special/get_rep_pdb.php?pdb=2lys
The Resolver thinks Pdb
Time for openFile(https://bmrb.io/data_library/summary/special/get_rep_pdb.php?pdb=2lys): 785 ms
reading 1117 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 models in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Babel
1117 atoms created
ModelSet: autobonding; use autobond=false to not generate bonds automatically
Jmol 14.29.46 DSSP analysis for model 7.1 - null
NOTE: Backbone amide hydrogen positions are present and will be ignored. Their positions will be approximated, as in standard DSSP analysis.
Use SET dsspCalculateHydrogenAlways FALSE to not use this approximation.
Time for creating model: 42 ms
7 models
Script completed
Jmol script terminated
