loadScript jmol-14.4.3_2016.03.02/j2s/core/package.js
loadScript jmol-14.4.3_2016.03.02/j2s/core/corejmol.z.js
JSmol exec jmolApplet0 start applet null
Jmol JavaScript applet jmolApplet0__677758229917647__ initializing
Jmol getValue debug null
Jmol getValue logLevel null
Jmol getValue allowjavascript true
AppletRegistry.checkIn(jmolApplet0__677758229917647__)
vwrOptions:
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setting document base to "https://bindingdb.org/rwd/bind/surflex.jsp?HET=59A&PDB=2DC8"
(C) 2015 Jmol Development
Jmol Version: 14.4.3_2016.03.02 2016-03-02 09:52
java.vendor: Java2Script (HTML5)
java.version: 2016-03-02 13:00:37 (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)
loadScript jmol-14.4.3_2016.03.02/j2s/core/corescript.z.js
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"
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 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
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Jmol getValue loadInline null
Jmol getValue load null
Jmol applet jmolApplet0__677758229917647__ ready
script 1 started
FileManager.getAtomSetCollectionFromFile(../../data/surflex/2DC8_59A/2DC8.pdb)
FileManager opening url https://bindingdb.org/data/surflex/2DC8_59A/2DC8.pdb
The Resolver thinks Pdb
loadScript jmol-14.4.3_2016.03.02/j2s/core/corebio.z.js
HYDROLASE 31-DEC-05 XXXX
X-RAY CRYSTAL STRUCTURE ANALYSIS OF BOVINE SPLEEN CATHEPSIN B-
COMPLEX
Setting space group name to P 43 21 2
XXXX
XXXX
Time for openFile(../../data/surflex/2DC8_59A/2DC8.pdb): 648 ms
reading 2185 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
2185 atoms created
ModelSet: autobonding; use autobond=false to not generate bonds automatically
HYDROLASE 31-DEC-05 XXXX
X-RAY CRYSTAL STRUCTURE ANALYSIS OF BOVINE SPLEEN CATHEPSIN B-
COMPLEX
XXXX
XXXX
loadScript jmol-14.4.3_2016.03.02/j2s/core/corescriptmath.z.js
appendNew = true
FileManager.getAtomSetCollectionFromFile(../../data/surflex/2DC8_59A/2DC8_ligand1.mol2)
FileManager opening url https://bindingdb.org/data/surflex/2DC8_59A/2DC8_ligand1.mol2
The Resolver thinks Mol2
loadScript jmol-14.4.3_2016.03.02/j2s/J/adapter/readers/more/Mol2Reader.js
loadScript jmol-14.4.3_2016.03.02/j2s/J/adapter/readers/more/ForceFieldReader.js
2DC8_ligand1
Time for openFile(../../data/surflex/2DC8_59A/2DC8_ligand1.mol2): 444 ms
reading 39 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 Jmol
Default Van der Waals type for model set to Babel
39 atoms created
ModelSet: not autobonding; use forceAutobond=true to force automatic bond creation
2 models
FileManager.getAtomSetCollectionFromFile(../../data/surflex/2DC8_59A/2DC8-results.mol2)
FileManager opening url https://bindingdb.org/data/surflex/2DC8_59A/2DC8-results.mol2
The Resolver thinks Mol2
BindingDB_16497
Time for openFile(../../data/surflex/2DC8_59A/2DC8-results.mol2): 136 ms
reading 511 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
10 models in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
Default Van der Waals type for model set to Babel
511 atoms created
ModelSet: not autobonding; use forceAutobond=true to force automatic bond creation
12 models
2185 atoms selected
39 atoms selected
0 atoms selected
Script completed
Jmol script terminated
loadScript jmol-14.4.3_2016.03.02/j2s/J/g3d/HermiteRenderer.js