loading... /abysis/webdata/jsmol/j2s/core/package.js
loading... /abysis/webdata/jsmol/j2s/core/core.z.js -- required by ClazzNode
Jmol JavaScript applet myJmol__712710202442798__ initializing
Jmol getValue debug null
Jmol getValue logLevel null
Jmol getValue allowjavascript true
AppletRegistry.checkIn(myJmol__712710202442798__)
vwrOptions:
{ "name":"myJmol","allowJavascript":true,"applet":true,"documentBase":"http://abysis.org/abysis/sequence_input/key_annotation/key_annotation.cgi?chain_id=10255&focus=structure","platform":"J.awtjs2d.Platform","fullName":"myJmol__712710202442798__","codePath":"http://abysis.org/abysis/sequence_input/key_annotation//abysis/webdata/jsmol/j2s/","display":"myJmol_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"712710202442798","bgcolor":"#FFFFFF" }
setting document base to "http://abysis.org/abysis/sequence_input/key_annotation/key_annotation.cgi?chain_id=10255&focus=structure"
(C) 2012 Jmol Development
Jmol Version: 14.0.13 2014-04-01 23:19
java.vendor: Java2Script (HTML5)
java.version: JSmol 14.1.11 Mar 1, 2014
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:myJmol (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"
Jmol getValue ATOMMOVEDCallback null
Jmol getValue CLICKCallback null
Jmol getValue ECHOCallback null
Jmol getValue ERRORCallback null
Jmol getValue EVALCallback null
Jmol getValue HOVERCallback null
Jmol getValue LOADSTRUCTCallback null
Jmol getValue MEASURECallback null
Jmol getValue MESSAGECallback null
Jmol getValue MINIMIZATIONCallback 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 myJmol__712710202442798__ ready
loading... /abysis/webdata/jsmol/j2s/core/corescript.z.js
script 1 started
FileManager.getAtomSetCollectionFromFile(/abysis/webdata/jsmol/models/1baf_L_1baf_H.pdb)
FileManager opening 1 http://abysis.org/abysis/webdata/jsmol/models/1baf_L_1baf_H.pdb
The Resolver thinks Pdb
loading... /abysis/webdata/jsmol/j2s/core/corebio.z.js
loading... /abysis/webdata/jsmol/j2s/J/render/MeshRenderer.js -- required by J.renderbio.BioShapeRenderer
loading... /abysis/webdata/jsmol/j2s/J/shape/Mesh.js
abYsis extract from PDB 1baf
2.9 A RESOLUTION STRUCTURE OF AN ANTI-DINITROPHENYL-SPIN-LABEL MONOCLONAL ANTIBODY FAB FRAGMENT WITH BOUND HAPTEN.
Time for openFile(/abysis/webdata/jsmol/models/1baf_L_1baf_H.pdb): 876 ms
reading 4054 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
4054 atoms created
ModelSet: autobonding; use autobond=false to not generate bonds automatically
Jmol 14.0.13 2014-04-01 23:19 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 for our purposes. At this point in time, we make no guarantee
that this code gives precisely the same analysis as the code available via license
from CMBI at http://swift.cmbi.ru.nl/gv/dssp
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.
abYsis extract from PDB 1baf
2.9 A RESOLUTION STRUCTURE OF AN ANTI-DINITROPHENYL-SPIN-LABEL MONOCLONAL ANTIBODY FAB FRAGMENT WITH BOUND HAPTEN.
4054 atoms selected
2031 atoms selected
1010 atoms selected
2023 atoms selected
904 atoms selected
loading... /abysis/webdata/jsmol/j2s/JV/StateCreator.js
loading... /abysis/webdata/jsmol/j2s/JV/JmolStateCreator.js -- required by JV.StateCreator
loading... /abysis/webdata/jsmol/j2s/J/g3d/HermiteRenderer.js
