OCA:1S8J

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JSmol exec jmolApplet0 start applet null

Jmol JavaScript applet jmolApplet0__210047821792847__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__210047821792847__)

vwrOptions:

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setting document base to "https://oca.weizmann.ac.il/oca-bin/ccpeek?id=1S8J"

Jmol Version: 16.2.17 2024-06-07 15:31

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 #FFFFFF

backgroundColor = "#FFFFFF"

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 null

Jmol getValue MEASURECallback null

Jmol getValue MESSAGECallback null

Jmol getValue MINIMIZATIONCallback null

Jmol getValue MODELKITCallback null

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Jmol getValue RESIZECallback null

Jmol getValue SCRIPTCallback null

Jmol getValue SELECTCallback null

Jmol getValue SERVICECallback null

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Jmol getValue SYNCCallback null

Jmol getValue doTranslate null

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Jmol applet jmolApplet0__210047821792847__ ready

script 1 started

loadScript /oca-docs/jsmol/j2s/core/coretext.z.js

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antialiasDisplay = false

FileManager.getAtomSetCollectionFromFile(https://oca.weizmann.ac.il/oca-bin/sendStructure?id=1s8j)

FileManager opening url https://oca.weizmann.ac.il/oca-bin/sendStructure?id=1s8j

The Resolver thinks MMCif

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loadScript /oca-docs/jsmol/j2s/core/corebio.z.js

TITLE: Specificity of anion binding in the substrate pocket of bacteriorhodopsin.

Setting space group name to HM:C 2 2 21

HOH = WATER

LI1 = 1-[2,6,10.14-TETRAMETHYL-HEXADECAN-16-YL]-2-[2,10,14-TRIMETHYLHEXADECAN-16-YL]GLYCEROL

NO3 = NITRATE ION

RET = RETINAL

1S8J

biomolecule 1 operators 1 ASYM_IDs A,B,C,D,E,F,G,H,I,J,K

found biomolecule 1: A,B,C,D,E,F,G,H,I,J,K

loadScript /oca-docs/jsmol/j2s/core/coresym.z.js

SpaceGroup - 0 settings generated

Precision set to 4; packing set to 0.02

Time for openFile(https://oca.weizmann.ac.il/oca-bin/sendStructure?id=1s8j): 4417 ms

reading 1791 atoms

ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false

1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.

model 1.1 alternative locations: AB

Default Van der Waals type for model set to Jmol

1791 atoms created

ModelSet: autobonding; use autobond=false to not generate bonds automatically

Time for creating model: 73 ms

TITLE: Specificity of anion binding in the substrate pocket of bacteriorhodopsin.

HOH = WATER

LI1 = 1-[2,6,10.14-TETRAMETHYL-HEXADECAN-16-YL]-2-[2,10,14-TRIMETHYLHEXADECAN-16-YL]GLYCEROL

NO3 = NITRATE ION

RET = RETINAL

1S8J

found biomolecule 1: A,B,C,D,E,F,G,H,I,J,K

Precision set to 4; packing set to 0.02

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Script completed

Jmol script terminated