OCA:4YGI

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JSmol exec jmolApplet0 start applet null

Jmol JavaScript applet jmolApplet0__776789103619372__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__776789103619372__)

vwrOptions:

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setting document base to "https://oca.weizmann.ac.il/oca-bin/ccpeek?id=4YGI"

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

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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 SYNCCallback null

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script 1 started

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antialiasDisplay = false

FileManager.getAtomSetCollectionFromFile(https://oca.weizmann.ac.il/oca-bin/sendStructure?id=4ygi)

FileManager opening url https://oca.weizmann.ac.il/oca-bin/sendStructure?id=4ygi

The Resolver thinks MMCif

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TITLE: Mechanistic insights into the recognition of 5-methylcytosine oxidation derivatives by the SUVH5 SRA domain

Setting space group name to HM:P 42 21 2

5HC = 2'-deoxy-5-(hydroxymethyl)cytidine 5'-(dihydrogen phosphate)

HOH = WATER

MG = MAGNESIUM ION

4YGI

biomolecule 1 operators 1,2 ASYM_IDs A,B,C,D,E,F,G

found biomolecule 1: A,B,C,D,E,F,G

assembly operator 1 x,y,z

assembly operator 2 y,x,-z

260 bonds added

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=4ygi): 4932 ms

reading 1356 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

1356 atoms created

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

Time for creating model: 59 ms

TITLE: Mechanistic insights into the recognition of 5-methylcytosine oxidation derivatives by the SUVH5 SRA domain

5HC = 2'-deoxy-5-(hydroxymethyl)cytidine 5'-(dihydrogen phosphate)

HOH = WATER

MG = MAGNESIUM ION

4YGI

found biomolecule 1: A,B,C,D,E,F,G

260 bonds added

Precision set to 4; packing set to 0.02

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Script completed

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