Jmol._Canvas2D (Jmol) "jmolApplet0"[x]

loadScript /oca-docs/jsmol/j2s/core/package.js

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

loadScript /oca-docs/jsmol/j2s/J/translation/PO.js

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

JSmol exec jmolApplet0 start applet null

Jmol JavaScript applet jmolApplet0__785138391930498__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__785138391930498__)

vwrOptions:

{ "appletReadyCallback":"Jmol._readyCallback","applet":true,"name":"jmolApplet0","syncId":"785138391930498","bgcolor":"#FFFFFF","signedApplet":"true","platform":"J.awtjs2d.Platform","display":"jmolApplet0_canvas2d","documentBase":"https://oca.weizmann.ac.il/oca-bin/ccpeek?id=2KB9","codePath":"https:/oca-docs/jsmol/j2s/","fullName":"jmolApplet0__785138391930498__","statusListener":"[J.appletjs.Jmol object]" }

setting document base to "https://oca.weizmann.ac.il/oca-bin/ccpeek?id=2KB9"

(C) 2015 Jmol Development

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

Jmol getValue PICKCallback null

Jmol getValue RESIZECallback null

Jmol getValue SCRIPTCallback null

Jmol getValue SELECTCallback null

Jmol getValue SERVICECallback null

Jmol getValue STRUCTUREMODIFIEDCallback null

Jmol getValue SYNCCallback 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__785138391930498__ ready

script 1 started

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

Loading, please wait ...

antialiasDisplay = false

    

FileManager.getAtomSetCollectionFromFile(https://oca.weizmann.ac.il/oca-bin/sendStructure?id=2kb9)

FileManager opening url https://oca.weizmann.ac.il/oca-bin/sendStructure?id=2kb9

The Resolver thinks MMCif

loadScript /oca-docs/jsmol/j2s/J/adapter/readers/cif/MMCifReader.js

loadScript /oca-docs/jsmol/j2s/J/adapter/readers/cif/CifReader.js

loadScript /oca-docs/jsmol/j2s/JU/CifDataParser.js

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

TITLE: Exon 6 of human JAG1 encodes a conserved structural unit

TITLE: Exon 6 of human Jagged-1 encodes an autonomously folding unit

biomolecule 1 operators 1 ASYM_IDs A

found biomolecule 1: A

2KB9

4 bonds added

Time for openFile(https://oca.weizmann.ac.il/oca-bin/sendStructure?id=2kb9): 2924 ms

reading 13100 atoms

ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false

20 models in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.

Default Van der Waals type for model set to Babel

13100 atoms created

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

Jmol 16.2.17 2024-06-07 15:31 DSSP analysis for model 1.1 - 2KB9

    

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.

    

Jmol 16.2.17 2024-06-07 15:31 DSSP analysis for model 1.2 - 2KB9

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.

    

Jmol 16.2.17 2024-06-07 15:31 DSSP analysis for model 1.3 - 2KB9

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.

    

Jmol 16.2.17 2024-06-07 15:31 DSSP analysis for model 1.4 - 2KB9

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.

    

Jmol 16.2.17 2024-06-07 15:31 DSSP analysis for model 1.5 - 2KB9

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.

    

Jmol 16.2.17 2024-06-07 15:31 DSSP analysis for model 1.6 - 2KB9

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.

    

Jmol 16.2.17 2024-06-07 15:31 DSSP analysis for model 1.7 - 2KB9

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.

    

Jmol 16.2.17 2024-06-07 15:31 DSSP analysis for model 1.8 - 2KB9

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.

    

Jmol 16.2.17 2024-06-07 15:31 DSSP analysis for model 1.9 - 2KB9

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.

    

Jmol 16.2.17 2024-06-07 15:31 DSSP analysis for model 1.10 - 2KB9

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.

    

Jmol 16.2.17 2024-06-07 15:31 DSSP analysis for model 1.11 - 2KB9

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.

    

Jmol 16.2.17 2024-06-07 15:31 DSSP analysis for model 1.12 - 2KB9

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.

    

Jmol 16.2.17 2024-06-07 15:31 DSSP analysis for model 1.13 - 2KB9

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.

    

Jmol 16.2.17 2024-06-07 15:31 DSSP analysis for model 1.14 - 2KB9

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.

    

Jmol 16.2.17 2024-06-07 15:31 DSSP analysis for model 1.15 - 2KB9

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.

    

Jmol 16.2.17 2024-06-07 15:31 DSSP analysis for model 1.16 - 2KB9

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.

    

Jmol 16.2.17 2024-06-07 15:31 DSSP analysis for model 1.17 - 2KB9

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.

    

Jmol 16.2.17 2024-06-07 15:31 DSSP analysis for model 1.18 - 2KB9

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.

    

Jmol 16.2.17 2024-06-07 15:31 DSSP analysis for model 1.19 - 2KB9

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.

    

Jmol 16.2.17 2024-06-07 15:31 DSSP analysis for model 1.20 - 2KB9

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: 311 ms

TITLE: Exon 6 of human JAG1 encodes a conserved structural unit

TITLE: Exon 6 of human Jagged-1 encodes an autonomously folding unit

found biomolecule 1: A

2KB9

4 bonds added

    

20 models

    

loadScript /oca-docs/jsmol/j2s/J/thread/SpinThread.js

Script completed

Jmol script terminated

This OCA Structure page
uses Jmol, developed by the Jmol Development Team (documentation).