exit; # Jmol state version 14.9.1 2017-02-18 13:47; # fullName = "jmolApplet0__402366554893638__"; # documentBase = "http://proteopedia.org/wiki/index.php?title=Alpha_helix&action=edit§ion=1"; # codeBase = "http:/wiki/extensions/jsmol/j2s/"; function _setWindowState() { # width 350; # height 350; stateVersion = 1409001; background [xffffff]; axis1Color = "[xff0000]"; axis2Color = "[x008000]"; axis3Color = "[x0000ff]"; set ambientPercent 45; set diffusePercent 84; set specular true; set specularPercent 22; set specularPower 40; set specularExponent 6; set celShading false; set celShadingPower 10; set zShadePower 3; } function _setFileState() { set allowEmbeddedScripts false; set appendNew true; set appletProxy ""; set applySymmetryToBonds false; set autoBond true; set bondRadiusMilliAngstroms 150; set bondTolerance 0.45; set defaultLattice {0 0 0}; set defaultLoadFilter ""; set defaultLoadScript ""; set defaultStructureDssp true; set defaultVDW Jmol; set forceAutoBond false; # set defaultDirectory ""; # set loadFormat "https://files.rcsb.org/download/%FILE.pdb"; # set loadLigandFormat "https://files.rcsb.org/ligands/download/%FILE.cif"; # set smilesUrlFormat "https://cactus.nci.nih.gov/chemical/structure/%FILE/file?format=sdf&get3d=true"; # set nihResolverFormat "https://cactus.nci.nih.gov/chemical/structure/%FILE"; # set pubChemFormat "https://pubchem.ncbi.nlm.nih.gov/rest/pug/compound/%FILE/SDF?record_type=3d"; # set edsUrlFormat "http://eds.bmc.uu.se/eds/dfs/ยร/%file/%file.omap"; # set edsUrlFormatDiff "http://eds.bmc.uu.se/eds/dfs/ยร/%file/%file_diff.omap"; # set edsUrlCutoff "http://eds.bmc.uu.se/eds/dfs/ยร/%file/%file.sfdat"; set bondingVersion 0; set legacyAutoBonding false; set legacyHAddition false; set legacyJavaFloat false; set minBondDistance 0.4; set minimizationCriterion 0.001; set minimizationSteps 100; set multipleBondBananas false; set pdbAddHydrogens false; set pdbGetHeader false; set pdbSequential false; set percentVdwAtom 23; set smallMoleculeMaxAtoms 40000; set smartAromatic true; reloadfile = false; if (loadedfileprev != "edfb4ce39cfe73bccb63eb7f6261b144"); load /*file*/"/cgi-bin/getfrozenstructure?edfb4ce39cfe73bccb63eb7f6261b144"; loadedfileprev = "edfb4ce39cfe73bccb63eb7f6261b144"; reloadfile = true; endif; } function _setDefinedState() { connect ({233}) ({1106}) delete; connect ({241}) ({1114}) delete; connect ({262}) ({228}) delete; connect ({270}) ({236}) delete; connect ({277}) ({244}) delete; connect ({285}) ({256}) delete; connect ({290}) ({265}) delete; connect ({299}) ({273}) delete; connect ({299}) ({280}) delete; connect ({306}) ({280}) delete; connect ({315}) ({288}) delete; connect ({331}) ({302}) delete; connect ({339}) ({309}) delete; connect ({347}) ({318}) delete; connect ({355}) ({327}) delete; connect ({364}) ({334}) delete; connect ({373}) ({342}) delete; connect ({381}) ({350}) delete; connect ({390}) ({358}) delete; } function _setParameterState() { set defaultanglelabel "%VALUE %UNITS"; set defaultcolorscheme "jmol"; set defaultdistancelabel "%VALUE %UNITS"; set defaultdrawarrowscale 0.5; set defaultlabelpdb "%m%r"; set defaultlabelxyz "%a"; set defaultlattice "{0 0 0}"; set defaultloadfilter ""; set defaultloadscript ""; set defaulttorsionlabel "%VALUE %UNITS"; set defaulttranslucent 0.5; set defaultvdw "Jmol"; set allowembeddedscripts true; set allowmoveatoms false; set allowrotateselected false; set animationmode "once"; set appletproxy ""; set applysymmetrytobonds false; set atomtypes ""; set autobond true; set autofps false; set axes window; set axesmode 0; set axesoffset 0.0; set axesscale 2.0; set backbonesteps false; set bondmodeor false; set bondradiusmilliangstroms 150; set bondtolerance 0.45; set cartoonbaseedges false; set cartoonfancy false; set cartoonladders false; set cartoonrockets false; set cartoonsfancy false; set chaincasesensitive false; set dataseparator "~~~"; set defaultstructuredssp true; set delaymaximumms 0; set dipolescale 1.0; set disablepopupmenu false; set displaycellparameters true; set dotdensity 3; set dotscale 1; set dotsselectedonly false; set dotsurface true; set dragselected false; set drawfontsize 14.0; set drawhover false; set dsspcalculatehydrogenalways true; set edsurlformatdiff "http://eds.bmc.uu.se/eds/dfs/\ufffd\ufffd/%file/%file_diff.omap"; set ellipsoidarcs false; set ellipsoidarrows false; set ellipsoidaxes false; set ellipsoidaxisdiameter 0.02; set ellipsoidball true; set ellipsoiddotcount 200; set ellipsoiddots false; set ellipsoidfill false; set energyunits "kJ"; set forceautobond false; set gestureswipefactor 1.0; set greyscalerendering false; set hbondsangleminimum 90.0; set hbondsbackbone false; set hbondsdistancemaximum 3.25; set hbondsrasmol true; set hbondssolid false; set helixstep 1; set helppath "http://chemapps.stolaf.edu/jmol/docs/index.htm"; set hermitelevel 0; set hiddenlinesdashed false; set hidenameinpopup false; set hidenavigationpoint false; set highresolution false; set hoverdelay 0.5; set isosurfacekey false; set isosurfacepropertysmoothing true; set isosurfacepropertysmoothingpower 7; set justifymeasurements false; set loadatomdatatolerance 0.01; set measureallmodels false; set measurementlabels true; set meshscale 1; set messagestylechime false; set minbonddistance 0.4; set minimizationcriterion 0.001; set minimizationrefresh true; set minimizationsilent false; set minimizationsteps 100; set minpixelselradius 6; set modulationscale 1.0; set monitorenergy false; set multiplebondbananas false; set multiplebondradiusfactor 0.0; set multiplebondspacing -1.0; set navigationperiodic false; set navigationspeed 5.0; set nbocharges true; set nmrpredictformat "http://www.nmrdb.org/service/predictor?POST?molfile="; set nmrurlformat "http://www.nmrdb.org/new_predictor?POST?molfile="; set partialdots false; set particleradius 20.0; set pdbaddhydrogens false; set pdbgetheader false; set pdbsequential false; set percentvdwatom 23; set pickingspinrate 10; set pointgroupdistancetolerance 0.2; set pointgrouplineartolerance 8.0; set propertyatomnumbercolumncount 0; set propertyatomnumberfield 0; set propertycolorscheme "roygb"; set propertydatacolumncount 0; set propertydatafield 0; set quaternionframe "p"; set rangeselected false; set ribbonaspectratio 16; set ribbonborder false; set rocketbarrels false; set selecthetero true; set selecthydrogen true; set sheetsmoothing 1.0; set showhiddenselectionhalos false; set showhydrogens true; set showmeasurements true; set showmodulationvectors false; set showmultiplebonds true; set shownavigationpointalways false; set showunitcelldetails true; set slabbyatom false; set slabbymolecule false; set smallmoleculemaxatoms 40000; set smartaromatic true; set solventprobe false; set solventproberadius 1.2; set ssbondsbackbone true; set starwidth 0.05; set stereodegrees -5.0; set strandcountformeshribbon 7; set strandcountforstrands 5; set strutdefaultradius 0.3; set strutlengthmaximum 7.0; set strutsmultiple false; set strutspacing 6; set tracealpha true; set translucent true; set twistedsheets false; set usenumberlocalization true; set vectorscale 1.0; set vectorscentered false; set vectorsymmetry false; set vectortrail 0; set vibrationscale 1.0; set waitformoveto true; set wireframerotation false; set zdepth 0; set zoomheight false; set zoomlarge true; set zslab 50; # user-defined atom sets; @~anomalous_atoms ({}); @~backbone_invisible ({}); @~hydroxy_unchained_nucs ({}); @~nobackbone_aas ({}); @~nophosphorus_nucs ({}); @~protein ({0:1258}); @~unbondable_aas ({}); @~unchained_aas ({}); @~unchained_nucs ({}); } function _setModelState() { calculate hbonds; select all; wireframe off; spacefill off; dots off; backbone off; trace off; ribbon off; cartoon off; strands off; rocket off; meshribbon off; isosurface off; halos off; color cpk; hbonds off; data "connect_atoms" 693 670 8192 0.0 -1.708 hbond; 701 670 10240 0.0 -0.953 hbond; 701 677 8192 0.0 -0.649 hbond; 707 677 10240 0.0 -2.052 hbond; 714 685 10240 0.0 -2.039 hbond; 723 696 10240 0.0 -2.322 hbond; 732 704 10240 0.0 -2.087 hbond; 737 710 10240 0.0 -1.779 hbond; 745 717 10240 0.0 -2.366 hbond; 754 726 10240 0.0 -2.459 hbond; 765 735 10240 0.0 -1.461 hbond; 777 740 10240 0.0 -3.186 hbond; 788 748 10240 0.0 -3.126 hbond; 793 757 10240 0.0 -1.11 hbond; 802 780 8192 0.0 -2.204 hbond; 822 805 8192 0.0 -0.781 hbond; 891 857 10240 0.0 -2.132 hbond; 899 865 10240 0.0 -2.256 hbond; 906 873 10240 0.0 -2.576 hbond; 914 885 10240 0.0 -1.795 hbond; 919 894 10240 0.0 -1.122 hbond; 928 902 10240 0.0 -0.92 hbond; 935 909 10240 0.0 -3.155 hbond; 944 917 10240 0.0 -1.47 hbond; 960 931 10240 0.0 -1.702 hbond; 968 938 10240 0.0 -2.848 hbond; 976 947 10240 0.0 -2.306 hbond; 984 956 10240 0.0 -3.133 hbond; 992 963 10240 0.0 -2.392 hbond; 999 971 10240 0.0 -2.147 hbond; 1007 979 10240 0.0 -1.866 hbond; 1016 987 10240 0.0 -2.309 hbond; 1028 995 10240 0.0 -2.777 hbond; 1035 1010 8192 0.0 -1.387 hbond; 1046 1002 12288 0.0 -3.851 hbond; 1050 1031 8192 0.0 -1.603 hbond; 1058 1049 6144 0.0 -0.855 hbond; 1085 1053 10240 0.0 -1.971 hbond; 1090 1061 10240 0.0 -2.359 hbond; 1095 1070 10240 0.0 -2.408 hbond; 1103 1077 10240 0.0 -2.061 hbond; 1111 1088 10240 0.0 -1.952 hbond; 1121 1093 10240 0.0 -1.407 hbond; 1125 1093 12288 0.0 -2.048 hbond; 1163 1136 10240 0.0 -2.008 hbond; 1171 1144 10240 0.0 -2.152 hbond; 1182 1155 10240 0.0 -2.428 hbond; 1191 1159 10240 0.0 -2.298 hbond; 1200 1166 10240 0.0 -2.34 hbond; 1208 1174 10240 0.0 -2.693 hbond; 1217 1185 10240 0.0 -2.396 hbond; 1226 1194 10240 0.0 -1.553 hbond; 1238 1211 8192 0.0 -2.478 hbond; 1242 1203 12288 0.0 -3.545 hbond; 1250 1203 4096 0.0 -1.243 hbond; 655 665 4096 0.0 -3.111 hbond; 674 643 4096 0.0 -3.54 hbond; 75 44 10240 0.0 -0.805 hbond; 75 51 8192 0.0 -0.667 hbond; 81 51 10240 0.0 -1.61 hbond; 88 59 10240 0.0 -2.149 hbond; 97 70 10240 0.0 -1.802 hbond; 106 78 10240 0.0 -2.522 hbond; 111 84 10240 0.0 -2.204 hbond; 119 91 10240 0.0 -2.07 hbond; 128 100 10240 0.0 -2.354 hbond; 136 109 10240 0.0 -1.792 hbond; 148 114 10240 0.0 -2.854 hbond; 159 122 10240 0.0 -1.705 hbond; 164 139 8192 0.0 -1.405 hbond; 164 131 10240 0.0 -0.524 hbond; 173 151 8192 0.0 -1.376 hbond; 193 176 8192 0.0 -0.511 hbond; 402 367 10240 0.0 -2.337 hbond; 409 384 8192 0.0 -1.207 hbond; 420 376 12288 0.0 -3.365 hbond; 424 405 8192 0.0 -1.294 hbond; 432 423 6144 0.0 -0.827 hbond; 459 427 10240 0.0 -1.851 hbond; 464 435 10240 0.0 -2.368 hbond; 469 444 10240 0.0 -2.237 hbond; 477 451 10240 0.0 -2.222 hbond; 485 462 10240 0.0 -1.455 hbond; 495 467 10240 0.0 -1.488 hbond; 499 467 12288 0.0 -1.851 hbond; 537 510 10240 0.0 -2.449 hbond; 545 518 10240 0.0 -2.529 hbond; 556 529 10240 0.0 -1.995 hbond; 565 533 10240 0.0 -2.26 hbond; 574 540 10240 0.0 -2.267 hbond; 582 548 10240 0.0 -2.103 hbond; 591 559 10240 0.0 -2.264 hbond; 601 568 10240 0.0 -1.59 hbond; 613 585 8192 0.0 -2.265 hbond; 617 577 12288 0.0 -3.394 hbond; 862 480 4096 0.0 -2.159 hbond; 870 488 4096 0.0 -1.301 hbond; 20 39 4096 0.0 -2.567 hbond; 36 23 4096 0.0 -1.835 hbond; 48 8 4096 0.0 -2.125 hbond; 270 236 10240 0.001 -2.461 hbond; 277 244 10240 0.001 -2.461 hbond; 285 256 10240 0.001 -2.525 hbond; 290 265 10240 0.001 -1.345 hbond; 299 273 10240 0.001 -0.954 hbond; 299 280 8192 0.001 -0.784 hbond; 306 280 10240 0.001 -3.549 hbond; 315 288 10240 0.001 -1.277 hbond; 331 302 10240 0.001 -1.763 hbond; 339 309 10240 0.001 -2.896 hbond; 347 318 10240 0.001 -2.321 hbond; 355 327 10240 0.001 -2.852 hbond; 364 334 10240 0.001 -2.446 hbond; 373 342 10240 0.001 -1.989 hbond; 381 350 10240 0.001 -1.868 hbond; 390 358 10240 0.001 -2.475 hbond; end "connect_atoms"; select ({325 328:330}); color atoms opaque [xadff2f]; select ({233 241 253 262 270 277 285 290 299 306 315 324 331 339 347 355 364 373 381 390}); Spacefill 0.4625; select ({236 244 256 265 273 280 288 293 302 309 318 327 334 342 350 358 367 376 384 393}); Spacefill 0.425; select ({234 235 242 243 254 255 263 264 271 272 278 279 286 287 291 292 300 301 307 308 316 317 325 326 328:330 332 333 340 341 348 349 356 357 365 366 374 375 382 383 391 392}); Spacefill 0.4875; select ({0:232 237:240 245:252 257:261 266:269 274:276 281:284 289 294:298 303:305 310:314 319:323 335:338 343:346 351:354 359:363 368:372 377:380 385:389 394:1258}); color atoms opaque chain; select ({0:232 237:240 245:252 257:261 266:269 274:276 281:284 289 294:298 303:305 310:314 319:323 335:338 343:346 351:354 359:363 368:372 377:380 385:389 394:1340}); Spacefill 0; select BONDS ({0:234 236 239:241 246:254 260:264 266 270:272 274 277 278 283:286 292 295 297:300 305:307 313:317 319 323:326 338:341 347:350 353 356:358 360 363:366 371:375 381:384 387 388 390:393 397:1368}); wireframe 0; select BONDS ({235 237 238 242:245 255:259 265 267:269 273 275 276 279:282 287:291 293 294 296 301:304 308:312 318 320:322 327:337 342:346 351 352 354 355 359 361 362 367:370 376:380 385 386 389 394:396}); wireframe 0.36; set echo off; hover "%U"; frank on; font frank 16 SansSerif Plain; select *; set fontScaling false; } function _setPerspectiveState() { if (reloadfile) { set perspectiveModel 11; } set scaleAngstromsPerInch 0; set perspectiveDepth true; set visualRange 5; set cameraDepth 3; boundbox corners {-9.247999999999998 -24.796999999999997 0.9600000000000009} {29.217 22.97 52.62} # volume = 94917.89645729997; if (reloadfile) { center {7.771750000000001 -0.44618749999999996 21.6701875}; } # removed moveto -1.0 {0 0 1 0} 100.0 0.0 0.0 {9.9845 -0.9135000000000009 26.79} 31.293095791079377 {0 0 0} 0 0 0 3.0 0.0 0.0; # removed save orientation "default"; slab 100;depth 0; set slabRange 0.0; set spinX = 0; set spinY = 5; set spinZ = 0; spinFps = 20; spin axisangle {0.0 1.0 0.0} 10.0; } function _setSelectionState() { select ({325 328:330}); set hideNotSelected false; SelectionHalos OFF; } function _setState() { # initialize; select all; labels off; measurements off; set refreshing false; _setWindowState; _setFileState; _setDefinedState; _setParameterState; _setModelState; _setPerspectiveState; _setSelectionState; set refreshing true; SelectionHalos OFF; delay 1.0; moveto 1.0 { 93 -419 903 143.33} 624.71 0.0 0.0 {7.771750000000001 -0.44618749999999996 21.6701875} 34.82083725063428 {0 0 0} 0 0 0 3.0 0.0 0.0;; set refreshing true; if (antialiasDisplayFlag) { antialiasDisplay = true } else { antialiasDisplay = false } set antialiasTranslucent true; set antialiasImages true; spin on; } _setState;