# Jmol state version 12.2.33  2012-07-14 23:03;

function _setWindowState() {
# width 682;
# height 513;
  stateVersion = 1202033;
  background [x000000];
  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 zShadePower 3;
  statusReporting  = true;
}

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 0.0 0.0};
  set defaultLoadFilter "";
  set defaultLoadScript "";
  set defaultStructureDssp true;
  set defaultVDW Auto;
  set forceAutoBond false;
  #set defaultDirectory "C:/Windows/system32";
  #set loadFormat "http://www.rcsb.org/pdb/files/%FILE.pdb.gz";
  #set loadLigandFormat "http://www.rcsb.org/pdb/files/ligand/%FILE.cif";
  #set smilesUrlFormat "http://cactus.nci.nih.gov/chemical/structure/%FILE/file?format=sdf&get3d=True";
  #set nihResolverFormat "http://cactus.nci.nih.gov/chemical/structure/%FILE";
  #set edsUrlFormat "http://eds.bmc.uu.se/eds/dfs/%LC13/%LCFILE/%LCFILE.omap";
  #set edsUrlCutoff "load('http://eds.bmc.uu.se/eds/dfs/%LC13/%LCFILE/%LCFILE.sfdat').lines.find('MAP_SIGMA').split(' ')[2]";
  set legacyAutoBonding false;
  set minBondDistance 0.4;
  set minimizationCriterion  0.0010;
  set minimizationSteps  100;
  set pdbAddHydrogens false;
  set pdbGetHeader false;
  set pdbSequential false;
  set percentVdwAtom 23;
  set smallMoleculeMaxAtoms 40000;
  set smartAromatic true;
  load /*file*/"1RJL.pdb.gz";

}

function _setVariableState() {

   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 0.0 0.0}";
   set defaultloadfilter "";
   set defaultloadscript "";
   set defaulttorsionlabel "%VALUE %UNITS";
   set defaulttranslucent 0.5;
   set defaultvdw "Auto";
  set allowembeddedscripts true;
  set allowmoveatoms false;
  set allowrotateselected false;
  set appletproxy "";
  set applysymmetrytobonds false;
  set atompicking true;
  set atomtypes "";
  set autobond true;
  set autofps false;
  set axes window;
  set axesmode 0;
  set axesscale 2.0;
  set bondmodeor false;
  set bondradiusmilliangstroms 150;
  set bondtolerance 0.45;
  set cartoonbaseedges false;
  set cartoonrockets 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 drawhover false;
  set drawpicking false;
  set dsspcalculatehydrogenalways true;
  set dynamicmeasurements false;
  set ellipsoidarcs false;
  set ellipsoidaxes false;
  set ellipsoidaxisdiameter 0.02;
  set ellipsoidball true;
  set ellipsoiddotcount 200;
  set ellipsoiddots false;
  set ellipsoidfill false;
  set forceautobond false;
  set fractionalrelative 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 hidenameinpopup false;
  set hidenavigationpoint false;
  set highresolution false;
  set historylevel 0;
  set hoverdelay 0.5;
  set imagestate true;
  set iskiosk false;
  set isosurfacekey false;
  set isosurfacepropertysmoothing true;
  set isosurfacepropertysmoothingpower 7;
  set justifymeasurements false;
  set loadatomdatatolerance 0.01;
  set measureallmodels false;
  set measurementlabels true;
  set messagestylechime false;
  set minbonddistance 0.4;
  set minimizationcriterion 0.0010;
  set minimizationrefresh true;
  set minimizationsilent false;
  set minimizationsteps 100;
  set minpixelselradius 6;
  set monitorenergy false;
  set multiplebondradiusfactor 0.0;
  set multiplebondspacing -1.0;
  set navigatesurface false;
  set navigationperiodic false;
  set navigationspeed 5.0;
  set partialdots false;
  set pdbaddhydrogens false;
  set pdbgetheader false;
  set pdbsequential false;
  set percentvdwatom 23;
  set pickingspinrate 10;
  set picklabel "";
  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 saveproteinstructurestate true;
  set selectallmodels true;
  set selecthetero true;
  set selecthydrogen true;
  set sheetsmoothing 1.0;
  set showhiddenselectionhalos false;
  set showhydrogens true;
  set showkeystrokes true;
  set showmeasurements true;
  set showmultiplebonds true;
  set shownavigationpointalways false;
  set slabbyatom false;
  set slabbymolecule false;
  set smallmoleculemaxatoms 40000;
  set smartaromatic true;
  set solventprobe false;
  set solventproberadius 1.2;
  set ssbondsbackbone false;
  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 testflag1 false;
  set testflag2 false;
  set testflag3 false;
  set testflag4 false;
  set tracealpha true;
  set usearcball false;
  set useminimizationthread true;
  set usenumberlocalization true;
  set vectorscale 1.0;
  set vibrationscale 0.5;
  set waitformoveto true;
  set wireframerotation false;
  set zdepth 0;
  set zoomlarge true;
  set zslab 50;

# label defaults;
  select none;
  color label none;
  background label none;
  set labelOffset 4 4;
  set labelAlignment left;
  set labelPointer off;
  font label 13.0 SansSerif Plain;

}

function _setModelState() {
data "connect_atoms"
3296	3398	32768	2.0	0.0	struts;
3356	3504	32768	2.0	0.0	struts;
3551	3666	32768	2.0	0.0	struts;
3630	3735	32768	2.0	0.0	struts;
3710	3818	32768	2.0	0.0	struts;
3795	3914	32768	2.0	0.0	struts;
3488	3567	32768	2.0	0.0	struts;
3827	3870	32768	2.0	0.0	struts;
3336	3979	32768	2.0	0.0	struts;
3923	3971	32768	2.0	0.0	struts;
4001	3336	32768	2.0	0.0	struts;
end "connect_atoms";

  select ({3295:3687 3693:3865 3869:4017 4170:4187});
  color atoms opaque [xffff00];
  select ({0:3294 4018:4043});
  color atoms opaque structure;
  select ({3867});
  color atoms opaque [xff0000];
  select ({3692});
  color atoms opaque [x0000ff];
  select ({3688:3692 3866:3868});
  Spacefill 1.25;
  select ({0:3687 3693:3865 3869:4187});
  Spacefill 0.0;
  select ({3688:3691 3866 3868});
  color atoms opaque [x808080];
  select BONDS ({4135:4145});
  color bonds opaque [xffffff];
  select BONDS ({3779:3782 3960 3961 4135:4145});
  wireframe 1.0;
  select BONDS ({0:3778 3783:3959 3962:4134});
  wireframe 0.0;

  measures delete;
  select *; set measures nanometers;
  font measures 15.0 SansSerif Plain;

  Backbone ({3295:4007});
  Backbone 1.5;

  boundBox off;
  font boundBox 14.0 SansSerif Plain;
  boundBox off;

  unitcell off;
  font unitcell 14.0 SansSerif Plain;
  unitcell off;

  hover "%U";

  frank on;
  font frank 16.0 SansSerif Bold;
  select *;
  frame 1.1; set unitcell {0.0 0.0 0.0};
  unitcell OFF;
  set fontScaling false;

}

function _setPerspectiveState() {
  set perspectiveModel 11;
  set scaleAngstromsPerInch 0.0;
  set perspectiveDepth true;
  set visualRange 5.0;
  set cameraDepth 3.0;
  boundbox corners {34.574005 -31.323002 32.795} {99.429 32.797 138.72} # volume = 440489.38;
  center {67.0015 0.73700047 85.7575};
  moveto -1.0 {0 0 1 0} 100.0 0.0 0.0 {67.0015 0.73700047 85.7575} 58.583145 {0.0 0.0 0.0} -47.155895 0.68958426 0.0;
  save orientation "default";
  moveto 0.0 { 862 199 466 145.69} 115.0 0.0 0.0 {67.0015 0.73700047 85.7575} 58.583145 {0.0 0.0 0.0} -104.29446 13.9590435 0.0;;
  slab 100;depth 0;
  set slabRange 0.0;
  set spinX 0; set spinY 30; set spinZ 0; set spinFps 30;  set navX 0; set navY 0; set navZ 0; set navFps 10;
}

function _setSelectionState() {
  hide ({4044:4187});
  select ({3295:4017 4170:4187});
  set hideNotSelected false;
}

function _setState() {
  initialize;
  set refreshing false;
  _setWindowState;
  _setFileState;
  _setVariableState;
  _setModelState;
  _setPerspectiveState;
  _setSelectionState;
  set refreshing true;
  set antialiasDisplay false;
  set antialiasTranslucent true;
  set antialiasImages true;
}

_setState;