# exclude [bng], it is a sugar used in solubilization/crystalzation restrict none background echo none set echo off hide $~memb refresh set echo movieEcho 0% 0% set echo movieEcho left font echo 14 sans bold color echo white echo Movie playing... zoom 5 display all select ~chlSingle cpk 20% wireframe 0.25 color cpk moveto /* time, axisAngle */ 1.0 { -191 -214 958 143.14} /* zoom, translation */ 458.4 0.1 0.0 /* center, rotationRadius */ {29.282015 8.070629 7.064256} 80.6966 /* navigation center, translation, depth */ {0.0 0.0 0.0} 84.01256 43.67649 50.0; set echo titleEcho 0% 100% set echo titleEcho left font echo 14 sans bold color echo white echo Here is a single chlorophyll molecule.|(Compared to the one on the previous page, its tail is curled around|and its hydrogen atoms are not shown). delay 2 script jmol-echoFadeWhite.spt echo But a single chlorophyll cannot capture much light. color echo white script jmol-echoFadeWhite.spt echo Inside chloroplasts, many chlorophylls are packed together. color echo white select ~chlSingle color green moveto /* time, axisAngle */ 1.0 { -467 -555 -689 123.94} /* zoom, translation */ 82.54 0.2 0.0 /* center, rotationRadius */ {-2.3042714E-5 -1.716577E-5 -1.2028285} 50.18844 /* navigation center, translation, depth */ {0.0 0.0 0.0} 0.13982864 -1.2714958 50.0; for ( var i=601; i<615; i = i+1 ) select resno = i and :a cpk 20% wireframe 0.3 delay 0.2 select resno = i and :b cpk 20% wireframe 0.3 delay 0.2 select resno = i and :c cpk 20% wireframe 0.3 delay 0.2 end for #select chlorophyll #off2cpkSlow script jmol-echoFadeWhite.spt echo But chlorophyll alone only captures some photons.|What about the other colors of light? color echo white delay 1 script jmol-echoFadeWhite.spt echo To capture additional photons, other pigments are also packed in... color echo white script jmol-echoFadeWhite.spt echo such as carotinoids... color echo white select carotenoid wireframe 0.3 script jmol-echoFadeWhite.spt echo luteins... color echo white select luteins wireframe 0.3 script jmol-echoFadeWhite.spt echo and neoxanthins... color echo white select neoxanthin wireframe 0.3 script jmol-echoFadeWhite.spt echo which all absorb photons of other frequencies. echo Gathering light is only half the battle--|The energy must be passed along to proteins. color echo white script jmol-echoFadeWhite.spt echo Proteins are also packed into the complex. color echo white select pigments color atoms translucent -1 #fade in protein: for ( var i=14; i<231; i = i+1 ) select protein and resno = i rockets refresh end for select all color atoms opaque #delay 0.2 # #select protein #off2cpkSlow script jmol-echoFadeWhite.spt Echo Many 'islands' like this are embedded|in the membranes inside chloroplasts. color echo white moveto /* time, axisAngle */ 2.0 { -858 384 340 94.69} /* zoom, translation */ 82.54 0.3 0.0 /* center, rotationRadius */ {-2.3042714E-5 -1.716577E-5 -1.2028285} 50.18844 /* navigation center, translation, depth */ {0.0 0.0 0.0} 0.265346 -1.2893105 50.0; delay 0.2 display $~memb; cellLabels; delay 0.2 moveto /* time, axisAngle */ 1.0 { -742 308 596 62.63} /* zoom, translation */ 82.54 0.3 0.0 /* center, rotationRadius */ {-2.3042714E-5 -1.716577E-5 -1.2028285} 50.18844 /* navigation center, translation, depth */ {0.0 0.0 0.0} 0.33414713 -0.9838829 50.0; delay 0.2 moveto /* time, axisAngle */ 2.0 { -858 384 340 94.69} /* zoom, translation */ 82.54 0.3 0.0 /* center, rotationRadius */ {-2.3042714E-5 -1.716577E-5 -1.2028285} 50.18844 /* navigation center, translation, depth */ {0.0 0.0 0.0} 0.265346 -1.2893105 50.0; set echo titleEcho 0% 100% set echo titleEcho left font echo 14 sans bold color echo white script jmol-echoFadeWhite.spt Echo Only the membrane surrounding one 'island' is shown here. color echo white set echo movieEcho 0% 0% set echo movieEcho left font echo 14 sans bold color echo white echo Movie done movieDone=true